Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 301 of 433
Found at i:93997186 original size:31 final size:31
Alignment explanation
Indices: 93997151--93997261 Score: 186
Period size: 31 Copynumber: 3.6 Consensus size: 31
93997141 TTGCATTCAC
93997151 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
93997182 ATTCTAATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
93997213 ATTCTGATTTTGATTCGGTTACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
93997244 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
93997262 ATTCTAGTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:93997275 original size:18 final size:18
Alignment explanation
Indices: 93997151--93997266 Score: 94
Period size: 19 Copynumber: 6.3 Consensus size: 18
93997141 TTGCATTCAC
*
93997151 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
* *
93997169 -TTACCTGATACTGATTCTA
1 ATT--CTGATTCTGATTCTG
*
93997188 ATTTTGATTCTG-TTACCTG
1 ATTCTGATTCTGATT--CTG
* *
93997207 ATACTGATTCTGATTTTG
1 ATTCTGATTCTGATTCTG
*
93997225 ATTC-GGTTACCTGATTCTG
1 ATTCTGATT--CTGATTCTG
93997244 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
93997262 ATTCT
1 ATTCT
93997267 AGTTTTGATA
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
17 7 0.09
18 26 0.34
19 36 0.47
20 7 0.09
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:94002507 original size:18 final size:18
Alignment explanation
Indices: 94002484--94002524 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
94002474 TGTTTCTCTG
94002484 AAATTTTATAGCTTTAAA
1 AAATTTTATAGCTTTAAA
*
94002502 AAA-TTTCTAGCTTTAAA
1 AAATTTTATAGCTTTAAA
94002519 AAATTT
1 AAATTT
94002525 AATCTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (18 bp):
AAATTTTATAGCTTTAAA
Found at i:94006016 original size:20 final size:19
Alignment explanation
Indices: 94005991--94006031 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
94005981 GGAAATGGAA
94005991 AAAAGAGAGAGGGTAAGCAT
1 AAAA-AGAGAGGGTAAGCAT
94006011 -AAAAGAGAGGGTAAGCAT
1 AAAAAGAGAGGGTAAGCAT
94006029 AAA
1 AAA
94006032 GCTTCGTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.54, C:0.05, G:0.32, T:0.10
Consensus pattern (19 bp):
AAAAAGAGAGGGTAAGCAT
Found at i:94006019 original size:18 final size:18
Alignment explanation
Indices: 94005996--94006031 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94005986 TGGAAAAAAG
94005996 AGAGAGGGTAAGCATAAA
1 AGAGAGGGTAAGCATAAA
94006014 AGAGAGGGTAAGCATAAA
1 AGAGAGGGTAAGCATAAA
94006032 GCTTCGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.33, T:0.11
Consensus pattern (18 bp):
AGAGAGGGTAAGCATAAA
Found at i:94010534 original size:43 final size:44
Alignment explanation
Indices: 94010480--94010605 Score: 132
Period size: 45 Copynumber: 2.9 Consensus size: 44
94010470 ATAGAACAAC
* * *
94010480 GCCAATGTCCCAGACGTGGTCTTACATGCT-ATCTCAT-ATAGAT
1 GCCAATGTCCCAGACGTGGTCTTACACG-TAACCACATAATAGAT
* *
94010523 GCCACTGTCCCAGAC-TGGATCTTACACGTAACCACATAGATCGAT
1 GCCAATGTCCCAGACGTGG-TCTTACACGTAACCACATA-ATAGAT
* * *
94010568 GCCAATGTCCCAGATGTGGTCTTACACGAAAACACATA
1 GCCAATGTCCCAGACGTGGTCTTACACGTAACCACATA
94010606 TCAGAATCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
42 4 0.06
43 27 0.39
45 35 0.51
46 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (44 bp):
GCCAATGTCCCAGACGTGGTCTTACACGTAACCACATAATAGAT
Found at i:94014546 original size:28 final size:27
Alignment explanation
Indices: 94014470--94014547 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 27
94014460 GCAATAAGCC
* *
94014470 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTT-ATAATCAAACT
94014498 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCT-TATAATCAAACT
*
94014526 TGCACACTTAGTGCTGTATAAT
1 CGCACACTTAGTGCT-TATAAT
94014548 TTGAACCCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 44 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATCAAACT
Found at i:94019119 original size:12 final size:14
Alignment explanation
Indices: 94019100--94019132 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
94019090 ACCAAAACTG
94019100 CTTCTTTTCT-AAT
1 CTTCTTTTCTCAAT
94019113 C-TCTTTTCTCAAT
1 CTTCTTTTCTCAAT
94019126 CTTCTTT
1 CTTCTTT
94019133 GGCCAGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.44
13 5 0.28
14 5 0.28
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (14 bp):
CTTCTTTTCTCAAT
Found at i:94019590 original size:59 final size:59
Alignment explanation
Indices: 94019523--94019636 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
94019513 CTTCAAGTGC
94019523 AAGTCTAATAAAGGAAGTGATGTCTTATATGTAGTTAGTGATCAAGTGGATCGACACGT
1 AAGTCTAATAAAGGAAGTGATGTCTTATATGTAGTTAGTGATCAAGTGGATCGACACGT
* *
94019582 AAGTCTAATGAAGGAAGTGATGTCTTTTATGTAGTTAGTGATCAAGTGGATCGAC
1 AAGTCTAATAAAGGAAGTGATGTCTTATATGTAGTTAGTGATCAAGTGGATCGAC
94019637 GTATCCCCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (59 bp):
AAGTCTAATAAAGGAAGTGATGTCTTATATGTAGTTAGTGATCAAGTGGATCGACACGT
Found at i:94020624 original size:34 final size:33
Alignment explanation
Indices: 94020579--94020651 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 33
94020569 ATGCATTATG
**
94020579 GATACTGTACTG-ATATGGGTTAAGGCCCACACT
1 GATACTGTACTGTA-ATGGCCTAAGGCCCACACT
*
94020612 GTTACTGCTACTGTAATGGCCTAAGGCCCACACT
1 GATACTG-TACTGTAATGGCCTAAGGCCCACACT
94020646 GATACT
1 GATACT
94020652 ATTTTGGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 6 0.18
34 27 0.79
35 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
GATACTGTACTGTAATGGCCTAAGGCCCACACT
Found at i:94030331 original size:18 final size:19
Alignment explanation
Indices: 94030308--94030347 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
94030298 TAAAGAAGAT
* *
94030308 AAATAAAGATGA-CAATAA
1 AAATAAAAATGATAAATAA
94030326 AAATAAAAATGATAAATAA
1 AAATAAAAATGATAAATAA
94030345 AAA
1 AAA
94030348 GTTCTGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.17
Consensus pattern (19 bp):
AAATAAAAATGATAAATAA
Found at i:94036174 original size:46 final size:46
Alignment explanation
Indices: 94036121--94036296 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94036111 TATTTGGGCA
94036121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
94036167 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
94036214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
94036260 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94036297 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:94036276 original size:93 final size:93
Alignment explanation
Indices: 94036117--94036288 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94036107 GGGATATTTG
* *
94036117 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94036182 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
94036210 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94036275 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
94036289 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:94042847 original size:68 final size:67
Alignment explanation
Indices: 94042775--94042924 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
94042765 CATCATGTGT
* * * *
94042775 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
94042837 ATGTAG
62 ATGTAG
** * *
94042843 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
94042908 AG
66 AG
94042910 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
94042925 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:94042880 original size:64 final size:64
Alignment explanation
Indices: 94042799--94042982 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
94042789 AGACATTATG
* *
94042799 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
94042863 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
94042928 AA
63 AA
* * * *
94042930 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
94042983 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:94055776 original size:27 final size:28
Alignment explanation
Indices: 94055719--94055788 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
94055709 AAATTTGTAC
**
94055719 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
94055747 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
94055774 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94055789 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:94055797 original size:27 final size:27
Alignment explanation
Indices: 94055719--94055800 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
94055709 AAATTTGTAC
* *
94055719 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
94055747 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
94055774 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
94055801 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:94063701 original size:27 final size:28
Alignment explanation
Indices: 94063644--94063713 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
