Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 183 of 207
Found at i:55955031 original size:10 final size:10
Alignment explanation
Indices: 55955018--55955053 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
55955008 ATAAAAAAAA
55955018 CAAAAAAGAG
1 CAAAAAAGAG
55955028 CAAAAAAGAG
1 CAAAAAAGAG
*
55955038 CAAAAAA-AA
1 CAAAAAAGAG
55955047 CAAAAAA
1 CAAAAAA
55955054 CAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.78, C:0.11, G:0.11, T:0.00
Consensus pattern (10 bp):
CAAAAAAGAG
Found at i:55956066 original size:108 final size:108
Alignment explanation
Indices: 55955877--55956073 Score: 299
Period size: 108 Copynumber: 1.8 Consensus size: 108
55955867 TCCCATTTTG
* *
55955877 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGGGCTTTGCTCTCAATAAATTTCCATCT
1 TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
55955942 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
66 TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
* *
55955985 TAGCAAAATTTGCTATCTTGATTGATTTATTT-GTTTAGAGCTTTGCTCTCAACAAAATTT-CAT
1 TAGCAAAATTTGCTATCTTGATTAATTT-TTTCATTTAGAGCTTTGCTCTCAA-AAAATTTCCAT
* * *
55956048 CTTGTCCATTTTGCTAATCTTTTTCA
64 CTTATCCATTGTGATAATCTTTTTCA
55956074 AGCGTTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
108 71 0.89
109 9 0.11
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (108 bp):
TAGCAAAATTTGCTATCTTGATTAATTTTTTCATTTAGAGCTTTGCTCTCAAAAAATTTCCATCT
TATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCT
Found at i:55957034 original size:46 final size:46
Alignment explanation
Indices: 55956967--55957753 Score: 1004
Period size: 46 Copynumber: 17.1 Consensus size: 46
55956957 CTAGAAGCAG
*
55956967 CAGATCTTGTCTTCCTATATTTGGCAGCGAAGTAGATCGAAGATTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* * *
55957013 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAAATTG
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* * * * *
55957059 TAGAACTTGCCTTCCTGTATTTGGTAGCGAAGTAGATCGAAGATTG
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
*
55957105 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGA-TA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* * *
55957150 GTAGATCTTGTCTTCCTATATTTGGCAG-TAGAGTAGATCGAAGATTA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATTA
* *
55957197 TAGATCTTATCTTCCTGTATTTGGCAGC-AGAGTAGATCGAAGA-TA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATTA
* * *
55957242 GTAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGA-TA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957288 GTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATTA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957335 CAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGA-TA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* * *
55957380 GCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957427 TAGATCTTGTCTTCCTGTATTTGGTAGCGAAGTA-AGTCGAAGATTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGA-TCGAAGATTA
* *
55957473 CAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAGATCGAAGA-TA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957518 GCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGA-TA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957564 GTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATTA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* *
55957611 CAGATCTTGTCTTCCTGTATTTGGTAGCGGAGTAGATCGAAGA-TA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
* * *
55957656 GTAGATCTTGTCTTCCTGTATTTGGCAG-TAGAGCAGATCGAAGA-TA
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATTA
* * * *
55957702 GCAGGTCTTATCTCCCTGTATTTGGCAGCGAAGTAGATCGAAGATTG
1 -CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
55957749 CAGAT
1 CAGAT
55957754 TCTGTCACCC
Statistics
Matches: 657, Mismatches: 67, Indels: 34
0.87 0.09 0.04
Matches are distributed among these distances:
45 10 0.02
46 637 0.97
47 10 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (46 bp):
CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATTA
Found at i:55957214 original size:138 final size:138
Alignment explanation
Indices: 55956965--55957753 Score: 1215
Period size: 138 Copynumber: 5.7 Consensus size: 138
55956955 GACTAGAAGC
* * * *
55956965 AGCAGATCTTGTCTTCCTATATTTGGCAGCGAAGTAGATCGAAGATTA-CAGATCTTGTCTTCCT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGA-TAGTAGATCTTGTCTTCCT
* * ** * * * *
55957029 GTATTTGGCAGCGGAGTAGATCGAAAATTGTAGAACTTGCCTTCCTGTATTTGGTAGCGAAGTAG
65 GTATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
55957094 ATCGAAGAT
130 ATCGAAGAT
* * *
55957103 TGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTA
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* * * *
55957168 TATTTGGCAG-TAGAGTAGATCGAAGATTATAGATCTTATCTTCCTGTATTTGGCAGCAGAGTAG
66 TATTTGGCAGCGA-AGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
55957232 ATCGAAGAT
130 ATCGAAGAT
*
55957241 AGTAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* *
55957306 TATTTGGCAGCGAAGTAGGTCGAAGATTACAGATCTTATCTTCCTGTATTTGGCAGCGGAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
55957371 TCGAAGAT
131 TCGAAGAT
*
55957379 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAATAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* *
55957444 TATTTGGTAGCGAAGTA-AGTCGAAGATTACAGATCTTGTCTTCCTATATTTGGCAGCGGAGTAG
66 TATTTGGCAGCGAAGTAGA-TCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAG
55957508 ATCGAAGAT
130 ATCGAAGAT
55957517 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
* *
55957582 TATTTGGCAGCGAAGTAGGTCGAAGATTACAGATCTTGTCTTCCTGTATTTGGTAGCGGAGTAGA
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
55957647 TCGAAGAT
131 TCGAAGAT
* * * * * * *
55957655 AGTAGATCTTGTCTTCCTGTATTTGGCAGTAGAGCAGATCGAAGATAGCAGGTCTTATCTCCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
*
55957720 TATTTGGCAGCGAAGTAGATCGAAGATTGCAGAT
66 TATTTGGCAGCGAAGTAGATCGAAGATTACAGAT
55957754 TCTGTCACCC
Statistics
Matches: 603, Mismatches: 43, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
137 2 0.00
138 600 1.00
139 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (138 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGTGGAGTAGATCGAAGATAGTAGATCTTGTCTTCCTG
TATTTGGCAGCGAAGTAGATCGAAGATTACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTAGA
TCGAAGAT
Found at i:55958108 original size:128 final size:128
Alignment explanation
Indices: 55957967--55958653 Score: 1090
Period size: 128 Copynumber: 5.4 Consensus size: 128
55957957 TATTTAAGCC
* * * *
55957967 ATCAGTCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
* *
55958032 TTGCAGTAGAGCAGATCGCATCTAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
*
55958095 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
55958160 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* * *
55958223 ATCAATCCTATCTCTCTGAAGTTGCAATAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
** *
55958288 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAAAAGTAATGGAGTAGACGAAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* *
55958351 ATCAATCCTATCTCCCTGAAGTTACAGTGTG-GCGGATTAAAACCCCAGATCTTATCTCTCTAAA
1 ATCAATCCTATCTCCCTGAAGTTGCAGTG-GAGCGGATTAAAACCACAGATCTTATCTCTCTAAA
*
55958415 GTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
65 GTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
* *
55958479 ATCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTTAAG
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
* * * * ** * *
55958544 TTACAGTAGAGCAGATCACAACTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC-AGAAGAA
66 TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAGTAGACGA-AAGAA
*
55958608 ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
1 ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
55958654 GAATCTCGTC
Statistics
Matches: 522, Mismatches: 33, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
127 1 0.00
128 456 0.87
129 65 0.12
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (128 bp):
ATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAG
TTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAA
Found at i:55958586 original size:41 final size:44
Alignment explanation
Indices: 55957975--55958653 Score: 214
Period size: 44 Copynumber: 15.9 Consensus size: 44
55957965 CCATCAGTCC
* * * * *
55957975 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCCCAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * ** * *
55958019 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-GCATC-TAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * *
55958060 TATCTCCCT-AAG-CAGTAGTGGAGCAGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTA-CAGTGGAGCAGATC-AAA-ACCA-CAGATCT
* * *
55958103 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * ** *
55958147 TATCTCTCTGAAGTTGCAGTAGAGCAGATC-GCATCA-AG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * * *
55958188 TATCTCCCT-AAG-CAGTAGTGGAGTAGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTA-CAGTGGAGCAGATC-AAA-ACCA-CAGATCT
* * * * * *
55958231 TATCTCTCTGAAGTTGCAATAGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * * ** *
55958275 TATCTCTCTAAAGTTGCAGTAGAGCAGATC-GCATCA-AG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * *
55958316 TATCTCCCTAAAAAG-TA-A-TGGAGTAGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCT--GAAGTTACAGTGGAGCAGATC-AAA-ACCA-CAGATCT
* * *
55958359 TATCTCCCTGAAGTTACAGTGTG-GCGGATTAAAACCCCAGATCT
1 TATCTCCCTGAAGTTACAGTG-GAGCAGATCAAAACCACAGATCT
* * * * ** *
55958403 TATCTCTCTAAAGTTGCAGTAGAGCAGATC-GCATC-CAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * * *
55958444 TATCTCCCT-AAG-CAGTAGTGGAGTAGA-CGAAAGA-AATCA-ATCC
1 TATCTCCCTGAAGTTA-CAGTGGAGCAGATC-AAA-ACCA-CAGATCT
* *
55958487 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * * * *
55958531 TATCTCTCTTAAGTTACAGTAGAGCAGATCACAA-C-TAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
* * *
55958572 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCA-AA-ACCA-CAGATCT
* * *
55958616 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCAC
55958654 GAATCTCGTC
Statistics
Matches: 456, Mismatches: 120, Indels: 119
0.66 0.17 0.17
Matches are distributed among these distances:
39 4 0.01
40 46 0.10
41 78 0.17
42 19 0.04
43 79 0.17
44 227 0.50
45 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATCAAAACCACAGATCT
Found at i:55960182 original size:18 final size:19
Alignment explanation