94063634 AAATTTGTAC
**
94063644 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
94063672 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
94063699 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94063714 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:94063722 original size:27 final size:27
Alignment explanation
Indices: 94063644--94063725 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
94063634 AAATTTGTAC
* *
94063644 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
94063672 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
94063699 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
94063726 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:94068078 original size:40 final size:40
Alignment explanation
Indices: 94067982--94068198 Score: 333
Period size: 40 Copynumber: 5.5 Consensus size: 40
94067972 TTTGTCATAC
94067982 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
94068022 T-TCCGGGCTAAGTCCCGAAGGCATTTGT-CGAGTTACTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
94068060 TAATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 T-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
94068101 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
*
94068141 TAAT--GGGCTAA-TCCCGAAGGCA-TTGAGCGAG-TAGCTA
1 T-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA
*
94068178 TATCC-GGCTAAATCCCGAAGG
1 TATCCGGGCTAAGTCCCGAAGG
94068199 TACTTGGTCT
Statistics
Matches: 168, Mismatches: 1, Indels: 18
0.90 0.01 0.10
Matches are distributed among these distances:
36 4 0.02
37 18 0.11
38 31 0.18
39 34 0.20
40 68 0.40
41 13 0.08
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
Found at i:94068094 original size:79 final size:81
Alignment explanation
Indices: 94067983--94068198 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 81
94067973 TTGTCATACT
94067983 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-TCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
94068047 TGT-CGAGTTACTATA
66 TGTGCGAGTTACTATA
94068062 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
94068127 TGTGCGAGTTACTATA
66 TGTGCGAGTTACTATA
* *
94068143 AT--GGGCTAA-TCCCGAAGGCA-TTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
94068199 TACTTGGTCT
Statistics
Matches: 132, Mismatches: 2, Indels: 9
0.92 0.01 0.06
Matches are distributed among these distances:
76 17 0.13
77 16 0.12
78 11 0.08
79 47 0.36
80 27 0.20
81 14 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:94070320 original size:28 final size:29
Alignment explanation
Indices: 94070280--94070344 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
94070270 TGGGAAGTAG
* *
94070280 TTGGGCCTGATGGGCCAT-ATGAATGTGA
1 TTGGGCCTGATGGGCCATAATGAACGAGA
*
94070308 TTGGGCTTGATGGGCCATAATGAACGAGA
1 TTGGGCCTGATGGGCCATAATGAACGAGA
94070337 TTGGGCCT
1 TTGGGCCT
94070345 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATAATGAACGAGA
Found at i:94072313 original size:40 final size:40
Alignment explanation
Indices: 94072258--94072439 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
94072248 TATTCGAATG
94072258 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
94072298 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
94072338 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
94072378 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
94072418 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
94072440 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 116 0.87
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:94080492 original size:40 final size:40
Alignment explanation
Indices: 94080422--94080601 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
94080412 TATTCGAATG
94080422 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
94080461 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
94080501 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
94080541 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
*
94080580 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
94080602 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
38 6 0.05
39 48 0.36
40 78 0.59
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:94080565 original size:79 final size:80
Alignment explanation
Indices: 94080422--94080601 Score: 296
Period size: 79 Copynumber: 2.3 Consensus size: 80
94080412 TATTCGAATG
94080422 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
*
94080486 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
*
94080501 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACTATATCCGGGCTAAG-CCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
94080565 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
*
94080580 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
94080602 TACTTGGGTT
Statistics
Matches: 96, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
78 15 0.16
79 42 0.44
80 39 0.41
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:94087705 original size:23 final size:23
Alignment explanation
Indices: 94087667--94087711 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
94087657 GTGGCGTAGA
*
94087667 TTGAAGTTGAAGATCTTTTCTCT
1 TTGAAGTTGAAGATCTTATCTCT
* *
94087690 TTGAAGTTGTATATCTTATCTC
1 TTGAAGTTGAAGATCTTATCTC
94087712 ATTAGGGTTA
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:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (23 bp):
TTGAAGTTGAAGATCTTATCTCT
Found at i:94087907 original size:255 final size:255
Alignment explanation
Indices: 94087490--94087953 Score: 633
Period size: 255 Copynumber: 1.8 Consensus size: 255
94087480 TGTAGACAGA
* * * *
94087490 AAATCTTACTTCCCTGACGTTGCAGTGGAACAAATTAAAGCTACAAATTATGACGAATCTTATTT
1 AAATCTTACTTCCCTGACGTTGCAGTGGAACAAATTAAAGCAACAAATTATGACAAATCGTATCT
** *
94087555 TTCTGAAGTTGCAGTGAAGCAGATTGAACCCACCGGCCTTATCTCCCTGAAGTTGTAGTAGAGCA
66 CCCTGAAGTTGCAGTGAAGCAGATTGAACCCACCGGCCTTATCTCCCTAAAGTTGTAGTAGAGCA
* * * ** * * * *
94087620 AACTGAAGATAGCAAATCTCATCTTAATGAAGTAGTTGTGGCGTAGATTGAAGTTGAAGATCTTT
131 AACTGAAGACAACAAATCTCATCTCAATGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTTA
*
94087685 TCTCTTTGAAGTTGTATATCTTATCTCATTAGGGTTACAGTGGAACAGATCGAAGATAGC
196 TCTCCTTGAAGTTGTATATCTTATCTCATTAGGGTTACAGTGGAACAGATCGAAGATAGC
* * * *
94087745 AAATCTTATTTCCCTGACGTTGTAGTGGAACAGATTAAAGCAACAAATTATGGCAAATCGTATCT
1 AAATCTTACTTCCCTGACGTTGCAGTGGAACAAATTAAAGCAACAAATTATGACAAATCGTATCT
* * * * * * *
94087810 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-TGAGCCTTATCTTCCTAAATTTGTAGTGGAGT
66 CCCTGAAGTTGCAGTGAAGCAGATTGAACCCACCG-GCCTTATCTCCCTAAAGTTGTAGTAGAGC
* * *
94087874 AGACTGAAGACAACAAATCTCATCTCCATGAAGTAGCAGTGGAGCAAATTGAAGTTGTAGATCTT
130 AAACTGAAGACAACAAATCTCATCTCAATGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTT
94087939 ATCTCCTTGAAGTTG
195 ATCTCCTTGAAGTTG
94087954 CAGTCGAGCA
Statistics
Matches: 177, Mismatches: 31, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
254 1 0.01
255 176 0.99
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (255 bp):
AAATCTTACTTCCCTGACGTTGCAGTGGAACAAATTAAAGCAACAAATTATGACAAATCGTATCT
CCCTGAAGTTGCAGTGAAGCAGATTGAACCCACCGGCCTTATCTCCCTAAAGTTGTAGTAGAGCA
AACTGAAGACAACAAATCTCATCTCAATGAAGTAGCAGTGGAGCAAATTGAAGTTGAAGATCTTA
TCTCCTTGAAGTTGTATATCTTATCTCATTAGGGTTACAGTGGAACAGATCGAAGATAGC
Found at i:94090067 original size:2 final size:2
Alignment explanation
Indices: 94090060--94090086 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94090050 TAATAAGATT
94090060 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
94090087 TATTATTTAC
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:94090214 original size:14 final size:13
Alignment explanation
Indices: 94090185--94090219 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
94090175 ATATTACATA
94090185 TATTTATTTTACT
1 TATTTATTTTACT
*
94090198 TATTTACTTTTATT
1 TATTTA-TTTTACT
94090212 TATTTATT
1 TATTTATT
94090220 CATTTATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTATTTTACT
Found at i:94093410 original size:2 final size:2
Alignment explanation
Indices: 94093403--94093435 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94093393 GAGACTAGTC
94093403 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94093436 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94095457 original size:30 final size:30
Alignment explanation
Indices: 94095423--94095483 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
94095413 TCCTTAACTA
94095423 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
94095453 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
94095483 A
1 A
94095484 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:94100495 original size:143 final size:143
Alignment explanation
Indices: 94100233--94100495 Score: 296
Period size: 143 Copynumber: 1.8 Consensus size: 143
94100223 ATGGCAGATT
* ** * * **
94100233 TTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGTAGTTGCAGC
1 TTATCTTCCTAAAGTTACAGTGAAGCAGACTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGC
* * * * ** *
94100298 GGAGCAGACTGAAGACAGCAAATCATACTTCCTTGATGTTGTTGTGGAATAGATTAAAGCTACAA
66 AGAGCAGACTGAAGACAGCAAATCATACTTCCCTGAAGTAGCAGTGGAACAGATTAAAGCTACAA
94100363 ATTATGGCGAATC
131 ATTATGGCGAATC
* * *
94100376 TTATCTTCCTAAAGTTACAGTGAAGTAGACTGAAGCCAGCGGCCTTATCTCCCTAAAGTTGCAGC
1 TTATCTTCCTAAAGTTACAGTGAAGCAGACTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGC
* * * * *
94100441 AGAGTAGACTGAATATAGTAAATC-T-CATCTCCCTGAAGTAGCAGTGGAGCAGATT
66 AGAGCAGACTGAAGACAGCAAATCATAC-T-TCCCTGAAGTAGCAGTGGAACAGATT
94100496 GAAGTTGTAG
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
141 1 0.01
142 2 0.02
143 93 0.97
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (143 bp):
TTATCTTCCTAAAGTTACAGTGAAGCAGACTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGC
AGAGCAGACTGAAGACAGCAAATCATACTTCCCTGAAGTAGCAGTGGAACAGATTAAAGCTACAA
ATTATGGCGAATC
Found at i:94100523 original size:23 final size:23
Alignment explanation
Indices: 94100497--94100548 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
94100487 GAGCAGATTG
94100497 AAGTTGTAGATCTTATCTCCTTA
1 AAGTTGTAGATCTTATCTCCTTA
*
94100520 AAGTTGTAGATCTTATCTCCTTG
1 AAGTTGTAGATCTTATCTCCTTA
94100543 AAGTTG
1 AAGTTG
94100549 CAGTGGAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.42
Consensus pattern (23 bp):
AAGTTGTAGATCTTATCTCCTTA
Found at i:94100705 original size:44 final size:45
Alignment explanation
Indices: 94100632--94100754 Score: 124
Period size: 45 Copynumber: 2.8 Consensus size: 45
94100622 TGGCAAATCG
* * * * * *
94100632 TATCTCCCTAAAGTTGCAGTGGAGAAGATTGAAGCCA-CGAGCCT
1 TATCCCCCTGAAGTAGCAGTGGAGAAGATTGAAGACAGCAAACCT
* * *
94100676 TATCCCCCTGAAGTTA-TAGTGGAGCAGATTGAAGACAGCAAATCT
1 TATCCCCCTGAAG-TAGCAGTGGAGAAGATTGAAGACAGCAAACCT
* *
94100721 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAG
1 TATCCCCCTGAAGTAGCAGTGGAGAAGATTGAAG
94100755 TTGTAGATCT
Statistics
Matches: 64, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
44 31 0.48
45 33 0.52
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (45 bp):
TATCCCCCTGAAGTAGCAGTGGAGAAGATTGAAGACAGCAAACCT
Found at i:94101809 original size:16 final size:17
Alignment explanation
Indices: 94101777--94101815 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
94101767 CTGTGAACAG
*
94101777 AGAAGAAAAGAAGAAAA
1 AGAACAAAAGAAGAAAA
*
94101794 ATAACAAAAG-AGAAAA
1 AGAACAAAAGAAGAAAA
94101810 AGAACA
1 AGAACA
94101816 GTAGCAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.74, C:0.05, G:0.18, T:0.03
Consensus pattern (17 bp):
AGAACAAAAGAAGAAAA
Found at i:94102026 original size:18 final size:19
Alignment explanation
Indices: 94101999--94102034 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94101989 CATTTTTTTT
94101999 TATTTCTAGTTATTTTTAC
1 TATTTCTAGTTATTTTTAC
*
94102018 TATTT-TAGTTTTTTTTA
1 TATTTCTAGTTATTTTTA
94102035 TTTTCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (19 bp):
TATTTCTAGTTATTTTTAC
Found at i:94103046 original size:14 final size:13
Alignment explanation
Indices: 94103023--94103057 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
94103013 TAATATTATA
94103023 TATTTATTTTACT
1 TATTTATTTTACT
*
94103036 TATTTACTTTTATT
1 TATTTA-TTTTACT
94103050 TATTTATT
1 TATTTATT
94103058 CATTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTTATTTTACT
Found at i:94108337 original size:19 final size:19
Alignment explanation
Indices: 94108301--94108346 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
94108291 AAAATTTTTT
*
94108301 AACAATATTTATTTTAT-AA
1 AACAA-ATTAATTTTATAAA
94108320 AACAAATTAATTTATATAAA
1 AACAAATTAATTT-TATAAA
94108340 AACAAAT
1 AACAAAT
94108347 ACATATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 8 0.33
20 9 0.38
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AACAAATTAATTTTATAAA
Found at i:94108415 original size:21 final size:20
Alignment explanation
Indices: 94108391--94108429 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94108381 AATCCTTTTA
*
94108391 TTTTCATTCTACATTTCTCGC
1 TTTTCATTC-AAATTTCTCGC
*
94108412 TTTTCTTTCAAATTTCTC
1 TTTTCATTCAAATTTCTC
94108430 ATGTTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTCATTCAAATTTCTCGC
Found at i:94109585 original size:18 final size:18
Alignment explanation
Indices: 94109562--94109597 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94109552 TCTTGTTATC
94109562 TCCGAAAGTGGTGGTTGT
1 TCCGAAAGTGGTGGTTGT
94109580 TCCGAAAGTGGTGGTTGT
1 TCCGAAAGTGGTGGTTGT
94109598 AAGAATAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.39, T:0.33
Consensus pattern (18 bp):
TCCGAAAGTGGTGGTTGT
Found at i:94114767 original size:15 final size:15
Alignment explanation
Indices: 94114728--94114778 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
94114718 ATAATACGTC
94114728 AATAAATAATT-TAAA
1 AATAAA-AATTATAAA
*
94114743 AATTATAAAAATATACAA
1 AA-TA-AAAATTATA-AA
94114761 AATAAAAATTATAAA
1 AATAAAAATTATAAA
94114776 AAT
1 AAT
94114779 TCAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 7 0.23
16 13 0.43
17 6 0.20
18 4 0.13
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAAAATTATAAA
Found at i:94114786 original size:24 final size:24
Alignment explanation
Indices: 94114739--94114789 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
94114729 ATAAATAATT
*
94114739 TAAAAATTATAAAAATATACAAAA
1 TAAAAATTATAAAAATATAAAAAA
94114763 TAAAAATTATAAAAAT-TCAAAAAA
1 TAAAAATTATAAAAATAT-AAAAAA
94114787 TAA
1 TAA
94114790 CTTGAAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (24 bp):
TAAAAATTATAAAAATATAAAAAA
Found at i:94114787 original size:9 final size:9
Alignment explanation
Indices: 94114729--94114779 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
94114719 TAATACGTCA
94114729 ATAAATAATT
1 ATAAA-AATT
94114739 -TAAAAATT
1 ATAAAAATT
94114747 ATAAAAA-T
1 ATAAAAATT
*
94114755 ATACAAA--
1 ATAAAAATT
94114762 ATAAAAATT
1 ATAAAAATT
94114771 ATAAAAATT
1 ATAAAAATT
94114780 CAAAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
7 6 0.17
8 11 0.31
9 19 0.53
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:94115312 original size:2 final size:2
Alignment explanation
Indices: 94115305--94115329 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
94115295 GTAAATACTT
94115305 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 T
94115330 CAAACATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94118781 original size:29 final size:29
Alignment explanation
Indices: 94118723--94118787 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
94118713 CACTCGTTAG
* * **
94118723 TCAACTATGAATTTTTTTTATTTGGCCAC
1 TCAACTATGAATTTTATTAAAATGGCCAC
*
94118752 TCAACTATGAATTTTATTAAAATGGTCAC
1 TCAACTATGAATTTTATTAAAATGGCCAC
94118781 TCAACTA
1 TCAACTA
94118788 ATTGGATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (29 bp):
TCAACTATGAATTTTATTAAAATGGCCAC
Found at i:94121617 original size:43 final size:42
Alignment explanation
Indices: 94121534--94121618 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
94121524 ATCCTAGAAA
***
94121534 AAAAAAGAATTTAAAAAAGGAGAAGATAATTTTTGGTTGTTG
1 AAAAAAGAATTTAAAAAAGGAGAAGATAATACATGGTTGTTG
94121576 AAAAAAGAATTTAAAAAGAGGAGAAGATAA-ACATGGATTGTTG
1 AAAAAAGAATTTAAAAA-AGGAGAAGATAATACATGG-TTGTTG
94121619 GATTTACCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 20 0.53
43 18 0.47
ACGTcount: A:0.51, C:0.01, G:0.22, T:0.26
Consensus pattern (42 bp):
AAAAAAGAATTTAAAAAAGGAGAAGATAATACATGGTTGTTG
Found at i:94124376 original size:4 final size:4
Alignment explanation
Indices: 94124369--94124394 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
94124359 CAAAACTAAA
94124369 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
94124395 CGAGCATGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:94127079 original size:6 final size:6
Alignment explanation
Indices: 94127064--94127152 Score: 80
Period size: 6 Copynumber: 15.5 Consensus size: 6
94127054 TATAATTTTG
* *
94127064 AAAAAT -AAAAT -AAAA- ACAAAT AAAAAT AAAAAT AAAAAT AAAAGT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * * *
94127109 ACAACT AAAAAT AAAAAG AAAAAT --AAAT AAAATAT AAAACT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAA
94127153 TGAGCTCAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
4 4 0.06
5 12 0.18
6 46 0.68
7 6 0.09
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:94127120 original size:30 final size:28
Alignment explanation
Indices: 94127064--94127152 Score: 101
Period size: 30 Copynumber: 3.1 Consensus size: 28
94127054 TATAATTTTG
94127064 AAAAAT-AAAATAAAAACAAATAAAAAT
1 AAAAATAAAAATAAAAACAAATAAAAAT
*
94127091 AAAAATAAAAATAAAAGTACAACTAAAAAT
1 AAAAATAAAAATAAAA--ACAAATAAAAAT
* *
94127121 AAAAAGAAAAATAAATAA-AATATAAAACT