Indices: 55960147--55960194 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
55960137 CTATTATAAC
55960147 TATT-TATATATATCATCT
1 TATTATATATATATCATCT
*
55960165 TATTATATATTTAT-ATCT
1 TATTATATATATATCATCT
55960183 TATTATATATAT
1 TATTATATATAT
55960195 CTATATATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTATATATATATCATCT
Found at i:55967229 original size:23 final size:22
Alignment explanation
Indices: 55967186--55967230 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
55967176 CAATTTAATC
* *
55967186 TATATTTTTCATTTTAATATTA
1 TATATTTTTAATATTAATATTA
*
55967208 TATATATTTTAATATTATTATTA
1 TATAT-TTTTAATATTAATATTA
55967231 ATTAATTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTTTTAATATTAATATTA
Found at i:55971210 original size:14 final size:14
Alignment explanation
Indices: 55971191--55971219 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
55971181 AAGATAGAAA
55971191 AGCAAGTAAATTGT
1 AGCAAGTAAATTGT
55971205 AGCAAGTAAATTGT
1 AGCAAGTAAATTGT
55971219 A
1 A
55971220 CCTAAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
AGCAAGTAAATTGT
Found at i:55975699 original size:6 final size:6
Alignment explanation
Indices: 55975688--55975713 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55975678 GGTTATTGGA
55975688 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
55975714 TTGGTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:55975890 original size:95 final size:94
Alignment explanation
Indices: 55975764--55976067 Score: 322
Period size: 95 Copynumber: 3.2 Consensus size: 94
55975754 TAAATAAGGG
* ** * * * * *
55975764 ATTAGGGTTTAAGGTTTGTCAATTAAATTAATTATAAATTTTTCAAAATTGGATTA-GGTTTCGT
1 ATTAGGGTTTAAGGTTTCTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGA
** *
55975828 GTTTATTATTTTTTAAGAAAAAATCAATTAA
66 GTTTA--GGTTTTTAAGAAAAAATCAAATAA
* * * * *
55975859 ATTAGGGTTTATGGTTTCTTGAGTAATTTAATTAAAAAATTTTAAAAATCAGATTAGGGTTTAGA
1 ATTAGGGTTTAAGGTTTCTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGA
* * *
55975924 GTTAAGGGTTTTTATGGAAAAATCAAATAA
66 GTTTA-GGTTTTTAAGAAAAAATCAAATAA
* *
55975954 ATTAGGGTTCAAGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAAATTAGATTAGGGTTTA
1 ATTAGGGTTTAAGGTTTCTTGAGTAAATTAATTATAAATTTTT--AAAAATTAGATTAGGGTTTA
* * *
55976019 GGGTTTAGGGTTTTAAGTAAAAACTCAAATAA
64 GAGTTTAGGTTTTTAAG-AAAAAATCAAATAA
*
55976051 ATTAGGGTTTAGGGTTT
1 ATTAGGGTTTAAGGTTT
55976068 AGGGTTACTT
Statistics
Matches: 169, Mismatches: 36, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
95 101 0.60
96 18 0.11
97 50 0.30
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (94 bp):
ATTAGGGTTTAAGGTTTCTTGAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGA
GTTTAGGTTTTTAAGAAAAAATCAAATAA
Found at i:55976330 original size:126 final size:126
Alignment explanation
Indices: 55976099--55976516 Score: 649
Period size: 126 Copynumber: 3.3 Consensus size: 126
55976089 CTATTAATTT
* * * *
55976099 AAAGAATCTCTCACGTGGACACGCTTTTGCTACAGTAGCTCCTGAAAAAAATAATTTCGAGTAGA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG-AAAAAATAATTTCGAGTTGA
55976164 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
65 CGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
* * *
55976226 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTTGAGTTGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
* * * *
55976291 GTTTCTGAGCAAATATTGTCAAAAACGCTTTAAGCAGGATACTTTGTCAGCAATAGTACTA
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
* *
55976352 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAATAGCTCTTGAAAAAATAATTTCGAGTTGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
* *
55976417 GTTTCTAAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCCTTGTCAGCAGA-AGTACTG
66 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCA-ATAGTACTG
* * *
55976478 AAAGAAGCTCCCACGGGGACGTGCTTTTGCTACAATAGC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGC
55976517 GCATGTTTGG
Statistics
Matches: 266, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
126 225 0.85
127 41 0.15
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAATAGTACTG
Found at i:55989828 original size:55 final size:55
Alignment explanation
Indices: 55989670--55989886 Score: 249
Period size: 55 Copynumber: 4.0 Consensus size: 55
55989660 ATTACAATTA
* * ** * ** *
55989670 ATTTAAATATATAAACAATCAATTTAAAATAAGTAGTATTCCAATACAACAATTG
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACATGACAATCG
* *
55989725 ATTTAAACATGTAAACAATCTA-TTAAAA-AAACAGTATTCCAACATGACAATCG
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACATGACAATCG
*
55989778 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACATGACAATCG
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACATGACAATCG
* * * * * * * *
55989833 GTTTAAACATAAAAACAATCGATTCAAAAGAAATAATATTCCAGCATGATAATC
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACATGACAATC
55989887 AATTAAGTGC
Statistics
Matches: 139, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 39 0.28
54 12 0.09
55 88 0.63
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.28
Consensus pattern (55 bp):
ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACATGACAATCG
Found at i:55989852 original size:108 final size:110
Alignment explanation
Indices: 55989670--55989886 Score: 267
Period size: 108 Copynumber: 2.0 Consensus size: 110
55989660 ATTACAATTA
* * ** * *
55989670 ATTTAAATATATAAACAATCAATTTAAAATAAGTAGTATTCCAATACAACAATTGATTTAAACAT
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
** * *
55989735 GTAAACAATCTATT-AAAA-AAACAGTATTCCAACATGACAATCG
66 AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATCG
* ** *
55989778 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCTAACATGACAATCGGTTTAAACAT
1 ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
* * *
55989843 AAAAACAATCGATTCAAAAGAAATAATATTCCAGCATGATAATC
66 AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATC
55989887 AATTAAGTGC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
108 66 0.73
109 4 0.04
110 20 0.22
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.28
Consensus pattern (110 bp):
ATTTAAACATATAAACAATCAATTTAAAAGAAACAGTATTCCAACACAACAATCGATTTAAACAT
AAAAACAATCGATTCAAAAGAAACAATATTCCAACATGACAATCG
Found at i:56006824 original size:12 final size:11
Alignment explanation
Indices: 56006800--56006834 Score: 54
Period size: 12 Copynumber: 3.2 Consensus size: 11
56006790 TTTCAACAAG
56006800 TTTTCC-TTCA
1 TTTTCCTTTCA
56006810 TTTTCCTTGTCA
1 TTTTCCTT-TCA
56006822 TTTTCCTTTCA
1 TTTTCCTTTCA
56006833 TT
1 TT
56006835 GTCTGCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.09, C:0.26, G:0.03, T:0.63
Consensus pattern (11 bp):
TTTTCCTTTCA
Found at i:56030452 original size:21 final size:21
Alignment explanation
Indices: 56030428--56030473 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
56030418 TACAAGTGAA
*
56030428 AAATAT-TATGCATAAAATAAT
1 AAATATATATACATAAAA-AAT
56030449 AAAT-TATATACATAAAAAAT
1 AAATATATATACATAAAAAAT
56030469 AAATA
1 AAATA
56030474 ATTGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATATATATACATAAAAAAT
Found at i:56030491 original size:17 final size:18
Alignment explanation
Indices: 56030460--56030499 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
56030450 AATTATATAC
56030460 ATAAAAAATAAATAATTG
1 ATAAAAAATAAATAATTG
*
56030478 ATAAAAAA-AGATAATTG
1 ATAAAAAATAAATAATTG
56030495 -TAAAA
1 ATAAAA
56030500 TTTATATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
ATAAAAAATAAATAATTG
Found at i:56034881 original size:2 final size:2
Alignment explanation
Indices: 56034874--56034917 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
56034864 GAGGCTAAAC
56034874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56034916 TA
1 TA
56034918 AACCATATCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56035314 original size:17 final size:16
Alignment explanation
Indices: 56035284--56035322 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
56035274 TTTAAAAATT
56035284 ATAA-TAAAAATATAA
1 ATAATTAAAAATATAA
*
56035299 ATCATTAAAAACTATAA
1 ATAATTAAAAA-TATAA
56035316 ATAATTA
1 ATAATTA
56035323 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 3 0.15
16 6 0.30
17 11 0.55
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATTAAAAATATAA
Found at i:56035354 original size:48 final size:46
Alignment explanation
Indices: 56035254--56035354 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 46
56035244 TAAATGTGAT
*
56035254 TATTAAAAAAATAAAATATTTTTAAAAATTATAATAAAAATATAAA
1 TATTAAAAAAATAAAATATTTTTAAAAATTATAATAAAAATAAAAA
* *
56035300 TCATT-AAAAACTATAAATAATTATTTAAAAATTCTAA-AAAAATAAAAAA
1 T-ATTAAAAAAATA-AAAT-ATT-TTTAAAAATTATAATAAAAAT-AAAAA
56035349 TATTAA
1 TATTAA
56035355 TAATAGAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
46 8 0.17
47 7 0.15
48 12 0.26
49 19 0.41
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (46 bp):
TATTAAAAAAATAAAATATTTTTAAAAATTATAATAAAAATAAAAA
Found at i:56035359 original size:16 final size:15
Alignment explanation
Indices: 56035338--56035387 Score: 57
Period size: 16 Copynumber: 3.3 Consensus size: 15
56035328 AAATTCTAAA
56035338 AAAATAAAAAATATT
1 AAAATAAAAAATATT
*
56035353 AATAATAGAAAA-ATT
1 AA-AATAAAAAATATT
*
56035368 AAATTATAAAAATATT
1 AAAATA-AAAAATATT
56035384 AAAA
1 AAAA
56035388 AGTATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 3 0.11
15 11 0.39
16 14 0.50
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAATAAAAAATATT
Found at i:56035395 original size:9 final size:8
Alignment explanation
Indices: 56035287--56035411 Score: 51
Period size: 9 Copynumber: 14.8 Consensus size: 8
56035277 AAAAATTATA
56035287 ATAAAAAT
1 ATAAAAAT
*
56035295 ATAAATCAT
1 ATAAA-AAT
56035304 -TAAAAACT
1 ATAAAAA-T
56035312 ATAAATAATT
1 ATAAA-AA-T
56035322 ATTTAAAAATT
1 A--TAAAAA-T
* *
56035333 CTAAAAAA
1 ATAAAAAT
56035341 ATAAAAAAT
1 AT-AAAAAT
*
56035350 ATTAATAAT
1 A-TAAAAAT
*
56035359 AGAAAAAT
1 ATAAAAAT
*
56035367 -T-AAATT
1 ATAAAAAT
56035373 ATAAAAAT
1 ATAAAAAT
56035381 ATTAAAAAGT
1 A-TAAAAA-T
*
56035391 ATAAAATT
1 ATAAAAAT
*
56035399 A-AAAAAA
1 ATAAAAAT
56035406 ATAAAA
1 ATAAAA
56035412 GATTATCAAA
Statistics
Matches: 88, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
6 4 0.05
7 7 0.08
8 27 0.31
9 35 0.40
10 7 0.08
11 4 0.05
12 4 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (8 bp):
ATAAAAAT
Found at i:56035573 original size:9 final size:9
Alignment explanation
Indices: 56035561--56035629 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