1 AAAAATAAAAATAAA-AACAA-ATAAAAAT
94127150 AAA
1 AAA
94127153 TGAGCTCAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
27 6 0.11
28 11 0.21
29 10 0.19
30 25 0.47
31 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (28 bp):
AAAAATAAAAATAAAAACAAATAAAAAT
Found at i:94127122 original size:24 final size:22
Alignment explanation
Indices: 94127064--94127153 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
94127054 TATAATTTTG
*
94127064 AAAAAT-AAAATAAAAACAAAT
1 AAAAATAAAAATAAAAATAAAT
94127085 AAAAATAAAAATAAAAATAAAAGT
1 AAAAATAAAAATAAAAAT-AAA-T
* * *
94127109 ACAACTAAAAATAAAAAGAAA-
1 AAAAATAAAAATAAAAATAAAT
*
94127130 AATAAATAAAATATAAAACTAAAT
1 AA-AAATAAAA-ATAAAAATAAAT
94127154 GAGCTCAGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
21 7 0.13
22 17 0.31
23 15 0.27
24 16 0.29
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAAATAAAAATAAAAATAAAT
Found at i:94131421 original size:204 final size:204
Alignment explanation
Indices: 94131071--94131474 Score: 646
Period size: 204 Copynumber: 2.0 Consensus size: 204
94131061 CGTGCCATGG
* * * *
94131071 GGTGTGTGGGTTCCACGACCGTTTGGCTCCAAAAAAAATTTTATGCCCAAGTGTGCACAGGCGTG
1 GGTGTGTGGGTTACACGACCGTTTGGCTCCAAAAAAAATTTTATGCCCAAGTATACACAGGCATG
* *
94131136 TGCCCAAGCCATGTAGATGACATGGTCATATGGTCCACCCCTAACCTTGTGGTCTCTATTTTTTT
66 TGCCCAAGCCATATAGATGACATGGTCATATGGTCCACCCCTAACCATGTGGTCTCTATTTTTTT
94131201 AAGTGATAAAAATAAATGTAATAAGCGTGCAACATAATTAAATGAAAATAAAATAAAATAATATA
131 AAGTGATAAAAATAAATGTAATAAGCGTGCAACATAATTAAATGAAAATAAAATAAAATAATATA
94131266 AAAAAATGA
196 AAAAAATGA
* * * ** **
94131275 GGTGTGTGGGTTACACGGCCTTTTGGCTTCAAAAAATTTTTTATGCCCAAGTATACATGGGCATG
1 GGTGTGTGGGTTACACGACCGTTTGGCTCCAAAAAAAATTTTATGCCCAAGTATACACAGGCATG
* * * *
94131340 TGCCCAAGCCGTATAGATGACATGGTCGTGTGGTCTACCCCTAACCATGTGGTCTCTATTTTTTT
66 TGCCCAAGCCATATAGATGACATGGTCATATGGTCCACCCCTAACCATGTGGTCTCTATTTTTTT
*
94131405 AAGTGATAAAAATAAATGTAATAAGCGTGCAACATAATTAAATGAAAATAAAATAAAGTAATATA
131 AAGTGATAAAAATAAATGTAATAAGCGTGCAACATAATTAAATGAAAATAAAATAAAATAATATA
94131470 AAAAA
196 AAAAA
94131475 CATTCGGGTT
Statistics
Matches: 182, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
204 182 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (204 bp):
GGTGTGTGGGTTACACGACCGTTTGGCTCCAAAAAAAATTTTATGCCCAAGTATACACAGGCATG
TGCCCAAGCCATATAGATGACATGGTCATATGGTCCACCCCTAACCATGTGGTCTCTATTTTTTT
AAGTGATAAAAATAAATGTAATAAGCGTGCAACATAATTAAATGAAAATAAAATAAAATAATATA
AAAAAATGA
Found at i:94137663 original size:26 final size:26
Alignment explanation
Indices: 94137634--94137741 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
94137624 TGGTACAAAT
94137634 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
94137660 TGATAATGGGTTAGGTAAATGTTTCG
1 TGATAATGGGTTAGGTAAATGTTCCA
94137686 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94137712 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94137738 TGAT
1 TGAT
94137742 GAGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94142854 original size:198 final size:198
Alignment explanation
Indices: 94142497--94142859 Score: 478
Period size: 198 Copynumber: 1.8 Consensus size: 198
94142487 GACCCACATA
* * * ** * * *
94142497 GCCTGGCCACACGGGTGTCTGGAGCACACGGTCTGGCCACACGGGCTTGTGGGATCTCACATGGG
1 GCCTGGCCACACGAGTGTCTAGAGCACACGGCCTGGCCACACAAGCATATGGGATCTCACATAGG
* * **
94142562 CATGGGAGAAGCGAAGGAAAACACACAAGTCCTGGCGACATGGCTGTGTGACCCACACAGCCTGG
66 CATGGGAGAAGCGAAAGAAAACACACAAGTCCTAGCGACATGGCCATGTGACCCACACAGCCTGG
* ** * * *
94142627 ACACAAGGGCGTGTCCTAGGCCGTGTGAAACCTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTAC
131 AAACAAAAGCATGTCCTAGGCCATGTGAAAACTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTAC
94142692 ACG
196 ACG
* * *
94142695 GCCTGGCCACACGAGTGTGTATAGCACACGGCCTGGCCACACAAGCATATGGGTTCTCACATAGG
1 GCCTGGCCACACGAGTGTCTAGAGCACACGGCCTGGCCACACAAGCATATGGGATCTCACATAGG
* **
94142760 CGTGGGAGAAGCGAAAGAAAACACACACAGT-CTAGCGACATGGCCATGTGACCCACATGGCCTG
66 CATGGGAGAAGCGAAAGAAAACACACA-AGTCCTAGCGACATGGCCATGTGACCCACACAGCCTG
94142824 GAAACAAAAGCATGTCC-ATGGCCATGTGAAAACTGG
130 GAAACAAAAGCATGTCCTA-GGCCATGTGAAAACTGG
94142860 GTTAATCACC
Statistics
Matches: 139, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
197 1 0.01
198 135 0.97
199 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.29, T:0.17
Consensus pattern (198 bp):
GCCTGGCCACACGAGTGTCTAGAGCACACGGCCTGGCCACACAAGCATATGGGATCTCACATAGG
CATGGGAGAAGCGAAAGAAAACACACAAGTCCTAGCGACATGGCCATGTGACCCACACAGCCTGG
AAACAAAAGCATGTCCTAGGCCATGTGAAAACTGGAGCTAATTTTTTTCAAAGTCAGAGAGTTAC
ACG
Found at i:94142909 original size:15 final size:15
Alignment explanation
Indices: 94142886--94142958 Score: 51
Period size: 15 Copynumber: 4.8 Consensus size: 15
94142876 TTATTTTATT
94142886 TTATT-TATTATTAA
1 TTATTATATTATTAA
* *
94142900 TTGTTATATTATTCA
1 TTATTATATTATTAA
* * *
94142915 TTTTTATTTTACTAA
1 TTATTATATTATTAA
94142930 TTAATTA-ATTAATTAA
1 TT-ATTATATT-ATTAA
*
94142946 TTCTTATACTTAT
1 TTATTATA-TTAT
94142959 ATTTTTAATT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
14 4 0.09
15 26 0.59
16 12 0.27
17 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (15 bp):
TTATTATATTATTAA
Found at i:94142981 original size:20 final size:19
Alignment explanation
Indices: 94142956--94143009 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
94142946 TTCTTATACT
94142956 TATATTTTTAATTTTTTATA
1 TATATTTTT-ATTTTTTATA
*
94142976 TATATTTCTTATTTTTTATT
1 TATATTT-TTATTTTTTATA
*
94142996 TTTATTTTTATTTT
1 TATATTTTTATTTT
94143010 GCTATTTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (19 bp):
TATATTTTTATTTTTTATA
Found at i:94143003 original size:5 final size:6
Alignment explanation
Indices: 94142958--94143053 Score: 54
Period size: 6 Copynumber: 15.0 Consensus size: 6
94142948 CTTATACTTA
* *
94142958 TATTTT TAATTTTT TATATA TATTTCT TATTTTT TATTTT TATTTT TATTTT
1 TATTTT T-A-TTTT TATTTT TATTT-T TA-TTTT TATTTT TATTTT TATTTT
* *
94143010 GCTATTTC TATTTT T-TTTCT T-TTTCG TATTTT T-TTTT TACTTTT
1 --TATTTT TATTTT TATTT-T TATTT-T TATTTT TATTTT TA-TTTT
94143054 GTCATTACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
5 8 0.11
6 37 0.51
7 14 0.19
8 13 0.18
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:94143015 original size:20 final size:19
Alignment explanation
Indices: 94142958--94143046 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
94142948 CTTATACTTA
* * *
94142958 TATTTTTAATTTTTTATATA
1 TATTTTT-ATTTTCTATTTC
* *
94142978 TATTTCTTATTTTTTATTTT
1 TATTT-TTATTTTCTATTTC
94142998 TATTTTTATTTTGCTATTTC
1 TATTTTTATTTT-CTATTTC
*
94143018 TA-TTTT-TTTTCTTTTTC
1 TATTTTTATTTTCTATTTC
94143035 GTATTTTT-TTTT
1 -TATTTTTATTTT
94143047 TACTTTTGTC
Statistics
Matches: 60, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
17 6 0.10
18 6 0.10
19 19 0.32
20 27 0.45
21 2 0.03
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTTTATTTTCTATTTC
Found at i:94143026 original size:17 final size:18
Alignment explanation
Indices: 94143006--94143044 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
94142996 TTTATTTTTA
94143006 TTTTGCTATTTC-TATTT
1 TTTTGCTATTTCGTATTT
* *
94143023 TTTTTCTTTTTCGTATTT
1 TTTTGCTATTTCGTATTT
94143041 TTTT
1 TTTT
94143045 TTTACTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.08, C:0.10, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTGCTATTTCGTATTT
Found at i:94143102 original size:3 final size:3
Alignment explanation
Indices: 94143094--94143132 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
94143084 ATCATTGAGT
* *
94143094 TTA TTA TTA TTA TTA TT- TTA TTA TTA TTT TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
94143133 CTTCCTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (3 bp):
TTA
Found at i:94143115 original size:17 final size:17
Alignment explanation
Indices: 94143093--94143129 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
94143083 TATCATTGAG
94143093 TTTATTATTATTATTAT
1 TTTATTATTATTATTAT
*
94143110 TTTATTATTATTTTTAT
1 TTTATTATTATTATTAT
94143127 TTT
1 TTT
94143130 TATCTTCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTATTATTATTAT
Found at i:94143116 original size:11 final size:11
Alignment explanation
Indices: 94143094--94143123 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
94143084 ATCATTGAGT
94143094 TTATTATTATTA
1 TTATT-TTATTA
94143106 TTATTTTATTA
1 TTATTTTATTA
94143117 TTATTTT
1 TTATTTT
94143124 TATTTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:94155392 original size:30 final size:30
Alignment explanation
Indices: 94155356--94155414 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
94155346 AGTTTTCAAG
* *
94155356 ATCCATACGGGCTGGGCACACGCCCATGTA
1 ATCCATACGGGCAGGCCACACGCCCATGTA
*
94155386 ATCCATACGGGCAGGCCACATGCCCATGT
1 ATCCATACGGGCAGGCCACACGCCCATGT
94155415 GCCAAGCCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.34, G:0.25, T:0.17
Consensus pattern (30 bp):
ATCCATACGGGCAGGCCACACGCCCATGTA
Found at i:94156521 original size:72 final size:72
Alignment explanation
Indices: 94156436--94156579 Score: 198
Period size: 72 Copynumber: 2.0 Consensus size: 72
94156426 AAGGAAAGTT
* ** * ** *
94156436 AATATGTAATTGTTTAAAAAGTTTAAGAAATTTGTCAAATTGTTCATCCGTGTGGTCTTTCTTAA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATACGATCTTTCTTAA
94156501 ACTTTGC
66 ACTTTGC
* * *
94156508 AATATTTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCGTCCATACGATCTTTCTTCA
1 AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATACGATCTTTCTTAA
94156573 ACTTTGC
66 ACTTTGC
94156580 CGGATATGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (72 bp):
AATATGTAATTGTTTAAAAAGTTCAAGAAATTTACCAAATTGTTCATCCATACGATCTTTCTTAA
ACTTTGC
Found at i:94157856 original size:22 final size:24
Alignment explanation
Indices: 94157796--94157846 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
94157786 ATCCGCTTCT
*
94157796 CTAACCTCTCTTCGATTTCTGCAA
1 CTAACCTCTTTTCGATTTCTGCAA
94157820 CTAACCTCTTTTCGATTTCTGCAA
1 CTAACCTCTTTTCGATTTCTGCAA
94157844 CTA
1 CTA
94157847 GTTTTTTCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.31, G:0.08, T:0.39
Consensus pattern (24 bp):
CTAACCTCTTTTCGATTTCTGCAA
Found at i:94159130 original size:20 final size:20
Alignment explanation
Indices: 94159105--94159144 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
94159095 TAAAAAAAAG
94159105 TTAGACTTCATCAAAGTCAA
1 TTAGACTTCATCAAAGTCAA
*
94159125 TTAGACTTTATCAAAGTCAA
1 TTAGACTTCATCAAAGTCAA
94159145 CTTAAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
TTAGACTTCATCAAAGTCAA
Found at i:94161854 original size:27 final size:28
Alignment explanation
Indices: 94161824--94161889 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
94161814 TAATGGAGGC
94161824 TTGAAAATTAAAAATT-AAAAATTAA-GA
1 TTGAAAATTAAAAATTGAAAAA-TAATGA
*
94161851 TTGAAAA-TATAAAATTGGAAAATAATGA
1 TTGAAAATTA-AAAATTGAAAAATAATGA
94161879 TTGAAAATTAA
1 TTGAAAATTAA
94161890 GGATTAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 2 0.06
27 16 0.47
28 14 0.41
29 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (28 bp):
TTGAAAATTAAAAATTGAAAAATAATGA
Found at i:94161894 original size:14 final size:13
Alignment explanation
Indices: 94161824--94161890 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 13
94161814 TAATGGAGGC
*
94161824 TTGAAAATTAAAAA
1 TTGAAAATT-AAGA
*
94161838 TTAAAAATTAAGA
1 TTGAAAATTAAGA
*
94161851 TTGAAAATATAAAA
1 TTGAAAAT-TAAGA
94161865 TTGGAAAA-TAATGA
1 TT-GAAAATTAA-GA
94161879 TTGAAAATTAAG
1 TTGAAAATTAAG
94161891 GATTAAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
13 19 0.43
14 20 0.45
15 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (13 bp):
TTGAAAATTAAGA
Found at i:94163600 original size:43 final size:43
Alignment explanation
Indices: 94163413--94163606 Score: 228
Period size: 43 Copynumber: 4.5 Consensus size: 43
94163403 TATATATGGT
* ** * *
94163413 CTTTAGTGGCGTTTTTGGGGAAAGCATCGCTAAAGATCATG-T
1 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGAC
* * * * *
94163455 CTTTTGTGGCGTTCTTGGGAAAAGCGCCGCTAAATGTCATGAC
1 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGAC
* * * *
94163498 CCTTAGCGGTGTTTTTAGGGAAAGTGCCGCTAAAGGTCATGAC
1 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGAC
* *
94163541 TTTTAGCGGCGTTTTTGGGGAAAGCGCCGTTAAAGGTCATGAC
1 CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGAC
*
94163584 CTTTAGCGGCGTTTTTGAGGAAA
1 CTTTAGCGGCGTTTTTGGGGAAA
94163607 AAAAGGTCGC
Statistics
Matches: 126, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 34 0.27
43 92 0.73
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCATGAC
Found at i:94165094 original size:20 final size:20
Alignment explanation
Indices: 94165053--94165094 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
94165043 AGCACATGTA
* *
94165053 TTAATAAAATTTTAGAATTT
1 TTAATAAAATTTTACAACTT
*
94165073 TTAATCAAATTTTACAACTT
1 TTAATAAAATTTTACAACTT
94165093 TT
1 TT
94165095 CATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAATAAAATTTTACAACTT
Found at i:94165810 original size:43 final size:44
Alignment explanation
Indices: 94165749--94165845 Score: 144
Period size: 43 Copynumber: 2.2 Consensus size: 44
94165739 TTATGAAAAT
*
94165749 AACGCCGCT-ATAGAACATGATCTTTAGCAACGTTTTTCCCAAA
1 AACGCCGCTAATAGAACATGATCTTTAGCAACGCTTTTCCCAAA
** *
94165792 AACGCCGCTAAT-GAACATGATCTTTAGCAGTGCTTTTCCCACA
1 AACGCCGCTAATAGAACATGATCTTTAGCAACGCTTTTCCCAAA
94165835 AACGCCGCTAA
1 AACGCCGCTAA
94165846 AACGCCGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (44 bp):
AACGCCGCTAATAGAACATGATCTTTAGCAACGCTTTTCCCAAA
Found at i:94165938 original size:42 final size:42
Alignment explanation
Indices: 94165845--94165989 Score: 130
Period size: 42 Copynumber: 3.4 Consensus size: 42
94165835 AACGCCGCTA
* * * * * *
94165845 AAACGCCGCTAAAGAACATGACTTTTAGCGGCGCTTTTCCTGC
1 AAACGCCACTATAGAATA-GACCTTTAGCGGCACTTTTCCTAC
*
94165888 AAATGCCACTATAGAATAGACCTTTAGCGGCACTTTTGCC-AC
1 AAACGCCACTATAGAATAGACCTTTAGCGGCACTTTT-CCTAC
* * ** * *
94165930 AAACGCCACTATAAAATAGACCTTTGGTAGCGCTTTTCTTAC
1 AAACGCCACTATAGAATAGACCTTTAGCGGCACTTTTCCTAC
* *
94165972 AAACGCCGCTAAAGAATA
1 AAACGCCACTATAGAATA
94165990 TGACTTGTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 66 0.80
43 16 0.19
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (42 bp):
AAACGCCACTATAGAATAGACCTTTAGCGGCACTTTTCCTAC
Found at i:94166030 original size:21 final size:21
Alignment explanation
Indices: 94166006--94166062 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
94165996 GTAAAAAAAT
94166006 TATTTTATTTTAATTAAATAA
1 TATTTTATTTTAATTAAATAA
* *
94166027 TA-TTTATTTCTATGTTAAATAT
1 TATTTTATTT-TA-ATTAAATAA
*
94166049 TATATTATCTTTAA
1 TATTTTAT-TTTAA
94166063 ACTATATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
20 7 0.25
21 4 0.14
22 9 0.32
23 6 0.21
24 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TATTTTATTTTAATTAAATAA
Found at i:94166214 original size:2 final size:2
Alignment explanation
Indices: 94166209--94166234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94166199 CATAAAAAAA
94166209 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
94166235 TAACAAAGTA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:94169695 original size:12 final size:12
Alignment explanation
Indices: 94169678--94169704 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94169668 GTCGCCATAG
94169678 AAATCACTGGTA
1 AAATCACTGGTA
94169690 AAATCACTGGTA
1 AAATCACTGGTA
94169702 AAA
1 AAA
94169705 CTCCACTATT
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:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (12 bp):
AAATCACTGGTA
Found at i:94169890 original size:14 final size:15
Alignment explanation
Indices: 94169863--94169922 Score: 68
Period size: 15 Copynumber: 4.0 Consensus size: 15
94169853 TAAATATTAA
*
94169863 AATTTTAAGTTTTTT
1 AATTTTAAATTTTTT
* *
94169878 ATTTTTTAATTTTTT
1 AATTTTAAATTTTTT
*
94169893 AATTTT-AATTTTTA
1 AATTTTAAATTTTTT
94169907 AATTTTAAAGTTTTTT
1 AATTTTAAA-TTTTTT
94169923 GAAGATTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.35
15 19 0.51
16 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
AATTTTAAATTTTTT
Found at i:94169906 original size:7 final size:7
Alignment explanation
Indices: 94169873--94169914 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
94169863 AATTTTAAGT
*
94169873 TTTTTAT
1 TTTTTAA
94169880 TTTTTAA
1 TTTTTAA
94169887 TTTTTTAA
1 -TTTTTAA
94169895 -TTTTAA
1 TTTTTAA
94169901 TTTTTAA
1 TTTTTAA
*
94169908 ATTTTAA
1 TTTTTAA
94169915 AGTTTTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
7 18 0.58
8 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:94169946 original size:8 final size:8
Alignment explanation
Indices: 94169859--94169946 Score: 58
Period size: 8 Copynumber: 10.9 Consensus size: 8
94169849 ATATTAAATA
*
94169859 TTAAAATT
1 TTAAATTT
*
94169867 TTAAGTTT
1 TTAAATTT
*
94169875 TT-TATTT
1 TTAAATTT
*
94169882 TTTAATTT
1 TTAAATTT
*
94169890 TTTAA-TT
1 TTAAATTT
94169897 TT-AATTT
1 TTAAATTT
94169904 TTAAA-TT
1 TTAAATTT
94169911 TTAAAGTTTT
1 TTAAA--TTT
94169921 TTGAAGATTT
1 TT-AA-ATTT
94169931 TTATAATTT
1 TTA-AATTT
94169940 TTAAATT
1 TTAAATT
94169947 AACATATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
6 2 0.03
7 20 0.30
8 23 0.35
9 8 0.12
10 10 0.15
11 2 0.03
12 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:94170586 original size:20 final size:20
Alignment explanation
Indices: 94170563--94170603 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
94170553 CCCAAACCCC
94170563 AAATCCTA-ACCATAAATCCT
1 AAATCCTAGACCATAAA-CCT
94170583 AAATCCTAGACCATAAACCT
1 AAATCCTAGACCATAAACCT
94170603 A
1 A
94170604 CACCCTAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.46, C:0.29, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATCCTAGACCATAAACCT
Found at i:94170610 original size:20 final size:20
Alignment explanation
Indices: 94170567--94170611 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
94170557 AACCCCAAAT
*
94170567 CCTAACCATAAATCCTAAAT
1 CCTAACCATAAATCCTAAAC
*
94170587 CCTAGACCATAAA-CCTACAC
1 CCTA-ACCATAAATCCTAAAC
94170607 CCTAA
1 CCTAA
94170612 ACCCTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 13 0.59
21 8 0.36
ACGTcount: A:0.42, C:0.36, G:0.02, T:0.20
Consensus pattern (20 bp):
CCTAACCATAAATCCTAAAC
Found at i:94170623 original size:2 final size:2
Alignment explanation
Indices: 94170616--94170642 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94170606 CCCTAAACCC
94170616 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
94170643 TACAAGGGAC
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:94170734 original size:50 final size:50
Alignment explanation
Indices: 94170658--94170759 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
94170648 GGGACAAAAG
*
94170658 TAATTAAAAAAGAATCTTATTACTTACCTAAACCCTAAAATAAATTAGTT
1 TAATTAAAAAAGAATCTTATTACTTACCTAAACCCTAAAACAAATTAGTT
* *
94170708 TAATTAAAAAAGAATCTTATTGCTTACCTAAACTCTAAAACAAATTAGTT
1 TAATTAAAAAAGAATCTTATTACTTACCTAAACCCTAAAACAAATTAGTT
94170758 TA
1 TA
94170760 TTGTCATTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (50 bp):
TAATTAAAAAAGAATCTTATTACTTACCTAAACCCTAAAACAAATTAGTT
Found at i:94171171 original size:154 final size:154
Alignment explanation
Indices: 94170891--94171264 Score: 486
Period size: 154 Copynumber: 2.4 Consensus size: 154
94170881 TTTTTTGCAG
* *
94170891 CGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAAAAGTGTCGCTAATG
1 CGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGATTTTCAAAAAGTGCCGCTAATG
* ** *
94170956 CCACTAAAGATCAACATAGAACGTGACATTGTGCTTAATTTTTTTACGACGTTTTTCAGAAAGCA
66 CCACTAAAGATCAACATAAAACGACACATTGTGCTTAATTTTTTTA-GACATTTTTCAGAAAGCA
* * *
94171021 CCGCGAATGGTCGACTTGTAGC-GA
130 CCGCGAATGGTCAACCTATAGCGGA
* * *
94171045 CGTTTTTTAAAAAGCGCAGCTAATGCTCGATCTATAGCGGCGATTTTCAAAAAGCGCCGCTAATG
1 CGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGATTTTCAAAAAGTGCCGCTAATG
* * * *
94171110 CCACTAAAGCTCAACATAAAACGACAGCGTTGTGCTTAATTTTTTGT-GGCATTTTTTAGAAAGC
66 CCACTAAAGATCAACATAAAACGACA-CATTGTGCTTAATTTTTT-TAGACATTTTTCAGAAAGC
* *
94171174 GCCGCTAATGGTCAACCTATAGCGGA
129 ACCGCGAATGGTCAACCTATAGCGGA
* * * *
94171200 -GTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGTGGC-ATTTTTCAAAAAGTGCCGCCAAT
1 CGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGA-TTTTCAAAAAGTGCCGCTAAT
94171263 GC
65 GC
94171265 TCTATCTATA
Statistics
Matches: 192, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
153 1 0.01
154 171 0.89
155 19 0.10
156 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (154 bp):
CGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATAGCGGCGATTTTCAAAAAGTGCCGCTAATG
CCACTAAAGATCAACATAAAACGACACATTGTGCTTAATTTTTTTAGACATTTTTCAGAAAGCAC
CGCGAATGGTCAACCTATAGCGGA
Found at i:94171216 original size:40 final size:40
Alignment explanation
Indices: 94171157--94171277 Score: 154
Period size: 40 Copynumber: 3.0 Consensus size: 40
94171147 AATTTTTTGT
* * * *
94171157 GGCATTTTTTAGAAAGCGCCGCTAATGGTCAACCTATAGC
1 GGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC
*
94171197 GG-AGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGT
1 GGCA-TTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC
* * *
94171237 GGCATTTTTCAAAAAGTGCCGCCAATGCTCTATCTATAGC
1 GGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC
94171277 G
1 G
94171278 CTGTTTTTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 68 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (40 bp):
GGCATTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGC
Found at i:94171682 original size:28 final size:28
Alignment explanation
Indices: 94171650--94171706 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
94171640 TAAAAGCTTA
94171650 TTGTCTCAAATTTTAGTAAAATTAGTTT
1 TTGTCTCAAATTTTAGTAAAATTAGTTT
94171678 TTGTCTCAAATTTTAGTAAAATTAGTTT
1 TTGTCTCAAATTTTAGTAAAATTAGTTT
94171706 T
1 T
94171707 GGTCCTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (28 bp):
TTGTCTCAAATTTTAGTAAAATTAGTTT
Found at i:94171859 original size:43 final size:43
Alignment explanation
Indices: 94171794--94171879 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
94171784 CGTTTGTATA
*
94171794 CTTGTAATTTTTTCGAATAGATTGGTTTAATAAAATTATTCAT
1 CTTGTAATTTTTTCGAACAGATTGGTTTAATAAAATTATTCAT
94171837 CTTGTAATTTTTTCGAACAGATTGGTTTAATAAAATTATTCAT
1 CTTGTAATTTTTTCGAACAGATTGGTTTAATAAAATTATTCAT
94171880 GAATTATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (43 bp):
CTTGTAATTTTTTCGAACAGATTGGTTTAATAAAATTATTCAT
Found at i:94177188 original size:17 final size:18
Alignment explanation
Indices: 94177159--94177208 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
94177149 ATCACGTGTC
*
94177159 AAAAAAATAAAAAAAACTT
1 AAAAAATTAAAAAAAA-TT
*
94177178 -AAAATTTAAAAAAAATT
1 AAAAAATTAAAAAAAATT
94177195 AAAAAATTAAAAAA
1 AAAAAATTAAAAAA
94177209 TTTATCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAAATTAAAAAAAATT
Found at i:94180469 original size:33 final size:33
Alignment explanation
Indices: 94180415--94180527 Score: 120
Period size: 33 Copynumber: 3.4 Consensus size: 33
94180405 CATCATCAAT
*
94180415 CCAACCAAACACACCAGATGCTCACT-AGAGCCAAA
1 CCAACC-ATCACACCA-ATGCTCA-TAAGAGCCAAA
* * * * *
94180450 CTATCCATCGCACCAATGCTCATAAGAGCTAAT
1 CCAACCATCACACCAATGCTCATAAGAGCCAAA
* *
94180483 CCAACCATCACACCAATGCTCATAAAAGCTAAA
1 CCAACCATCACACCAATGCTCATAAGAGCCAAA
94180516 CCAACCATCACA
1 CCAACCATCACA
94180528 TCAAATAGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
32 1 0.02
33 54 0.82
34 7 0.11
35 4 0.06
ACGTcount: A:0.41, C:0.35, G:0.09, T:0.15
Consensus pattern (33 bp):
CCAACCATCACACCAATGCTCATAAGAGCCAAA
Found at i:94181064 original size:18 final size:18
Alignment explanation
Indices: 94181041--94181087 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
94181031 CTTAAATTCA
94181041 TCAAATTAACTATTTT-T
1 TCAAATTAACTATTTTAT
*
94181058 CTCAAA-TAAATATTTTAT
1 -TCAAATTAACTATTTTAT
*
94181076 TCAAATTTACTA
1 TCAAATTAACTA
94181088 GGTCCTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (18 bp):
TCAAATTAACTATTTTAT
Found at i:94182623 original size:19 final size:19
Alignment explanation
Indices: 94182599--94182646 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
94182589 GTTTGCTCCA
94182599 AAATCTCGATGTAAATCTC
1 AAATCTCGATGTAAATCTC
94182618 AAATCTCGATGTAAATCTC
1 AAATCTCGATGTAAATCTC
*
94182637 AGATCTCGAT
1 AAATCTCGAT
94182647 TTGAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (19 bp):
AAATCTCGATGTAAATCTC
Found at i:94195155 original size:12 final size:12
Alignment explanation
Indices: 94195135--94195164 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94195125 CAGAGGTTTT
*
94195135 CACACGGTCGAG
1 CACATGGTCGAG
94195147 CACATGGTCGAG
1 CACATGGTCGAG
94195159 CACATG
1 CACATG
94195165 CTTGTGTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.13
Consensus pattern (12 bp):
CACATGGTCGAG
Found at i:94203041 original size:13 final size:13
Alignment explanation
Indices: 94203023--94203047 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94203013 TTTTGGACAC
94203023 GCCCGTGTCTCTA
1 GCCCGTGTCTCTA
94203036 GCCCGTGTCTCT
1 GCCCGTGTCTCT
94203048 CACAAGGCCT
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:0.04, C:0.40, G:0.24, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCTCTA
Found at i:94206580 original size:46 final size:46
Alignment explanation
Indices: 94206527--94206663 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
94206517 TATATATACA
* * * *
94206527 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
94206573 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
94206619 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
94206664 ATACACTTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:94206708 original size:47 final size:47
Alignment explanation
Indices: 94206637--94207062 Score: 656
Period size: 47 Copynumber: 9.1 Consensus size: 47
94206627 ACACATTTCG
* * * * * *
94206637 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
94206684 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
94206731 CATTGGCCATTCGGCCTTATCATATATATGCATGTTCACATTAATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
94206778 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
94206825 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
94206872 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
94206919 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
94206966 CATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** * * **
94207013 CATTTTCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
94207060 CAT
1 CAT
94207063 AAAATCCTAA