56035551 TTTTTCTTGG
*
56035561 AATTTTAAT
1 AATTTTTAT
56035570 AATTTTTAT
1 AATTTTTAT
56035579 -ATTTTTAT
1 AATTTTTAT
*
56035587 AATTATTT-G
1 AATT-TTTAT
*
56035596 AATTTCTAT
1 AATTTTTAT
* *
56035605 AATTTTAAA
1 AATTTTTAT
56035614 AATATTTTAT
1 AAT-TTTTAT
*
56035624 GATTTT
1 AATTTT
56035630 CGGATAACAT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 10 0.22
9 27 0.59
10 9 0.20
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:56035599 original size:26 final size:26
Alignment explanation
Indices: 56035570--56035620 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
56035560 GAATTTTAAT
* * * *
56035570 AATTTTTATATTTTTATAATTATTTG
1 AATTTCTATAATTTTAAAAATATTTG
56035596 AATTTCTATAATTTTAAAAATATTT
1 AATTTCTATAATTTTAAAAATATTT
56035621 TATGATTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
AATTTCTATAATTTTAAAAATATTTG
Found at i:56035600 original size:18 final size:17
Alignment explanation
Indices: 56035560--56035610 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
56035550 ATTTTTCTTG
*
56035560 GAATTTTAATAATTTTT
1 GAATTTTTATAATTTTT
56035577 -ATATTTTTATAATTATTT
1 GA-ATTTTTATAATT-TTT
*
56035595 GAATTTCTATAATTTT
1 GAATTTTTATAATTTT
56035611 AAAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 14 0.48
19 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
GAATTTTTATAATTTTT
Found at i:56039539 original size:19 final size:19
Alignment explanation
Indices: 56039511--56039547 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56039501 TAGTAAGAGG
56039511 ATTGTCAAAAAAAATTCTA
1 ATTGTCAAAAAAAATTCTA
*
56039530 ATTGTTAAAAAAAATTCT
1 ATTGTCAAAAAAAATTCT
56039548 TTAAAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (19 bp):
ATTGTCAAAAAAAATTCTA
Found at i:56040141 original size:31 final size:31
Alignment explanation
Indices: 56040101--56040204 Score: 104
Period size: 31 Copynumber: 3.3 Consensus size: 31
56040091 TTAAAACAGG
*
56040101 TGAGTTAATAATATTTTCATCATTATCTAAT
1 TGAGTTAATAATATTTTCATCATTATCCAAT
* ** * * *
56040132 TAAGTTAAT-ATCCGTTTAACTCATGA-CACAAG
1 TGAGTTAATAAT-ATTTTCA-TCATTATC-CAAT
56040164 TGAGTTAATAATATTTTCATCATTATCCAAT
1 TGAGTTAATAATATTTTCATCATTATCCAAT
56040195 TGAGTTAATA
1 TGAGTTAATA
56040205 TCCGTTTAAC
Statistics
Matches: 55, Mismatches: 13, Indels: 10
0.71 0.17 0.13
Matches are distributed among these distances:
30 2 0.04
31 31 0.56
32 20 0.36
33 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (31 bp):
TGAGTTAATAATATTTTCATCATTATCCAAT
Found at i:56040172 original size:32 final size:32
Alignment explanation
Indices: 56040134--56040229 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 32
56040124 TATCTAATTA
*
56040134 AGTTAATATCCGTTTAACTCATGACACAAGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
** * * *
56040166 AGTTAATAAT-ATTTTCA-TCATTATC-CAATTG
1 AGTTAAT-ATCCGTTTAACTCATCA-CACAAGTG
*
56040197 AGTTAATATCCGTTTAACTCATCACACAGGTG
1 AGTTAATATCCGTTTAACTCATCACACAAGTG
56040229 A
1 A
56040230 TTATCTCCCA
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
30 2 0.04
31 22 0.46
32 22 0.46
33 2 0.04
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
AGTTAATATCCGTTTAACTCATCACACAAGTG
Found at i:56040174 original size:63 final size:63
Alignment explanation
Indices: 56040100--56040229 Score: 224
Period size: 63 Copynumber: 2.1 Consensus size: 63
56040090 CTTAAAACAG
* *
56040100 GTGAGTTAATAATATTTTCATCATTATCTAATTAAGTTAATATCCGTTTAACTCATGACACAA
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
* *
56040163 GTGAGTTAATAATATTTTCATCATTATCCAATTGAGTTAATATCCGTTTAACTCATCACACAG
1 GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
56040226 GTGA
1 GTGA
56040230 TTATCTCCCA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (63 bp):
GTGAGTTAATAATATTTTCATCATTATCCAATTAAGTTAATATCCGTTTAACTCATCACACAA
Found at i:56042889 original size:28 final size:27
Alignment explanation
Indices: 56042824--56042891 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 27
56042814 TTATAGCATG
* *
56042824 TTTATT-TTTATTTTAAAAATATGAATT
1 TTTATTATTT-TTTTAAAAATAGGAACT
*
56042851 TTTATAGTATTTTTTTAAACATAGGAAACT
1 TTTAT--TATTTTTTTAAAAATAGG-AACT
56042881 TTTATTATTTT
1 TTTATTATTTT
56042892 AATTTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 5 0.15
28 6 0.18
29 12 0.35
30 11 0.32
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTATTATTTTTTTAAAAATAGGAACT
Found at i:56043193 original size:15 final size:15
Alignment explanation
Indices: 56043175--56043209 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
56043165 TTAGTCACTG
56043175 AATTTACAGTGAATT
1 AATTTACAGTGAATT
56043190 AATTTACAGTGAATT
1 AATTTACAGTGAATT
56043205 AATTT
1 AATTT
56043210 GGAAGCAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (15 bp):
AATTTACAGTGAATT
Found at i:56046779 original size:26 final size:28
Alignment explanation
Indices: 56046725--56046788 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
56046715 TAAGAATAAG
* * *
56046725 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
56046753 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
56046779 AATTATATTT
1 AATTATATTT
56046789 TAGTATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.39
27 6 0.18
28 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:56046864 original size:17 final size:17
Alignment explanation
Indices: 56046844--56046877 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
56046834 TTTATTAACA
56046844 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
56046861 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
56046878 TCTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:56047069 original size:39 final size:41
Alignment explanation
Indices: 56047024--56047129 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 41
56047014 TTTCCTTATG
*
56047024 CTATTACACCTCTATTCCATTCAACCAAACACAAA-AA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACA-AAAGAATTAC
56047064 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
56047109 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
56047130 ACGCTTCTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
43 3 0.05
44 16 0.28
45 5 0.09
46 14 0.25
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:56047124 original size:46 final size:44
Alignment explanation
Indices: 56047041--56047131 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
56047031 ACCTCTATTC
56047041 CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
56047085 CATTCAACCAAACA-AAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAA-AA-TACC-ATTACGCCTCTATTCCATTA
56047131 C
1 C
56047132 GCTTCTATTC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
43 3 0.07
44 16 0.36
45 4 0.09
46 21 0.48
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.26
Consensus pattern (44 bp):
CATTCAACCAAACACAAAAATACCATTACGCCTCTATTCCATTA
Found at i:56047132 original size:16 final size:16
Alignment explanation
Indices: 56047111--56047147 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
56047101 AGAATTACCT
56047111 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* *
56047127 ATTACGCTTCTATTCT
1 ATTACGCCTCTATTCC
56047143 ATTAC
1 ATTAC
56047148 AGCGAACCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.30, G:0.05, T:0.43
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:56053140 original size:22 final size:22
Alignment explanation
Indices: 56053102--56053143 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
56053092 ATTTTTGTCC
*
56053102 TTTATTTTACTTTATTCATTTA
1 TTTATTTTACTTAATTCATTTA
56053124 TTTATTTTA-TATAATTCATT
1 TTTATTTTACT-TAATTCATT
56053144 AGTTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTTACTTAATTCATTTA
Found at i:56054105 original size:42 final size:42
Alignment explanation
Indices: 56054008--56054338 Score: 322
Period size: 42 Copynumber: 7.8 Consensus size: 42
56053998 CAACCAAAAA
* * * * *** * *
56054008 CGCCGCTAAAGATCATGTTCTTTAACGGCGCTTTGAGAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
* * * * *
56054050 CGCCACTGAAGAACATGGTCTTCAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
* *
56054092 TGCCGCTAAAGAACATGATCTTTAACGGCGTTTTTTTATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
*
56054134 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTATAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
* * *
56054176 CGCCACTAAAGAACATGATTTTTAGTGGCG-TTTTTTATTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTA-TAAG
* * * * * * *
56054218 CGCAGCTAAAGAACATGTTCTTTAACGGCGCTTTGTATAAAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTATAAG
* * * *
56054261 CGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTTTTTTACAAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTTATAAG
* * *
56054304 CACCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
56054339 GTACAAAAAC
Statistics
Matches: 240, Mismatches: 46, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
41 6 0.03
42 162 0.68
43 67 0.28
44 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTATAAG
Found at i:56054233 original size:126 final size:126
Alignment explanation
Indices: 56054003--56054338 Score: 379
Period size: 126 Copynumber: 2.6 Consensus size: 126
56053993 GTTTACAACC
* * * * * *
56054003 AAAAACGCCGCTAAAGATCATGTTCTTTAACGGCGCTTTGAGAAAAACGCCACTGAAGAACATGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATAAAAACGCCACTAAAGAACAT-G
* * * * * *
56054068 TCTTCAGCGGCGTTTTTTTCTAAGTGCCGCTAAAGAACATGATCTTTAACGGCG-TTTTTTT
65 TTTTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGATCTTTAACGGCGCTTTGTAT
* * * * * *
56054129 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTATAAGCGCCACTAAAGAACATGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATAAAAACGCCACTAAAGAACATG-
* *
56054194 TTTTTAGTGGCGTTTTTTAT-TAAGCGCAGCTAAAGAACATGTTCTTTAACGGCGCTTTGTAT
65 TTTTTAGCGGCGTTTTTT-TCTAAGCGCAGCTAAAGAACATGATCTTTAACGGCGCTTTGTAT
* * * * *
56054256 AAAAACGCCGCTAAAGAACATGTTCTTCAGCGGCGCTTTTTTTACAAACACCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTATAAAAACGCCACTAAAGAACATG
*
56054321 TTCTTTAGCGGCGCTTTT
65 TT-TTTAGCGGCGTTTTT
56054339 GTACAAAAAC
Statistics
Matches: 174, Mismatches: 31, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
125 1 0.01
126 97 0.56
127 39 0.22
128 37 0.21
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATAAAAACGCCACTAAAGAACATGT
TTTTAGCGGCGTTTTTTTCTAAGCGCAGCTAAAGAACATGATCTTTAACGGCGCTTTGTAT
Found at i:56054747 original size:21 final size:21
Alignment explanation