Statistics
Matches: 352, Mismatches: 26, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 351 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:94206799 original size:22 final size:22
Alignment explanation
Indices: 94206774--94206849 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
94206764 GTTCACATTA
94206774 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
94206796 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
94206820 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
94206843 ATCACAT
1 ATCACAT
94206850 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:94206909 original size:25 final size:25
Alignment explanation
Indices: 94206697--94207003 Score: 116
Period size: 25 Copynumber: 13.0 Consensus size: 25
94206687 TGGCCATTCT
94206697 GCCTTATCACATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* * *
94206722 -CATTCATCACAT-T-GGCCA--TTCG
1 GCCTT-ATCACATATATG-CATGTTCA
*
94206744 GCCTTATCATATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* * *
94206769 -CATTAATCACAT-T-GGCCA--TTCG
1 GCCTT-ATCACATATATG-CATGTTCA
*
94206791 GCCTTATCACACATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* * *
94206816 -CATTCATCACAT-T-GGCCA--TTCG
1 GCCTT-ATCACATATATG-CATGTTCA
94206838 GCCTTATCACATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* *
94206863 -CATTCATCACAT-T-GGCCA--TTCA
1 GCCTT-ATCACATATATG-CATGTTCA
*
94206885 GCCTTATCTCATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* * *
94206910 -CATTCATCACAT-T-GGCCA--TTCG
1 GCCTT-ATCACATATATG-CATGTTCA
94206932 GCCTTATCACATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
* *
94206957 -CATTCATCACAT-T-GGCCA--TTCA
1 GCCTT-ATCACATATATG-CATGTTCA
*
94206979 GCCTTATCTCATATATGCATGTTCA
1 GCCTTATCACATATATGCATGTTCA
94207004 CATTCATCAC
Statistics
Matches: 201, Mismatches: 39, Indels: 84
0.62 0.12 0.26
Matches are distributed among these distances:
22 58 0.29
23 42 0.21
24 42 0.21
25 59 0.29
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (25 bp):
GCCTTATCACATATATGCATGTTCA
Found at i:94217129 original size:32 final size:33
Alignment explanation
Indices: 94217103--94217182 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
94217093 TGCTCACTCA
* *
94217103 AGCCAATCC-TCCATCATAGCAATGCTCATAAG
1 AGCCAATCCAACCATCACAGCAATGCTCATAAG
*
94217135 AGCTAATCCAACCATCACAGCAATGCTCATAAG
1 AGCCAATCCAACCATCACAGCAATGCTCATAAG
* *
94217168 AGCTAAACCAACCAT
1 AGCCAATCCAACCAT
94217183 TACATCAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 8 0.19
33 35 0.81
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.19
Consensus pattern (33 bp):
AGCCAATCCAACCATCACAGCAATGCTCATAAG
Found at i:94217157 original size:33 final size:33
Alignment explanation
Indices: 94217113--94217182 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
94217103 AGCCAATCCT
* *
94217113 CCATCATAGCAATGCTCATAAGAGCTAATCCAA
1 CCATCACAGCAATGCTCATAAGAGCTAAACCAA
94217146 CCATCACAGCAATGCTCATAAGAGCTAAACCAA
1 CCATCACAGCAATGCTCATAAGAGCTAAACCAA
94217179 CCAT
1 CCAT
94217183 TACATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (33 bp):
CCATCACAGCAATGCTCATAAGAGCTAAACCAA
Found at i:94219065 original size:27 final size:27
Alignment explanation
Indices: 94219013--94219288 Score: 191
Period size: 26 Copynumber: 10.5 Consensus size: 27
94219003 CACACAGACG
* *
94219013 ATGGAAGCTTTTGTAGCGTATC--TGAA
1 ATGGAAGCCTTTGTAGC-AATCTATGAA
* *
94219039 GTGGAAGCCTTTGTAGTAATCTATGAA
1 ATGGAAGCCTTTGTAGCAATCTATGAA
* *
94219066 ATAGAAGCCTTTGTAGTGAAT-T-TGAA
1 ATGGAAGCCTTTGTAG-CAATCTATGAA
* *
94219092 ATGGAAGCTTTTGTGGCAATCTATGAA
1 ATGGAAGCCTTTGTAGCAATCTATGAA
** * *
94219119 ACAGAAGCCTTTATGGCATAT-T-TGAA
1 ATGGAAGCCTTTGTAGCA-ATCTATGAA
*
94219145 ATGGAAGTCTTTGTAGCAATCTATGAA
1 ATGGAAGCCTTTGTAGCAATCTATGAA
* * **
94219172 A--AAAGCCTTCGTAGTGTATC--TGAA
1 ATGGAAGCCTTTGTAG-CAATCTATGAA
*
94219196 ATGGAAGCCTTTGTGGCAATCT-TGAA
1 ATGGAAGCCTTTGTAGCAATCTATGAA
* * *
94219222 ATGAAAGCCTTTATGGCATATC--TGAA
1 ATGGAAGCCTTTGTAGCA-ATCTATGAA
* * *
94219248 ATGTAAGCCTTTGTGGCAATCAATGAA
1 ATGGAAGCCTTTGTAGCAATCTATGAA
*
94219275 ATGAAAGCCTTTGT
1 ATGGAAGCCTTTGT
94219289 GGTGATCTAT
Statistics
Matches: 200, Mismatches: 35, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
24 5 0.03
25 24 0.12
26 103 0.51
27 63 0.31
28 5 0.03
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (27 bp):
ATGGAAGCCTTTGTAGCAATCTATGAA
Found at i:94219097 original size:53 final size:53
Alignment explanation
Indices: 94219016--94219293 Score: 268
Period size: 53 Copynumber: 5.3 Consensus size: 53
94219006 ACAGACGATG
* * * * * *
94219016 GAAGCTTTTGTAGCGTATCTGAAGTGGAAGCCTTTGTAGTAATCTATGAAATA
1 GAAGCCTTTGTAGTGAATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
* * *
94219069 GAAGCCTTTGTAGTGAATTTGAAATGGAAGCTTTTGTGGCAATCTATGAAACA
1 GAAGCCTTTGTAGTGAATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
* * * *
94219122 GAAGCCTTTAT-G-GCATATTTGAAATGGAAGTCTTTGTAGCAATCTATGAAA-A
1 GAAGCCTTTGTAGTG-A-ATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
* *
94219174 -AAGCCTTCGTAGTGTATCTGAAATGGAAGCCTTTGTGGCAATCT-TGAAAT-
1 GAAGCCTTTGTAGTGAATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
* * *
94219224 GAAAGCCTTTAT-G-GCATATCTGAAATGTAAGCCTTTGTGGCAATCAATGAAAT-
1 G-AAGCCTTTGTAGTG-A-ATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
*
94219277 GAAAGCCTTTGTGGTGA
1 G-AAGCCTTTGTAGTGA
94219294 TCTATAGAAA
Statistics
Matches: 188, Mismatches: 25, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
50 6 0.03
51 36 0.19
52 39 0.21
53 104 0.55
54 2 0.01
55 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (53 bp):
GAAGCCTTTGTAGTGAATCTGAAATGGAAGCCTTTGTGGCAATCTATGAAATA
Found at i:94219313 original size:28 final size:27
Alignment explanation
Indices: 94219192--94219313 Score: 99
Period size: 26 Copynumber: 4.6 Consensus size: 27
94219182 GTAGTGTATC
*
94219192 TGAAATGG-AAGCCTTTGTGGCAATC-T
1 TGAAA-GGAAAGCCTTTGTGGCAATCAA
* *
94219218 TGAAATGAAAGCCTTTATGGCATATC--
1 TGAAAGGAAAGCCTTTGTGGCA-ATCAA
* *
94219244 TGAAATGTAAGCCTTTGTGGCAATCAA
1 TGAAAGGAAAGCCTTTGTGGCAATCAA
* ** *
94219271 TGAAATGAAAGCCTTTGTGGTGATCTA
1 TGAAAGGAAAGCCTTTGTGGCAATCAA
*
94219298 TAGAAAGGAATGCCTT
1 T-GAAAGGAAAGCCTT
94219314 CGTGACACAT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.05
26 38 0.47
27 27 0.33
28 12 0.15
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (27 bp):
TGAAAGGAAAGCCTTTGTGGCAATCAA
Found at i:94219484 original size:27 final size:27
Alignment explanation
Indices: 94219454--94219517 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
94219444 GACTAAATGG
*
94219454 TATGATGAACTCTGAAGGAATGGTACA
1 TATGATGAACTCTGAAGGAATAGTACA
* * *
94219481 TATGGA-AAACTTTGAAGGAATAGTGCA
1 TAT-GATGAACTCTGAAGGAATAGTACA
*
94219508 TATGGTGAAC
1 TATGATGAAC
94219518 ATTGAGAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (27 bp):
TATGATGAACTCTGAAGGAATAGTACA
Found at i:94219522 original size:27 final size:27
Alignment explanation
Indices: 94219466--94219522 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
94219456 TGATGAACTC
* *
94219466 TGAAGGAATGGTACATATGGAAAACTT
1 TGAAGGAATAGTACATATGGAAAACAT
* **
94219493 TGAAGGAATAGTGCATATGGTGAACAT
1 TGAAGGAATAGTACATATGGAAAACAT
94219520 TGA
1 TGA
94219523 GAGAAACAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.26
Consensus pattern (27 bp):
TGAAGGAATAGTACATATGGAAAACAT
Found at i:94235828 original size:40 final size:40
Alignment explanation
Indices: 94235773--94236062 Score: 465
Period size: 40 Copynumber: 7.2 Consensus size: 40
94235763 AACATTGGAA
94235773 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94235813 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94235853 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94235893 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94235933 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
94235973 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
94236012 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
94236053 CTATATCCGG
1 ATATATCCGG
94236063 TTAAATCCCG
Statistics
Matches: 231, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 229 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:94243992 original size:40 final size:40
Alignment explanation
Indices: 94243920--94244208 Score: 456
Period size: 40 Copynumber: 7.2 Consensus size: 40
94243910 AACATTGGAA
94243920 ATATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94243959 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94243999 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94244039 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
94244079 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
94244119 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
94244158 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
94244199 CTATATCCGG
1 ATATATCCGG
94244209 TTAAATCCCG