Indices: 56054723--56054773 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
56054713 TTCTTTTGAA
*
56054723 CCTCTGCTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTGCAG
*
56054744 CCTCTGCTTCCCTCGCTGCCG
1 CCTCTGCTTCCCTCGCTGCAG
*
56054765 CGTCTGCTT
1 CCTCTGCTT
56054774 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.45, G:0.20, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTGCAG
Found at i:56066638 original size:27 final size:27
Alignment explanation
Indices: 56066607--56066689 Score: 148
Period size: 27 Copynumber: 3.1 Consensus size: 27
56066597 GTATTATGTA
*
56066607 ATGTAAGTTATGTAATTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
*
56066634 ATGTAAGTTATGTAAGTTGTTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
56066661 ATGTAAGTTATGTAAGTTATTTAATTT
1 ATGTAAGTTATGTAAGTTATTTAATTT
56066688 AT
1 AT
56066690 TGAAATGCAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (27 bp):
ATGTAAGTTATGTAAGTTATTTAATTT
Found at i:56066690 original size:9 final size:9
Alignment explanation
Indices: 56066607--56066680 Score: 94
Period size: 9 Copynumber: 8.2 Consensus size: 9
56066597 GTATTATGTA
56066607 ATGTAAGTT
1 ATGTAAGTT
*
56066616 ATGTAATTT
1 ATGTAAGTT
* *
56066625 ATTTAATTT
1 ATGTAAGTT
56066634 ATGTAAGTT
1 ATGTAAGTT
56066643 ATGTAAGTT
1 ATGTAAGTT
* * *
56066652 GTTTAATTT
1 ATGTAAGTT
56066661 ATGTAAGTT
1 ATGTAAGTT
56066670 ATGTAAGTT
1 ATGTAAGTT
56066679 AT
1 AT
56066681 TTAATTTATT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.51
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:56066910 original size:16 final size:15
Alignment explanation
Indices: 56066897--56067031 Score: 84
Period size: 16 Copynumber: 8.7 Consensus size: 15
56066887 TCGTATTATG
56066897 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
*
56066912 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
56066928 TAAGTTATGTAAGTT-A
1 TAAGTTATGT-A-TTAA
* **
56066944 T--GTATCATTTATCCA
1 TAAGT-T-ATGTATTAA
*
56066959 TAA---ATATATTAA
1 TAAGTTATGTATTAA
*
56066971 TAAGTTATGTCGTATTATG
1 TAAGTTA--T-GTATTA-A
56066990 TAAGTTATGTATTATA
1 TAAGTTATGTATTA-A
56067006 TAAGTTATGTATTAA
1 TAAGTTATGTATTAA
56067021 TAAGTTATGTA
1 TAAGTTATGTA
56067032 AGTTATGTAT
Statistics
Matches: 95, Mismatches: 10, Indels: 30
0.70 0.07 0.22
Matches are distributed among these distances:
12 9 0.09
14 3 0.03
15 26 0.27
16 41 0.43
17 4 0.04
18 5 0.05
19 7 0.07
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:56066985 original size:93 final size:92
Alignment explanation
Indices: 56066882--56067288 Score: 616
Period size: 93 Copynumber: 4.5 Consensus size: 92
56066872 ATTTATGTTA
56066882 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
56066947 ATCATTTATCCATAAATATATTAATAAG
66 ATCATTT-TCCATAAATATATTAATAAG
*
56066975 TTATGTCGTATTATGTAAGTTATGTATTATATAA-GTTATGTATTAATAAGTTATGTAAGTTATG
1 TTATGTCGTATTATGTAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTATG
56067039 TATCA-TTT---TAAA-ATA-T-ATAAG
65 TATCATTTTCCATAAATATATTAATAAG
*
56067060 TTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
56067125 ATCATTTATCCATAAATATATTAATAAG
66 ATCATTT-TCCATAAATATATTAATAAG
* * *
56067153 TTATGTCGTATTATGTAAGTTATATATTATATAA-GTTATGTATTAATAAATTATGTAAGTTATG
1 TTATGTCGTATTATGTAAGTTATGTATTA-AAAATGTTATGTATTAATAAGTTATGTAAGTTATG
** *
56067217 TATCATTTTAAAATATATATATTAATAAG
65 TATCATTTT-CCATAAATATATTAATAAG
* *
56067246 TTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTAT
56067289 AAGTTATGTC
Statistics
Matches: 288, Mismatches: 13, Indels: 26
0.88 0.04 0.08
Matches are distributed among these distances:
84 3 0.01
85 68 0.24
86 3 0.01
87 4 0.01
88 4 0.01
90 4 0.01
91 4 0.01
92 7 0.02
93 185 0.64
94 6 0.02
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (92 bp):
TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTTCCATAAATATATTAATAAG
Found at i:56066999 original size:9 final size:9
Alignment explanation
Indices: 56066985--56067040 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
56066975 TTATGTCGTA
56066985 TTATGTAAG
1 TTATGTAAG
56066994 TTATGT-A-
1 TTATGTAAG
*
56067001 TTATATAAG
1 TTATGTAAG
56067010 TTATGT-A-
1 TTATGTAAG
*
56067017 TTA-ATAAG
1 TTATGTAAG
56067025 TTATGTAAG
1 TTATGTAAG
56067034 TTATGTA
1 TTATGTA
56067041 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:56067031 original size:40 final size:40
Alignment explanation
Indices: 56066985--56067126 Score: 128
Period size: 40 Copynumber: 3.4 Consensus size: 40
56066975 TTATGTCGTA
56066985 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
* * * **
56067025 TTATGTAAGTTATGTATCATTTTAAAATATATAAGTTATGTCGT-A-
1 TTATGTAAGTTATGTATTA-TAT-AAGT-TAT--G-TAT-TAATAAG
* *
56067070 TTATGTAAGTTATCTATTA-AAAATGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATTATATAA-GTTATGTATTAATAAG
56067110 TTATGTAAGTTATGTAT
1 TTATGTAAGTTATGTAT
56067127 CATTTATCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
38 2 0.03
39 4 0.05
40 35 0.44
41 2 0.03
42 8 0.10
43 4 0.05
45 18 0.23
46 4 0.05
47 2 0.03
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (40 bp):
TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
Found at i:56067109 original size:50 final size:50
Alignment explanation
Indices: 56067055--56067288 Score: 178
Period size: 43 Copynumber: 5.0 Consensus size: 50
56067045 TTTAAAATAT
*
56067055 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTA
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTATTA
* * * ** *
56067105 ATAAGTTATGT--AAGTTATGT-A-TCATTTATCCATAA--ATA--TATTA
1 ATAAGTTATGTCGTA-TTATGTAAGTTATCTATTAAAAATGATATGTATTA
* * *
56067148 ATAAGTTATGTCGTATTATGTAAGTTATATATTATATAA-GTTATGTATTA
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTA-AAAATGATATGTATTA
* * * *
56067198 ATAAATTATGT--AAGTTATGT-A-TCAT-T-TT-AAAAT-ATATATATTA
1 ATAAGTTATGTCGTA-TTATGTAAGTTATCTATTAAAAATGATATGTATTA
* *
56067241 ATAAGTTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTAT
56067289 AAGTTATGTC
Statistics
Matches: 141, Mismatches: 24, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
43 37 0.26
44 11 0.08
45 8 0.06
46 10 0.07
47 17 0.12
48 8 0.06
49 17 0.12
50 33 0.23
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (50 bp):
ATAAGTTATGTCGTATTATGTAAGTTATCTATTAAAAATGATATGTATTA
Found at i:56067114 original size:15 final size:15
Alignment explanation
Indices: 56067075--56067116 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
56067065 TCGTATTATG
*
56067075 TAAGTTATCTATTAA
1 TAAGTTATGTATTAA
*
56067090 AAATGTTATGTATTAA
1 TAA-GTTATGTATTAA
56067106 TAAGTTATGTA
1 TAAGTTATGTA
56067117 AGTTATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (15 bp):
TAAGTTATGTATTAA
Found at i:56067142 original size:178 final size:184
Alignment explanation
Indices: 56066882--56067288 Score: 709
Period size: 178 Copynumber: 2.2 Consensus size: 184
56066872 ATTTATGTTA
56066882 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
*
56066947 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATGTATTATATAAGTT
66 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
*
56067012 ATGTATTAATAAGTTATGTAAGTTATGTATCATTTT-A-A-A-ATA-T-ATAAG
131 ATGTATTAATAAATTATGTAAGTTATGTATCATTTTAATATATATATTAATAAG
*
56067060 TTATGTCGTATTATGTAAGTTATCTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
56067125 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
66 ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
56067190 ATGTATTAATAAATTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
131 ATGTATTAATAAATTATGTAAGTTATGTATCATTTT--AATATATATATTAATAAG
* *
56067246 TTATGTCGTATTATATAAGTTATGTATTAAAAATGATATGTAT
1 TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTAT
56067289 AAGTTATGTC
Statistics
Matches: 215, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
178 163 0.76
181 1 0.00
182 1 0.00
183 1 0.00
184 3 0.01
185 1 0.00
186 45 0.21
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (184 bp):
TTATGTCGTATTATGTAAGTTATGTATTAAAAATGTTATGTATTAATAAGTTATGTAAGTTATGT
ATCATTTATCCATAAATATATTAATAAGTTATGTCGTATTATGTAAGTTATATATTATATAAGTT
ATGTATTAATAAATTATGTAAGTTATGTATCATTTTAATATATATATTAATAAG
Found at i:56067182 original size:16 final size:16
Alignment explanation
Indices: 56067161--56067206 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
56067151 AGTTATGTCG
*
56067161 TATTATGTAAGTTATA
1 TATTATATAAGTTATA
*
56067177 TATTATATAAGTTATG
1 TATTATATAAGTTATA
*
56067193 TATTA-ATAAATTAT
1 TATTATATAAGTTAT
56067207 GTAAGTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATTATATAAGTTATA
Found at i:56069204 original size:15 final size:15
Alignment explanation
Indices: 56069184--56069217 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
56069174 ATAAAACTCA
56069184 TAAACCACAAAACAC
1 TAAACCACAAAACAC
* *
56069199 TAAACCACCAAACCC
1 TAAACCACAAAACAC
56069214 TAAA
1 TAAA
56069218 ATCCAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.35, G:0.00, T:0.09
Consensus pattern (15 bp):
TAAACCACAAAACAC
Found at i:56070364 original size:206 final size:205
Alignment explanation
Indices: 56070004--56070379 Score: 531
Period size: 206 Copynumber: 1.8 Consensus size: 205
56069994 TTTTTTAGGC
* ** * * *
56070004 AAAGCGCCGCTAAATGCCACTATACCTCACGGCCAAACGATGCGTTTTGATTAACTTTTTGCGGC
1 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGTTTTGATTAAATTTCTGCGGC
*
56070069 GTTTACTAGTTAAGCGTCGTTAATACCGATCTTTAGCAGCGTTTTTCAATTAGCGCCGCGAAATC
66 GTTTACTAGTTAAGCGCCGTTAATACCGATCTTTAGCAGCGTTTTTCAATTAGCGCCGCGAAATC
* *
56070134 CAGAATTGATCAAAACCGAACGCTGCGTTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTG
131 CA-AATTGATCAAAACCAAACGCTGCATTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTG
56070199 GCGTTTGGTTT
195 GCGTTTGGTTT
*
56070210 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGTTTTGGTTAAATTTCTGCGGC
1 AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGTTTTGATTAAATTTCTGCGGC
* * * * * * * *
56070275 GTTTATTCGTTAAGCGCCGTTAATTCTGATCTTTCGCGGCGATTTTT-TATTAGCGCCGCTGGAA
66 GTTTACTAGTTAAGCGCCGTTAATACCGATCTTTAGCAGCG-TTTTTCAATTAGCGCCGC-GAAA
*
56070339 TCGC-AATTGATTAAAACCAAACGCTGCATTTAGTTTTAACA
129 TC-CAAATTGATCAAAACCAAACGCTGCATTTAGTTTTAACA
56070380 GACTCGGCGG
Statistics
Matches: 148, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
206 137 0.93
207 10 0.07
208 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (205 bp):
AAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGTTTTGATTAAATTTCTGCGGC
GTTTACTAGTTAAGCGCCGTTAATACCGATCTTTAGCAGCGTTTTTCAATTAGCGCCGCGAAATC
CAAATTGATCAAAACCAAACGCTGCATTTAGTTTTAACATATTTTACGGCGTTTTTCTTTAGTGG