Statistics
Matches: 230, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 19 0.08
40 211 0.92
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:94254233 original size:21 final size:21
Alignment explanation
Indices: 94254209--94254254 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
94254199 TTAAGATGTG
*
94254209 AATTGAATTCAATTGA-GTATA
1 AATTGAATTAAATTGATGT-TA
94254230 AATTGAATTAAATTGATGTTA
1 AATTGAATTAAATTGATGTTA
94254251 AATT
1 AATT
94254255 CATTTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (21 bp):
AATTGAATTAAATTGATGTTA
Found at i:94255890 original size:30 final size:30
Alignment explanation
Indices: 94255854--94255954 Score: 139
Period size: 30 Copynumber: 3.4 Consensus size: 30
94255844 CCATACGGGT
* ** *
94255854 TGACACACGGGCGTGTGTTTCAAAGGTGAG
1 TGACACACGGGCGTGTGTCTCAACCGTGTG
*
94255884 TGACACACGGGTGTGTGTCTCAACCGTGTG
1 TGACACACGGGCGTGTGTCTCAACCGTGTG
* *
94255914 TGACACATGGGCTTGTGTCTCAACCGTGTG
1 TGACACACGGGCGTGTGTCTCAACCGTGTG
94255944 TGACACACGGG
1 TGACACACGGG
94255955 TATGTGGGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.20, C:0.22, G:0.34, T:0.25
Consensus pattern (30 bp):
TGACACACGGGCGTGTGTCTCAACCGTGTG
Found at i:94257497 original size:24 final size:24
Alignment explanation
Indices: 94257307--94257496 Score: 262
Period size: 24 Copynumber: 8.0 Consensus size: 24
94257297 GCTTTATCAT
*
94257307 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
94257332 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
94257356 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
94257379 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
94257402 ATAACTGGCGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
94257426 ATAACTGGGGCATAAGCCCTTCTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
94257450 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
94257474 ATAACTGGGGCATAAGCCGTTTT
1 ATAACTGGGGCATAAGCCCTTTT
94257497 GCACTTCCTC
Statistics
Matches: 154, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
23 46 0.30
24 94 0.61
25 14 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:94257568 original size:9 final size:9
Alignment explanation
Indices: 94257554--94257630 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
94257544 ATCTCGTGTG
94257554 CATATCATA
1 CATATCATA
*
94257563 CATATCATGTG
1 CATATCA--TA
94257574 CATATCATA
1 CATATCATA
* * *
94257583 CGTGTCATGTG
1 CATATCA--TA
94257594 CATATCATA
1 CATATCATA
*
94257603 CATATCATGTG
1 CATATCA--TA
94257614 CATATCATA
1 CATATCATA
94257623 CATATCAT
1 CATATCAT
94257631 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:94257573 original size:20 final size:20
Alignment explanation
Indices: 94257550--94257632 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
94257540 GAACATCTCG
94257550 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
94257570 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
94257590 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94257610 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94257630 TGT
1 TGT
94257633 TTATCAAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:94257579 original size:11 final size:11
Alignment explanation
Indices: 94257550--94257621 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
94257540 GAACATCTCG
94257550 TGTGCATATCA
1 TGTGCATATCA
*
94257561 --TACATATCA
1 TGTGCATATCA
94257570 TGTGCATATCA
1 TGTGCATATCA
* * *
94257581 --TACGTGTCA
1 TGTGCATATCA
94257590 TGTGCATATCA
1 TGTGCATATCA
*
94257601 --TACATATCA
1 TGTGCATATCA
94257610 TGTGCATATCA
1 TGTGCATATCA
94257621 T
1 T
94257622 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:94265367 original size:24 final size:24
Alignment explanation
Indices: 94265320--94265484 Score: 232
Period size: 23 Copynumber: 7.0 Consensus size: 24
94265310 GCTTTATCAT
*
94265320 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
94265345 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
94265369 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
94265392 ATAATTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
94265415 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
94265438 ATAACTGGGGCATAAGCCCTTGTG
1 ATAACTGGGGCATAAGCCCTTTTA
94265462 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
94265485 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
23 68 0.52
24 48 0.37
25 14 0.11
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:94265395 original size:23 final size:23
Alignment explanation
Indices: 94265341--94265483 Score: 234
Period size: 23 Copynumber: 6.1 Consensus size: 23
94265331 CCTAGCCTCT
94265341 TTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC
94265363 TTTTTAATAACTGGGGCATAAGCCC
1 --TTTAATAACTGGGGCATAAGCCC
*
94265388 TTTAATAATTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
94265411 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
94265434 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
94265457 TTGTGATAACTGGGGCATAAGCCC
1 TT-TAATAACTGGGGCATAAGCCC
94265481 TTT
1 TTT
94265484 TGCACTTCCT
Statistics
Matches: 114, Mismatches: 3, Indels: 5
0.93 0.02 0.04
Matches are distributed among these distances:
23 70 0.61
24 38 0.33
25 6 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:94265556 original size:9 final size:9
Alignment explanation
Indices: 94265542--94265618 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
94265532 ATCTCGTGTG
94265542 CATATCATA
1 CATATCATA
*
94265551 CATATCATGTG
1 CATATCA--TA
94265562 CATATCATA
1 CATATCATA
* * *
94265571 CGTGTCATGTG
1 CATATCA--TA
94265582 CATATCATA
1 CATATCATA
*
94265591 CATATCATGTG
1 CATATCA--TA
94265602 CATATCATA
1 CATATCATA
94265611 CATATCAT
1 CATATCAT
94265619 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:94265561 original size:20 final size:20
Alignment explanation
Indices: 94265538--94265620 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
94265528 GAACATCTCG
94265538 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
94265558 TGTGCATATCATACGTGTCA
1 TGTGCATATCATACATATCA
94265578 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94265598 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
94265618 TGT
1 TGT
94265621 TTATCAAACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:94265567 original size:11 final size:11
Alignment explanation
Indices: 94265538--94265609 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
94265528 GAACATCTCG
94265538 TGTGCATATCA
1 TGTGCATATCA
*
94265549 --TACATATCA
1 TGTGCATATCA
94265558 TGTGCATATCA
1 TGTGCATATCA
* * *
94265569 --TACGTGTCA
1 TGTGCATATCA
94265578 TGTGCATATCA
1 TGTGCATATCA
*
94265589 --TACATATCA
1 TGTGCATATCA
94265598 TGTGCATATCA
1 TGTGCATATCA
94265609 T
1 T
94265610 ACATATCATG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
9 22 0.49
11 23 0.51
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:94265685 original size:25 final size:25
Alignment explanation
Indices: 94265657--94265704 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
94265647 ATGTATAAAC
* * *
94265657 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
94265682 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
94265705 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:94274084 original size:2 final size:2
Alignment explanation
Indices: 94274077--94274110 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94274067 AAGTACATAC
94274077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94274111 GAAAGTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94283762 original size:14 final size:13
Alignment explanation
Indices: 94283734--94283770 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
94283724 ATCCTGGAAT
94283734 ATTAA-AACAATA
1 ATTAAGAACAATA
94283746 ATTAAGAACACATA
1 ATTAAGAACA-ATA
94283760 ATTAAGAACAA
1 ATTAAGAACAA
94283771 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:94288760 original size:13 final size:13
Alignment explanation
Indices: 94288738--94288786 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
94288728 AAAATAACTA
94288738 TTCATATAAACAT
1 TTCATATAAACAT
*
94288751 TTCGTATAAACAT
1 TTCATATAAACAT
**
94288764 TTCATATAATTAT
1 TTCATATAAACAT
94288777 TTCTATATAA
1 TTC-ATATAA
94288787 CCTGTAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 25 0.81
14 6 0.19
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (13 bp):
TTCATATAAACAT
Found at i:94289862 original size:34 final size:34
Alignment explanation
Indices: 94289824--94289900 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
94289814 AGTTACAGTC
94289824 CAGTATCAGTGTGGGCTTTAAACCATTACAATAA
1 CAGTATCAGTGTGGGCTTTAAACCATTACAATAA
**
94289858 CAGTATCAGTGTGGGCTTTAGCCCATTACAATAA
1 CAGTATCAGTGTGGGCTTTAAACCATTACAATAA
*
94289892 TAGTATCAG
1 CAGTATCAG
94289901 AAAATGTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCTTTAAACCATTACAATAA
Done.