CGTTTGGTTT
Found at i:56070646 original size:230 final size:227
Alignment explanation
Indices: 56070190--56070828 Score: 725
Period size: 230 Copynumber: 2.8 Consensus size: 227
56070180 ACGGCGTTTT
* *
56070190 TCTTTAGTGGCGTTTGGTTTAAAGCGCCGCTAAATGCCACCATAAATCAAGGCCAAACGATGCGT
1 TCTTTAGTGGCG-TTGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCGT
* * *
56070255 TTTGGTTAAATTTCTGCGGCGTTTATTCGTTAAGCGCCGTTAAT-TCTGATCTTTCGCGGCGATT
65 TTTGGTTAACTTTCTGCGGCGTTTA-TCGATAAGCGCCGTTAATATCTGATCTTTAGCGGCG-TT
* * * * * * * *
56070319 TTT-TATTAGCGCCGCTGGAATCGCAATTGATTAAAACCAAACGCTGCATTTAGTTTTAACAGAC
128 TTTATGTTAGCGCCGCT-AAACCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAACAGAC
* * *
56070383 TCGGCGGCGTTTTAACAAAAACGCCGTTAATGAAGA
192 TCGGCGGCGCTATAACAAAAACGCCGCTAATGAAGA
*
56070419 TCTTTAGTGGCGTTCAGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAATGATGCG
1 TCTTTAGTGGCGTT--GGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCG
* * * *
56070484 TTTTGGTTAGCTTTCTGCGGCGTTTATCCGGTAAGCGCTGTTAATATC-GATTTTTAGCGGCGTT
64 TTTTGGTTAACTTTCTGCGGCGTTTAT-CGATAAGCGCCGTTAATATCTGATCTTTAGCGGCGTT
* * *
56070548 TTTATGTTTGCGCCGCTAAAGCCACAATTGATGAACACCGAACGCTGCGTTTAGTTTTAACA-TC
128 TTTATGTTAGCGCCGCTAAA-CCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAACAGAC
** **** *
56070612 TTTTGCGGCGCTATGGTGAAATCGCCGCTAATGAAGA
192 -TCGGCGGCGCTATAACAAAAACGCCGCTAATGAAGA
* * * * *
56070649 TCTTTAGTGGCGTT-GTAACTAAAGCGCCGCTAAATGCCACTATACCTCGAGGCCAAACGATGCA
1 TCTTTAGTGGCGTTGGTTA--AAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCG
* ** *
56070713 TTTTGGTTAACTTTCTGTGGCGTTTAGTATATAAGCGCCGTTAATA-CTGATCTTTGGCGGCGTT
64 TTTTGGTTAACTTTCTGCGGCGTTTA-TCGATAAGCGCCGTTAATATCTGATCTTTAGCGGCGTT
* *
56070777 TCTA-GATTAGCGCCGCTAAACCAACAATTGATCAACACCGAACCCTGCGTTT
128 TTTATG-TTAGCGCCGCTAAACC-ACAATTGATCAACACCGAACGCTGCGTTT
56070829 TGCTTTAATA
Statistics
Matches: 350, Mismatches: 47, Indels: 26
0.83 0.11 0.06
Matches are distributed among these distances:
227 3 0.01
228 6 0.02
229 155 0.44
230 184 0.53
231 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (227 bp):
TCTTTAGTGGCGTTGGTTAAAAGCGCCGCTAAATGCCACCATACATCAAGGCCAAACGATGCGTT
TTGGTTAACTTTCTGCGGCGTTTATCGATAAGCGCCGTTAATATCTGATCTTTAGCGGCGTTTTT
ATGTTAGCGCCGCTAAACCACAATTGATCAACACCGAACGCTGCGTTTAGTTTTAACAGACTCGG
CGGCGCTATAACAAAAACGCCGCTAATGAAGA
Found at i:56078422 original size:18 final size:20
Alignment explanation
Indices: 56078389--56078443 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
56078379 TATTTTTCTA
56078389 AAAATA-TAT-ATAAAATAT-
1 AAAATATTATAAT-AAATATG
*
56078407 AAAATGTT-TAATAAATATG
1 AAAATATTATAATAAATATG
*
56078426 CAAATATTATAATAAATA
1 AAAATATTATAATAAATA
56078444 CCAGTCATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.40
19 9 0.30
20 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATATTATAATAAATATG
Found at i:56081957 original size:27 final size:26
Alignment explanation
Indices: 56081927--56081982 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
56081917 TATTTTTGCT
*
56081927 TTTAATAAT-TAATGAATTATTTTTAAA
1 TTTAATAATAT-ATGAAATA-TTTTAAA
*
56081954 TTTAATGATATATGAAATATTTTAAA
1 TTTAATAATATATGAAATATTTTAAA
56081980 TTT
1 TTT
56081983 TTAGATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 15 0.58
28 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (26 bp):
TTTAATAATATATGAAATATTTTAAA
Found at i:56086632 original size:47 final size:47
Alignment explanation
Indices: 56086576--56086857 Score: 240
Period size: 47 Copynumber: 5.7 Consensus size: 47
56086566 TTTATTTCAA
*
56086576 TGCATAACAAATATATATACATTCGGCCATAGTTTAATTCATTTCTC
1 TGCATAACAAATATATATACATTCGGCCATAGATTAATTCATTTCTC
* * * * **
56086623 TGCATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAA
1 TGCATAACAAATATATATACATTCGGCCATAGATTAATTCATTTCTC
* * *
56086670 TGTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTC
1 TGCATAAC-AA-ATATATATACATTCGGCCAT-A--GAT-TAA-TTC-----A-TT-TCTC
* *
56086731 AATGCATAACAAATATATATACGTTCGGCCATAGCTTAATTCATTTCTC
1 --TGCATAACAAATATATATACATTCGGCCATAGATTAATTCATTTCTC
* * ** * **
56086780 TGCATAACAATTACATATACATTCAACTATAGATTAATTCATTTCAA
1 TGCATAACAAATATATATACATTCGGCCATAGATTAATTCATTTCTC
*
56086827 TGTATAACAAATATATATACATTCGGCCATA
1 TGCATAACAAATATATATACATTCGGCCATA
56086858 ACCTATGTAA
Statistics
Matches: 183, Mismatches: 36, Indels: 32
0.73 0.14 0.13
Matches are distributed among these distances:
47 110 0.60
48 2 0.01
49 19 0.10
50 3 0.02
51 1 0.01
52 2 0.01
53 3 0.02
54 3 0.02
56 3 0.02
57 3 0.02
58 1 0.01
59 1 0.01
60 3 0.02
61 20 0.11
62 2 0.01
63 7 0.04
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (47 bp):
TGCATAACAAATATATATACATTCGGCCATAGATTAATTCATTTCTC
Found at i:56086897 original size:155 final size:157
Alignment explanation
Indices: 56086527--56086912 Score: 688
Period size: 157 Copynumber: 2.5 Consensus size: 157
56086517 AACAATTCAC
* * *
56086527 TATAT-TACATTCGGCCATAGCTTATGTAACTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
* *
56086591 TATACATTCGGCCATAGTTTAATTCATTTCTCTGCATAACAATTACATATACATTCAGCTATAGA
66 TATACATTCGGCCATAGCTTAATTCATTTCTCTGCATAACAATTACATATACATTCAACTATAGA
56086656 TTAATTCATTTCAATGTATAACAAATA
131 TTAATTCATTTCAATGTATAACAAATA
56086683 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
*
56086748 TATACGTTCGGCCATAGCTTAATTCATTTCTCTGCATAACAATTACATATACATTCAACTATAGA
66 TATACATTCGGCCATAGCTTAATTCATTTCTCTGCATAACAATTACATATACATTCAACTATAGA
56086813 TTAATTCATTTCAATGTATAAC-AA-A
131 TTAATTCATTTCAATGTATAACAAATA
*
56086838 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAAATTATTTCAATGCATAACAAATATA
1 TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
56086903 TATACATTCG
66 TATACATTCG
56086913 TAGTTAATTT
Statistics
Matches: 221, Mismatches: 8, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
155 74 0.33
156 7 0.03
157 140 0.63
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (157 bp):
TATATATACATTCGGCCATAACCTATGTAATTTCAAATAATTTATTTCAATGCATAACAAATATA
TATACATTCGGCCATAGCTTAATTCATTTCTCTGCATAACAATTACATATACATTCAACTATAGA
TTAATTCATTTCAATGTATAACAAATA
Found at i:56103890 original size:41 final size:43
Alignment explanation
Indices: 56103786--56103890 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
56103776 GGAGCAACGT
*
56103786 TAGCGGCGTTTTTCCCATAAATGCCGCAAAAGGTTAAATACGA
1 TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACGA
* ** * * *
56103829 TAGCGGCATTTTTCTTATAAACGCCGCTAAAGG-TAAA-GCTA
1 TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACGA
*
56103870 TAGCGGCGTTTTGCCCATAAA
1 TAGCGGCGTTTTTCCCATAAA
56103891 TGCTATGAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 19 0.37
42 4 0.08
43 28 0.55
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTTTCCCATAAACGCCGCAAAAGGTTAAATACGA
Found at i:56112456 original size:30 final size:31
Alignment explanation
Indices: 56112421--56112478 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
56112411 ATGGTCACCA
56112421 AACTATTC-AAAGTTTTCATTTAAGTCATTG
1 AACTATTCGAAAGTTTTCATTTAAGTCATTG
*
56112451 AACTATTCGAAAGTTTTTATTTAAGTCA
1 AACTATTCGAAAGTTTTCATTTAAGTCA
56112479 CTGGCTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (31 bp):
AACTATTCGAAAGTTTTCATTTAAGTCATTG
Found at i:56114606 original size:19 final size:22
Alignment explanation
Indices: 56114567--56114609 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
56114557 AATGTATATA
56114567 TATTAATCAATTATATTTAATT
1 TATTAATCAATTATATTTAATT
56114589 TATTAA-CAA-TAT-TTTAATT
1 TATTAATCAATTATATTTAATT
56114608 TA
1 TA
56114610 CTTTACTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 3 0.14
22 6 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTAATCAATTATATTTAATT
Found at i:56117667 original size:21 final size:19
Alignment explanation
Indices: 56117630--56117668 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
56117620 TGATGTTTAT
*
56117630 ATTTTTTTATTAATTTAAA
1 ATTTTTTTATGAATTTAAA
56117649 ATTTTTTTAGTGAAGTTTAA
1 ATTTTTTTA-TGAA-TTTAA
56117669 TCATTAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
ATTTTTTTATGAATTTAAA
Found at i:56117872 original size:9 final size:8
Alignment explanation
Indices: 56117838--56117871 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
56117828 ATAATTAATT
56117838 TAAAAATTA
1 TAAAAA-TA
56117847 TAAAAATA
1 TAAAAATA
56117855 TAAAAATA
1 TAAAAATA
56117863 T-AAAATA
1 TAAAAATA
56117870 TA
1 TA
56117872 TGTAGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 11 0.46
9 6 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
TAAAAATA
Found at i:56117872 original size:17 final size:17
Alignment explanation
Indices: 56117838--56117871 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
56117828 ATAATTAATT
56117838 TAAAAATTATAAAAATA
1 TAAAAATTATAAAAATA
56117855 TAAAAA-TAT-AAAATA
1 TAAAAATTATAAAAATA
56117870 TA
1 TA
56117872 TGTAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAAATTATAAAAATA
Found at i:56119375 original size:16 final size:16
Alignment explanation
Indices: 56119354--56119384 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56119344 GGGTTGGATG
*
56119354 AATAGAATAGGATTGA
1 AATAGAATAGAATTGA
56119370 AATAGAATAGAATTG
1 AATAGAATAGAATTG
56119385 TAATCTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (16 bp):
AATAGAATAGAATTGA
Found at i:56122534 original size:21 final size:19
Alignment explanation
Indices: 56122478--56122538 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
56122468 TAATTATTTA
56122478 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
56122497 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
56122516 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
56122537 TT
1 TT
56122539 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:56126068 original size:2 final size:2
Alignment explanation
Indices: 56126063--56126092 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56126053 CTATTATATA
56126063 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
56126093 ATTAAGAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:56133058 original size:23 final size:22
Alignment explanation
Indices: 56133020--56133068 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
56133010 AAAAACCTAT
56133020 AATATA-TAT-AAATTTATAAA
1 AATATATTATAAAATTTATAAA
*
56133040 AATATATTATAAAATTT-TATA
1 AATATATTATAAAATTTATAAA
56133061 AATATATT
1 AATATATT
56133069 TGTATAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 14 0.54
22 6 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATATATTATAAAATTTATAAA
Found at i:56133066 original size:37 final size:37
Alignment explanation
Indices: 56132986--56133083 Score: 94
Period size: 37 Copynumber: 2.6 Consensus size: 37
56132976 AAAATATATA
*
56132986 AAATATAAACTTATAAAAATAT-TTAAAAACCTATAAT
1 AAATATAAATTTATAAAAATATATTAAAAA-CTATAAT
* * *
56133023 ATATATAAATTTATAAAAATATATTATAAAA-TTTTAT
1 AAATATAAATTTATAAAAATATATTA-AAAACTATAAT
*
56133060 AAATAT-ATTTGTATAAAAAATATA
1 AAATATAAATT-TAT-AAAAATATA
56133084 AACATATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 3 0.06
37 32 0.63
38 12 0.24
39 4 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (37 bp):
AAATATAAATTTATAAAAATATATTAAAAACTATAAT
Found at i:56138970 original size:21 final size:20
Alignment explanation
Indices: 56138936--56138985 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
56138926 TTATATTGAG
*
56138936 ATTTTCAAAAATATATGAAA
1 ATTTTTAAAAATATATGAAA
*
56138956 ATTTTTAAAATATATATTAAA
1 ATTTTTAAAA-ATATATGAAA
*
56138977 ATATTTAAA
1 ATTTTTAAA
56138986 TTTTGTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTTTTAAAAATATATGAAA
Found at i:56142497 original size:16 final size:16
Alignment explanation
Indices: 56142478--56142533 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
56142468 ATAAAACTCT
56142478 TTAAAATTTAAAAAAA
1 TTAAAATTTAAAAAAA
56142494 TTAAAATTTCAAAAAAA
1 TTAAAATTT-AAAAAAA
* * *
56142511 TAAAAAGTTACAAAAA
1 TTAAAATTTAAAAAAA
56142527 TTCAAAA
1 TT-AAAA
56142534 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
16 16 0.47
17 18 0.53
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (16 bp):
TTAAAATTTAAAAAAA
Found at i:56142967 original size:20 final size:20
Alignment explanation
Indices: 56142930--56142967 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56142920 AAGAGGTATG
*
56142930 ATTAAATTATTATTTTTATT
1 ATTAAATTATTATATTTATT
56142950 ATTAAATATATTA-ATTTA
1 ATTAAAT-TATTATATTTA
56142968 ATCCGTACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAAATTATTATATTTATT
Found at i:56148149 original size:18 final size:18
Alignment explanation
Indices: 56148122--56148211 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
56148112 TACGACCGTT
56148122 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
56148140 TACGGCACTATT-A-GTA
1 TACGGTACTATTCACGTA
56148156 TACGGTACTATT-ACGTA
1 TACGGTACTATTCACGTA
*
56148173 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
56148191 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
56148209 TAC
1 TAC
56148212 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
16 15 0.23
17 15 0.23
18 35 0.54
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:56154965 original size:9 final size:9
Alignment explanation
Indices: 56154951--56154978 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
56154941 TTTTGTTACA
56154951 ACAATTAAT
1 ACAATTAAT
56154960 ACAATTAAT
1 ACAATTAAT
56154969 ACAATTAAT
1 ACAATTAAT
56154978 A
1 A
56154979 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:56155000 original size:68 final size:68
Alignment explanation
Indices: 56154921--56155121 Score: 307
Period size: 59 Copynumber: 3.1 Consensus size: 68
56154911 TCAAGTTTGT
*
56154921 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
56154986 AAA
66 AAA
56154989 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
56155045 AAA
66 AAA
56155048 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
56155111 AAT
66 AAA
56155114 TTTACTAA
1 TTTACTAA
56155122 CAATTAATTT
Statistics
Matches: 122, Mismatches: 2, Indels: 20
0.85 0.01 0.14
Matches are distributed among these distances:
59 56 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.26
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:56155131 original size:16 final size:16
Alignment explanation
Indices: 56155110--56155151 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
56155100 AATAATTTGA
*
56155110 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
56155126 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
56155142 TAGTTTTAAT
1 TAATTTTAAT
56155152 TTCATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:56156253 original size:16 final size:17
Alignment explanation
Indices: 56156216--56156261 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
56156206 TATTTTTCAA
56156216 AAAATATTTTTTTGGTT
1 AAAATATTTTTTTGGTT
*
56156233 CAAATAATTTTTTT-G-T
1 AAAAT-ATTTTTTTGGTT
56156249 AAAATTATTTTTT
1 AAAA-TATTTTTT
56156262 GAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 11 0.44
17 6 0.24
18 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (17 bp):
AAAATATTTTTTTGGTT
Found at i:56156266 original size:14 final size:15
Alignment explanation
Indices: 56156241--56156272 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56156231 TTCAAATAAT
*
56156241 TTTTTTGTAAAATTA
1 TTTTTTGAAAAATTA
56156256 TTTTTTGAAAAATTA
1 TTTTTTGAAAAATTA
56156271 TT
1 TT
56156273 CCAACTAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (15 bp):
TTTTTTGAAAAATTA
Found at i:56157912 original size:106 final size:106
Alignment explanation
Indices: 56157727--56157922 Score: 277
Period size: 106 Copynumber: 1.8 Consensus size: 106
56157717 TGACTTAAGT
* * * *
56157727 TGGATTTTAGTAATTGATAATGGGTTAATCAAATGGGGTTATTGTTGATGGTTAAACCATGTAGG
1 TGGATTTTAGTAATTGATAATGGATTAATCAAATGGGGTTATTGTTGATGGTTAAACAATGAAGA
* *
56157792 AATTTGGTGGGTTTATAGCTTAAAAAATTGGTGGTTTCAGC
66 AATTTGATGGGTTTACAGCTTAAAAAATTGGTGGTTTCAGC
* * * * *
56157833 TGGATTTTAGTAATTGCTAGTGGATTTATGAAATGGGGTTATTGTTGATTGTTAAACAATTGAAG
1 TGGATTTTAGTAATTGATAATGGATTAATCAAATGGGGTTATTGTTGATGGTTAAACAA-TGAAG
56157898 AAATTT-ATGGGTTTACAGCTTAAAA
65 AAATTTGATGGGTTTACAGCTTAAAA
56157923 TTGGCGGATT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 69 0.88
107 9 0.12
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.39
Consensus pattern (106 bp):
TGGATTTTAGTAATTGATAATGGATTAATCAAATGGGGTTATTGTTGATGGTTAAACAATGAAGA
AATTTGATGGGTTTACAGCTTAAAAAATTGGTGGTTTCAGC
Found at i:56160351 original size:24 final size:24
Alignment explanation
Indices: 56160307--56160356 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
56160297 TATACATACC
* *
56160307 AAATTTAACAGCACTTTTACACCA
1 AAATTTAACAACACTTATACACCA
*
56160331 AAATTTAACAACA-TATATACAGCA
1 AAATTTAACAACACT-TATACACCA
56160355 AA
1 AA
56160357 TAGGCAGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.26
Consensus pattern (24 bp):
AAATTTAACAACACTTATACACCA
Found at i:56160407 original size:22 final size:22
Alignment explanation
Indices: 56160382--56160477 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
56160372 TACCAAACAA
* *
56160382 CAAATGGGCAGCATATACATAC
1 CAAATGAGCAGCATATACACAC
* **
56160404 CAAATTGAGCAGCATTTTTACAC
1 CAAA-TGAGCAGCATATACACAC
* * * *
56160427 CAAAATTTATCAGCATATATACAA
1 C-AAA-TGAGCAGCATATACACAC
* **
56160451 CAAATGGGCAGCATATACGTAC
1 CAAATGAGCAGCATATACACAC
56160473 CAAAT
1 CAAAT
56160478 TTAACAGCAC
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
22 20 0.36
23 17 0.31
24 18 0.33
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.24
Consensus pattern (22 bp):
CAAATGAGCAGCATATACACAC
Found at i:56160449 original size:24 final size:23
Alignment explanation
Indices: 56160390--56160524 Score: 85
Period size: 24 Copynumber: 5.8 Consensus size: 23
56160380 AACAAATGGG
* * * *
56160390 CAGCATATACATACCAAATTGAG
1 CAGCATATATACACCAAATTTAA
* * *
56160413 CAGCATTTTTACACCAAAATTTAT
1 CAGCATATATACACC-AAATTTAA
* ***
56160437 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACACCAAATTTAA
***
56160459 CAGCATATACGTACCAAATTTAA
1 CAGCATATATACACCAAATTTAA
*
56160482 CAGCACT-TTTACACCAAAATTTAA
1 CAGCA-TATATACACC-AAATTTAA
*
56160506 CAGCATATATACAGCAAAT
1 CAGCATATATACACCAAAT
56160525 AGGCTTAAAT
Statistics
Matches: 82, Mismatches: 25, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
22 15 0.18
23 29 0.35
24 38 0.46
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (23 bp):
CAGCATATATACACCAAATTTAA
Found at i:56160449 original size:98 final size:98
Alignment explanation
Indices: 56160280--56160476 Score: 322
Period size: 98 Copynumber: 2.0 Consensus size: 98
56160270 GCTCTTATAT
*
56160280 ACAACAAATGGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAACAT
1 ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAACAT
*
56160345 ATATACAGCAAATAGGCAGCATATACATACCAA
66 ATATACAACAAATAGGCAGCATATACATACCAA
* * * *
56160378 ACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTATCAGCAT
1 ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAACAT
* *
56160443 ATATACAACAAATGGGCAGCATATACGTACCAA
66 ATATACAACAAATAGGCAGCATATACATACCAA
56160476 A
1 A
56160477 TTTAACAGCA
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (98 bp):
ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAACAT
ATATACAACAAATAGGCAGCATATACATACCAA
Found at i:56160457 original size:69 final size:69
Alignment explanation
Indices: 56160378--56160524 Score: 240
Period size: 69 Copynumber: 2.1 Consensus size: 69
56160368 TACATACCAA
* * *
56160378 ACAACAAATGGGCAGCATATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTATCAGCAT
1 ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAGCAT
56160443 ATAT
66 ATAT
* *
56160447 ACAACAAATGGGCAGCATATACGTACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCAT
1 ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAGCAT
56160512 ATAT
66 ATAT
*
56160516 ACAGCAAAT
1 ACAACAAAT
56160525 AGGCTTAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (69 bp):
ACAACAAATGGGCAGCATATACATACCAAATTGAACAGCACTTTTACACCAAAATTTAACAGCAT
ATAT
Found at i:56161339 original size:41 final size:41
Alignment explanation
Indices: 56161289--56161441 Score: 198
Period size: 41 Copynumber: 3.7 Consensus size: 41
56161279 ATAAAACATT
* * * * * * *
56161289 GGCATAAAGCCTGCTAGGCACAGAGCCCGAGACATTTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
* *
56161330 GGCACAAAGCCTGCTAGACATAAAGTCTGATATAATTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
* *
56161371 GGCACAGAGCCTGCTAGGCATAAAGCCTAATATAATTCACC
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
*
56161412 GGCATAAAGCCTGCTAGGCATAAAGCCTGA
1 GGCACAAAGCCTGCTAGGCATAAAGCCTGA
56161442 ACTTACAAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (41 bp):
GGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATTCACC
Found at i:56162528 original size:13 final size:13
Alignment explanation
Indices: 56162510--56162534 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56162500 ACAAACGATA
56162510 AAATTTTCACACG
1 AAATTTTCACACG
56162523 AAATTTTCACAC
1 AAATTTTCACAC
56162535 AAGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:56163964 original size:27 final size:27
Alignment explanation
Indices: 56163931--56164003 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
56163921 TATGTCGAAT
56163931 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
56163958 TTGTTAGATATTGAATTTATTATGTTTTAATC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
56163990 TTGTTGGATATTGA
1 TTGTTAGATATTGA
56164004 AATGATTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
27 14 0.36
32 25 0.64
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:56163983 original size:32 final size:32
Alignment explanation
Indices: 56163944--56164004 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
56163934 TTAGATATTG
56163944 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
* *
56163976 ATTATGTTTTAATCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
56164005 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:56165269 original size:20 final size:20
Alignment explanation
Indices: 56165240--56165277 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56165230 AAAATTTAAA
*
56165240 ATATATATTTATTAATATGT
1 ATATAAATTTATTAATATGT
56165260 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
56165278 ATGTAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
ATATAAATTTATTAATATGT
Found at i:56165405 original size:20 final size:19
Alignment explanation
Indices: 56165360--56165397 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
56165350 CATCCAAACA
56165360 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
56165379 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
56165398 TCTAGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:56165426 original size:14 final size:14
Alignment explanation
Indices: 56165389--56165419 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56165379 CCAGAAAAGT
*
56165389 AAATCATTTTCTAG
1 AAATCATTTTCCAG
56165403 AAATCATTTTCCAG
1 AAATCATTTTCCAG
56165417 AAA
1 AAA
56165420 ATATTTTACT
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:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:56166048 original size:7 final size:7
Alignment explanation
Indices: 56166036--56166060 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56166026 AATTTTAATA
56166036 AAATATT
1 AAATATT
56166043 AAATATT
1 AAATATT
56166050 AAATATT
1 AAATATT
56166057 AAAT
1 AAAT
56166061 TAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:56167055 original size:11 final size:10
Alignment explanation
Indices: 56167028--56167058 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
56167018 ATTTTATTAA
56167028 ATTTTAAAAT
1 ATTTTAAAAT
56167038 ATTTTAAAAT
1 ATTTTAAAAT
56167048 ATTTTTAAAAT
1 A-TTTTAAAAT
56167059 TAATTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 11 0.55
11 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:56168898 original size:11 final size:12
Alignment explanation
Indices: 56168882--56168918 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
56168872 TTGAAAGATG
56168882 AATTAAAAATA-
1 AATTAAAAATAT
56168893 AATTAAAAATATT
1 AATTAAAAATA-T
56168906 AATTAAAAA-AT
1 AATTAAAAATAT
56168917 AA
1 AA
56168919 CATGGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.58
12 1 0.04
13 9 0.38
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATTAAAAATAT
Found at i:56169108 original size:133 final size:135
Alignment explanation
Indices: 56168966--56169211 Score: 327
Period size: 133 Copynumber: 1.8 Consensus size: 135
56168956 AATGGAACCT
* * * *
56168966 GAGATTTAAGGATGTAATCGTAATTATTTAACCATCTAACAAAAAGAGCTAATATGTT-AAAAAT
1 GAGATTTAAGGATGTAATCGTAACTATCTAACCATCTAAC-AAAAGAACCAATATGTTAAAAAAT
* *
56169030 -ATT-AATTAAAAAAACTTGAAGTAACACGAAATAAAAAATATAAATGTGAATATGAAGTGAATC
65 AATTAAATTAAAAAAACTTGAAGCAACACGAAATAAAAAATAAAAATGTGAATATGAAGTGAATC
56169093 AAACTC
130 AAACTC
* * * *
56169099 GAGATTTAAGGATGTAATTGTAACTATCTAACCATTTAACAAAGGAACCAGTATGTTAAAAAATA
1 GAGATTTAAGGATGTAATCGTAACTATCTAACCATCTAACAAAAGAACCAATATGTTAAAAAATA
* * *
56169164 ATTAAAAATTTAAAAAGCTTGAAGCAACATGAAATAAAAAATAAAAAT
66 ATT--AAATTAAAAAAACTTGAAGCAACACGAAATAAAAAATAAAAAT
56169212 ATCTGTAGGA
Statistics
Matches: 95, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
132 13 0.14
133 42 0.44
134 3 0.03
137 37 0.39
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (135 bp):
GAGATTTAAGGATGTAATCGTAACTATCTAACCATCTAACAAAAGAACCAATATGTTAAAAAATA
ATTAAATTAAAAAAACTTGAAGCAACACGAAATAAAAAATAAAAATGTGAATATGAAGTGAATCA
AACTC
Found at i:56171669 original size:18 final size:18
Alignment explanation
Indices: 56171648--56171697 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
56171638 CCGATCTTCC
* *
56171648 TCTCCGACTGCATCTCCG
1 TCTCCGACTCCATCTCCA
*
56171666 TCTCCGTCTCCATCTCCA
1 TCTCCGACTCCATCTCCA
56171684 TCTCC-ATCTCCATC
1 TCTCCGA-CTCCATC
56171698 AATCCCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.12, C:0.48, G:0.08, T:0.32
Consensus pattern (18 bp):
TCTCCGACTCCATCTCCA
Found at i:56171671 original size:6 final size:6
Alignment explanation
Indices: 56171658--56171697 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
56171648 TCTCCGACTG
* *
56171658 CATCTC CGTCTC CGTCTC CATCTC CATCTC CATCTC CATC
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATC
56171698 AATCCCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.12, C:0.50, G:0.05, T:0.33
Consensus pattern (6 bp):
CATCTC
Found at i:56173391 original size:4 final size:4
Alignment explanation
Indices: 56173382--56173428 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
56173372 TATGTTGTAT
* *
56173382 ATAC ATAC ATAC ACAC ACT-G ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
56173429 TATATACACT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 1 0.03
4 36 0.97
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:56175455 original size:45 final size:44
Alignment explanation
Indices: 56175389--56175542 Score: 150
Period size: 45 Copynumber: 3.5 Consensus size: 44
56175379 GATAAGATAA
* * *
56175389 CCAACACCAATACATAGTACCTCCTATATTTATATGGCATGAAAG
1 CCAACACCAATACATAATACCT-CTGTATGTATATGGCATGAAAG
** *
56175434 CCAACACCGGTACATAATACCTACTGTATGTATATGACATGAAAG
1 CCAACACCAATACATAATACCT-CTGTATGTATATGGCATGAAAG
*** * *
56175479 TTGACACCGATACATAATA-CT-TGTATGTATATGGCATGATAG
1 CCAACACCAATACATAATACCTCTGTATGTATATGGCATGAAAG
* * *
56175521 CCAACACTAGTACATAGTACCT
1 CCAACACCAATACATAATACCT
56175543 ATTATATATA
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
42 31 0.35
43 2 0.02
44 2 0.02
45 53 0.60
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (44 bp):
CCAACACCAATACATAATACCTCTGTATGTATATGGCATGAAAG
Found at i:56176615 original size:15 final size:15
Alignment explanation
Indices: 56176575--56176615 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
56176565 ATCCTTAATC
*
56176575 TTTTTTTCT-TTCTT
1 TTTTTTTCTATTCAT
56176589 TTTTTTTC-ATTCAT
1 TTTTTTTCTATTCAT
56176603 TTTTTTTCTATTC
1 TTTTTTTCTATTC
56176616 TCTTTCTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTCTATTCAT
Found at i:56177410 original size:13 final size:13
Alignment explanation
Indices: 56177392--56177418 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56177382 AAAATAAATA
56177392 TTATTTATTTAAT
1 TTATTTATTTAAT
56177405 TTATTTATTTAAT
1 TTATTTATTTAAT
56177418 T
1 T
56177419 AAATTAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTTATTTAAT
Found at i:56179866 original size:17 final size:17
Alignment explanation
Indices: 56179844--56179876 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56179834 CTAAAAATTA
*
56179844 ATTAAATATTAAATAGT
1 ATTAAATATAAAATAGT
56179861 ATTAAATATAAAATAG
1 ATTAAATATAAAATAG
56179877 CAAAGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTAAATATAAAATAGT
Found at i:56185206 original size:27 final size:28
Alignment explanation
Indices: 56185175--56185249 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
56185165 AAAATTTAAA
56185175 AAATATTAAAAGAATATATAAA-TGAT-T
1 AAATATTAAAA-AATATATAAATTGATAT
*
56185202 AAATATTAAAAACTATGA-AAATTGATAT
1 AAATATTAAAAAATAT-ATAAATTGATAT
*
56185230 AAATATT-ATAAATATATAAA
1 AAATATTAAAAAATATATAAA
56185250 ATAATCTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 8 0.20
27 25 0.61
28 8 0.20
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (28 bp):
AAATATTAAAAAATATATAAATTGATAT
Found at i:56185329 original size:9 final size:9
Alignment explanation
Indices: 56185208--56185369 Score: 67
Period size: 9 Copynumber: 16.7 Consensus size: 9
56185198 GATTAAATAT
*
56185208 TAAAAACTA
1 TAAAAATTA
*
56185217 TGAAAATTGA
1 TAAAAATT-A
56185227 TATAAATATTA
1 TA-AAA-ATTA
*
56185238 TAAATA-TA
1 TAAAAATTA
* *
56185246 TAAAATAATC
1 TAAAA-ATTA
56185256 TAATAAATTA
1 TAA-AAATTA
56185266 T-AAAATTAA
1 TAAAAATT-A
*
56185275 TAAAACATATT
1 TAAAA-AT-TA
*
56185286 TAAAATTTTA
1 TAAAA-ATTA
**
56185296 TAACAACGTA
1 TAA-AAATTA
*
56185306 TTAAAATTCTA
1 -TAAAAAT-TA
56185317 TAAAAATTA
1 TAAAAATTA
*
56185326 TAAAAAGTA
1 TAAAAATTA
*
56185335 TTAAAATTAA
1 TAAAAATT-A
*
56185345 TATAAACTTA
1 TA-AAAATTA
56185355 TAAAAATTA
1 TAAAAATTA
56185364 TAAAAA
1 TAAAAA
56185370 CTTGAATTGG
Statistics
Matches: 115, Mismatches: 23, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
8 11 0.10
9 39 0.34
10 33 0.29
11 28 0.24
12 4 0.03
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TAAAAATTA
Found at i:56185342 original size:29 final size:29
Alignment explanation
Indices: 56185208--56185369 Score: 84
Period size: 29 Copynumber: 5.5 Consensus size: 29
56185198 GATTAAATAT
* * *
56185208 TAAAAACTATGAAAATTGATATAAATATTA
1 TAAAAAGTATTAAAATTAATATAAA-ATTA
* *
56185238 TAAATA-TA-TAAAA-TAATCTAATAAATTA
1 TAAAAAGTATTAAAATTAATAT-A-AAATTA
* * * *
56185266 T-AAAATTAATAAAA-CATATTTAAAATTTTA
1 TAAAAAGTATTAAAATTA-ATATAAAA--TTA
* *
56185296 TAACAACGTATTAAAATT-CTATAAAAATTA
1 TAA-AAAGTATTAAAATTAATAT-AAAATTA
*
56185326 TAAAAAGTATTAAAATTAATATAAACTTA
1 TAAAAAGTATTAAAATTAATATAAAATTA
* *
56185355 TAAAAATTATAAAAA
1 TAAAAAGTATTAAAA
56185370 CTTGAATTGG
Statistics
Matches: 102, Mismatches: 18, Indels: 25
0.70 0.12 0.17
Matches are distributed among these distances:
27 7 0.07
28 15 0.15
29 43 0.42
30 21 0.21
31 3 0.03
32 13 0.13
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAAAGTATTAAAATTAATATAAAATTA
Found at i:56185370 original size:19 final size:19
Alignment explanation
Indices: 56185315--56185372 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
56185305 ATTAAAATTC
*
56185315 TATAAAAATTATAAAAA-G
1 TATAAAAATTATAAAAACT
* *
56185333 TATTAAAATTAATATAAACT
1 TATAAAAATT-ATAAAAACT
56185353 TATAAAAATTATAAAAACT
1 TATAAAAATTATAAAAACT
56185372 T
1 T
56185373 GAATTGGACC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 9 0.27
19 15 0.45
20 9 0.27
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (19 bp):
TATAAAAATTATAAAAACT
Found at i:56201269 original size:72 final size:66
Alignment explanation
Indices: 56201183--56201329 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 66
56201173 ATCAAGTTTG
* ** *
56201183 TTTTACTAATCAAATGTTAGATTTACTAGTTA-GATTTTGTTATAACAATTAATACAATTAATAA
1 TTTTACTAATCAAATGTTAGATTT--TA-TTACAATAAT-TAAT-ACAATT-A-ACAATTAATAA
56201247 TTTGATAA
59 TTTGATAA
*
56201255 TTTTATTAATCAAATGTTAGATTTTATTACAATAATTAATACAATTAACAATTAATAATTTGATA
1 TTTTACTAATCAAATGTTAGATTTTATTACAATAATTAATACAATTAACAATTAATAATTTGATA
56201320 A
66 A
56201321 TTTTACTAA
1 TTTTACTAA
56201330 CAAGTAACAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
66 27 0.40
67 1 0.01
68 6 0.09
69 6 0.09
70 5 0.07
72 23 0.34
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (66 bp):
TTTTACTAATCAAATGTTAGATTTTATTACAATAATTAATACAATTAACAATTAATAATTTGATA
A
Found at i:56201355 original size:16 final size:16
Alignment explanation
Indices: 56201334--56201366 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56201324 TACTAACAAG
56201334 TAACAACTAATTTTAA
1 TAACAACTAATTTTAA
*
56201350 TAACAATTAATTTTAA
1 TAACAACTAATTTTAA
56201366 T
1 T
56201367 TTTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
TAACAACTAATTTTAA
Found at i:56201369 original size:22 final size:22
Alignment explanation
Indices: 56201341--56201389 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
56201331 AAGTAACAAC
* *
56201341 TAATTTTAATAACAATTAATTT
1 TAATTTTAATAAAAAATAATTT
*
56201363 TAATTTTATTAAAAAATAATTT
1 TAATTTTAATAAAAAATAATTT
56201385 TAATT
1 TAATT
56201390 AAAAATGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTTTAATAAAAAATAATTT
Found at i:56201382 original size:16 final size:17
Alignment explanation
Indices: 56201363--56201394 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56201353 CAATTAATTT
56201363 TAATTTT-ATTAAAAAA
1 TAATTTTAATTAAAAAA
56201379 TAATTTTAATTAAAAA
1 TAATTTTAATTAAAAA
56201395 TGGGCCGGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTTTAATTAAAAAA
Found at i:56201577 original size:21 final size:21
Alignment explanation
Indices: 56201553--56201593 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56201543 AACCAAAGGC
*
56201553 GAATCTAGGTGGTTGGCAGGT
1 GAATCTAGGGGGTTGGCAGGT
56201574 GAATCTAGGGGGTTGGCAGG
1 GAATCTAGGGGGTTGGCAGG
56201594 CGCCCCAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.10, G:0.46, T:0.24
Consensus pattern (21 bp):
GAATCTAGGGGGTTGGCAGGT
Found at i:56202924 original size:16 final size:16
Alignment explanation
Indices: 56202905--56202938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
56202895 AGTTGATTTG
* *
56202905 ATTTTAAATTTTAATA
1 ATTTTAAACTTAAATA
56202921 ATTTTAAACTTAAATA
1 ATTTTAAACTTAAATA
56202937 AT
1 AT
56202939 CTAAATTCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAAACTTAAATA
Found at i:56205934 original size:25 final size:25
Alignment explanation
Indices: 56205906--56205956 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
56205896 TTCTTAATTT
56205906 TATTTAT-TTAA-ATATAATTATAAAA
1 TATTTATATTAATAT-TAA-TATAAAA
56205931 TATTTATATTAATATTAATATAAAA
1 TATTTATATTAATATTAATATAAAA
56205956 T
1 T
56205957 TATAATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 15 0.62
26 7 0.29
27 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTTATATTAATATTAATATAAAA
Found at i:56210553 original size:1 final size:1
Alignment explanation
Indices: 56210521--56210545 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
56210511 TATATTTATG
56210521 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
56210546 AAGTTTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:56223029 original size:18 final size:18
Alignment explanation
Indices: 56222985--56223036 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
56222975 ATTTAGGTCC
*
56222985 AAAAATTAT-TATTCTATA
1 AAAAATTATATATT-TTTA
* *
56223003 GAAATTTATATATTTTTA
1 AAAAATTATATATTTTTA
*
56223021 AAAAATTATAAATTTT
1 AAAAATTATATATTTT
56223037 GAAATTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
AAAAATTATATATTTTTA
Found at i:56223057 original size:20 final size:20
Alignment explanation
Indices: 56223032--56223077 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
56223022 AAAATTATAA
*
56223032 ATTTTGAAATTTTTACAAA-T
1 ATTTTGAAA-TTTTAAAAATT
56223052 ATTTTG-AATTTTAAAAATT
1 ATTTTGAAATTTTAAAAATT
56223071 ATTTTGA
1 ATTTTGA
56223078 TTATTTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (20 bp):
ATTTTGAAATTTTAAAAATT
Found at i:56225698 original size:32 final size:32
Alignment explanation
Indices: 56225661--56225737 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
56225651 ATGCATGTGT
* * **
56225661 GTAACTTTTCATCTTCAAGTCTCTTTGCATTA
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
* * *
56225693 TTAACTCTTCATATTCAAGCCTCTTCACATTC
1 GTAACTTTTCATATTCAAGCCTCTTCACATTA
56225725 GTAACTTTTCATA
1 GTAACTTTTCATA
56225738 ATTTATTTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (32 bp):
GTAACTTTTCATATTCAAGCCTCTTCACATTA
Found at i:56230132 original size:32 final size:32
Alignment explanation
Indices: 56230094--56230171 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
56230084 CATGCATGTG
* * **
56230094 TGTAACTTTTCATCTTCAAGTCTCTTTGCATT
1 TGTAACTTTTCATATTCAAGCCTCTTCACATT
*
56230126 AT-TAACTCTTCATATTCAAGCCTCTTCACATT
1 -TGTAACTTTTCATATTCAAGCCTCTTCACATT
56230158 TGTAACTTTTCATA
1 TGTAACTTTTCATA
56230172 ATTTATTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.03
32 36 0.95
33 1 0.03
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.46
Consensus pattern (32 bp):
TGTAACTTTTCATATTCAAGCCTCTTCACATT
Found at i:56233751 original size:216 final size:216
Alignment explanation
Indices: 56233374--56233778 Score: 765
Period size: 216 Copynumber: 1.9 Consensus size: 216
56233364 CACAAAGATT
* *
56233374 AAGAACTATTTCATGAAATGAAAGAACCCCATCAAAACAATAGCTTAAGTTAATGGAAAACCTTT
1 AAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATGGAAAACCTTT
56233439 CAAGATAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATCAAAACAACACCTAAA
66 CAAGATAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATCAAAACAACACCTAAA
* *
56233504 GTTAACGGAAACCTTTCAAGATAATAAGAAAAAGAGAAGGCAATGGCATGGAATGAGAACCCCCC
131 GTTAACGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAACCCCCC
56233569 CCCAAAAAAAAAAAAAAGAAA
196 CCCAAAAAAAAAAAAAAGAAA
56233590 AAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATGGAAAACCTTT
1 AAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATGGAAAACCTTT
*
56233655 CAAGATAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATCAAAACAATACCTAAA
66 CAAGATAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATCAAAACAACACCTAAA
56233720 GTTAACGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAA
131 GTTAACGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAA
56233779 AACCCCCCAT
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 184 1.00
ACGTcount: A:0.51, C:0.16, G:0.17, T:0.16
Consensus pattern (216 bp):
AAGAACTATTGCATGAAATGAAAGAACCCAATCAAAACAATAGCTTAAGTTAATGGAAAACCTTT
CAAGATAACAAGTGAAAAGAAAGATGGCATGAAATGGAAAGAACCCCATCAAAACAACACCTAAA
GTTAACGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGGAATGAGAACCCCCC
CCCAAAAAAAAAAAAAAGAAA
Found at i:56233904 original size:89 final size:88
Alignment explanation
Indices: 56233790--56234108 Score: 380
Period size: 89 Copynumber: 3.6 Consensus size: 88
56233780 ACCCCCCATT
* *
56233790 AAAACATTACCTGAAGCAAAAGAAACCTTTCAAGGAAACAAGAAAGGAACAAAAAGAAACCATTG
1 AAAACATTACCTGAAGTAAAAGAAACCTTCCAA-GAAACAAGAAAGGAACAAAAAGAAACCATTG
* *
56233855 CATGAAATAAAAAATATCCAACTG
65 CATGAAATGAAAAATATCCAACTA
* * * * * * *
56233879 AAAACAGTACCTGAAGTAAATGAAACCTTTCAAGATAACAAGAAA--AA-GAGAAGAGA--ATGG
1 AAAACATTACCTGAAGTAAAAGAAACCTTCCAAGA-AACAAGAAAGGAACAAAAAGAAACCATTG
* * *** * *
56233939 CATGGAATGAGAAACCCCCCA-TT
65 CATGAAATGAAAAATATCCAACTA
56233962 AAAACATTACCTGAAGTAAAAGAAACCTTCCAAAGAAACAAGAAAGGAACAAAAAGAAACCATTG
1 AAAACATTACCTGAAGTAAAAGAAACCTTCC-AAGAAACAAGAAAGGAACAAAAAGAAACCATTG
56234027 CATGAAATGAAAAATATCCAACTA
65 CATGAAATGAAAAATATCCAACTA
* *
56234051 AAAACATTACCTAAAGTAAATGAAACCTTCCAAGAAAGCAAGAAAGGAACAAAAAGAA
1 AAAACATTACCTGAAGTAAAAGAAACCTTCCAAGAAA-CAAGAAAGGAACAAAAAGAA
56234109 CGATTGAATG
Statistics
Matches: 190, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
83 38 0.20
84 21 0.11
85 2 0.01
86 12 0.06
87 2 0.01
88 26 0.14
89 89 0.47
ACGTcount: A:0.54, C:0.17, G:0.15, T:0.14
Consensus pattern (88 bp):
AAAACATTACCTGAAGTAAAAGAAACCTTCCAAGAAACAAGAAAGGAACAAAAAGAAACCATTGC
ATGAAATGAAAAATATCCAACTA
Found at i:56233989 original size:172 final size:173
Alignment explanation
Indices: 56233705--56234095 Score: 642
Period size: 172 Copynumber: 2.3 Consensus size: 173
56233695 GAACCCCATC
* **
56233705 AAAACAATACCTAAAGTTAACGGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATG
1 AAAACAGTACCTAAAG-TAAATGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATG
* *
56233770 GAATGAGAAAACCCCCCATTAAAACATTACCTGAAGCAAAAGAAACCTTTCAAGGAAACAAGAAA
65 GAATGAGAAAACCCCCCATTAAAACATTACCTGAAGCAAAAGAAACCTTCCAAAGAAACAAGAAA
*
56233835 GGAACAAAAAGAAACCATTGCATGAAATAAAAAATATCCAACTG
130 GGAACAAAAAGAAACCATTGCATGAAATAAAAAATATCCAACTA
* *
56233879 AAAACAGTACCTGAAGTAAATGAAACCTTTCAAGATAACAAGAAAAAGAGAAGAGAATGGCATGG
1 AAAACAGTACCTAAAGTAAATGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGG
*
56233944 AATGAG-AAACCCCCCATTAAAACATTACCTGAAGTAAAAGAAACCTTCCAAAGAAACAAGAAAG
66 AATGAGAAAACCCCCCATTAAAACATTACCTGAAGCAAAAGAAACCTTCCAAAGAAACAAGAAAG
*
56234008 GAACAAAAAGAAACCATTGCATGAAATGAAAAATATCCAACTA
131 GAACAAAAAGAAACCATTGCATGAAATAAAAAATATCCAACTA
* *
56234051 AAAACATTACCTAAAGTAAATGAAACCTTCCAAGA-AAGCAAGAAA
1 AAAACAGTACCTAAAGTAAATGAAACCTTTCAAGATAA-CAAGAAA
56234096 GGAACAAAAA
Statistics
Matches: 203, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
171 2 0.01
172 135 0.67
173 52 0.26
174 14 0.07
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (173 bp):
AAAACAGTACCTAAAGTAAATGAAACCTTTCAAGATAACAAGAAAAAGAGAAGACAATGGCATGG
AATGAGAAAACCCCCCATTAAAACATTACCTGAAGCAAAAGAAACCTTCCAAAGAAACAAGAAAG
GAACAAAAAGAAACCATTGCATGAAATAAAAAATATCCAACTA
Done.