Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 56 of 344
Found at i:18147113 original size:93 final size:93
Alignment explanation
Indices: 18146954--18147125 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
18146944 GGGATATTTG
* **
18146954 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTTCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18147019 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
18147047 GGCATCCGATCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
18147112 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
18147126 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:18159279 original size:88 final size:88
Alignment explanation
Indices: 18159172--18159527 Score: 453
Period size: 88 Copynumber: 4.0 Consensus size: 88
18159162 TAAGTAGTAG
* * * * ** *
18159172 TGGAGCAGGTTGAAACCACAATTCGTATATCCTTAAAGTTTTAGTGGAGTAGATCGAGGCTACAA
1 TGGAGCAGCTAGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
* * *
18159237 ATCTTTTCTCCCTAAAATGGTAT
66 ATCTCTTCTCCCTGAAATGGCAT
* * * * * * *
18159260 TAGAGCAACTCGAAGCCACAATTTGTATCTCCTTAAACTTTCGGTGGAGTAGATCGAAGCTACAA
1 TGGAGCAGCTAGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
*
18159325 ATCTCTTCTCCTTGAAATGGCAT
66 ATCTCTTCTCCCTGAAATGGCAT
* * * * *
18159348 TGGAGCGGCTTA-AAGCCACAATTCGTATCTCATTGAAGTTCCAGCGGAGTAGATCGAGGCTACA
1 TGGAGCAGC-TAGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACA
18159412 AATCTCTTCTCCCTGAAATGGCAT
65 AATCTCTTCTCCCTGAAATGGCAT
* * *
18159436 TGGAGCCGCTAGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAA
1 TGGAGCAGCTAGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
*
18159501 ATCTCTTCTCCCTTAAATGGCAT
66 ATCTCTTCTCCCTGAAATGGCAT
18159524 TGGA
1 TGGA
18159528 ACGGCTCCTT
Statistics
Matches: 232, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
87 2 0.01
88 229 0.99
89 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (88 bp):
TGGAGCAGCTAGAAGCCACAATTCGTATCTCCTTAAAGTTCCAGTGGAGTAGATCGAAGCTACAA
ATCTCTTCTCCCTGAAATGGCAT
Found at i:18159352 original size:44 final size:44
Alignment explanation
Indices: 18159216--18159527 Score: 161
Period size: 44 Copynumber: 7.1 Consensus size: 44
18159206 AAAGTTTTAG
* * * * *
18159216 TGGAGTAGATCGAGGCTACAAATCTTTTCTCCCTAAAATGGTAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAT
* * * * * ** **
18159260 TAGAGCA-ACTCGAAGCCAC-AATTTGTATCTCCTT-AAACTTTCGG
1 TGGAGTAGA-TCGAAGCTACAAATCTCT-TCTCCTTGAAA-TGGCAT
18159304 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAT
** * ** * * * ** *
18159348 TGGAGCGGCTTAAAGCCAC-AAT-TCGTATCTCATTGAAGTTCCAG
1 TGGAGTAGATCGAAGCTACAAATCTC-T-TCTCCTTGAAATGGCAT
* * *
18159392 CGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAT
** * * * * * * ** *
18159436 TGGAGCCGCTAGAAGCCACAAGTCGT-ATCTCCTTGAAGTTCCAG
1 TGGAGTAGATCGAAGCTACAAATC-TCTTCTCCTTGAAATGGCAT
18159480 TGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTT-AAATGGCAT
1 TGGAGTAGATCGAAGCTACAAATCTCTTCT-CCTTGAAATGGCAT
18159524 TGGA
1 TGGA
18159528 ACGGCTCCTT
Statistics
Matches: 184, Mismatches: 71, Indels: 26
0.65 0.25 0.09
Matches are distributed among these distances:
42 2 0.01
43 14 0.08
44 148 0.80
45 18 0.10
46 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
TGGAGTAGATCGAAGCTACAAATCTCTTCTCCTTGAAATGGCAT
Found at i:18159577 original size:68 final size:68
Alignment explanation
Indices: 18159464--18159602 Score: 224
Period size: 68 Copynumber: 2.0 Consensus size: 68
18159454 CAAGTCGTAT
* *
18159464 CTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTTAAATGGCATTGGAA
1 CTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAA
18159529 CGG
66 CGG
* * * *
18159532 CTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAA
18159597 CGG
66 CGG
18159600 CTC
1 CTC
18159603 GAAGCCACAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (68 bp):
CTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAA
CGG
Found at i:18159641 original size:156 final size:156
Alignment explanation
Indices: 18159380--18159683 Score: 500
Period size: 156 Copynumber: 1.9 Consensus size: 156
18159370 TCGTATCTCA
*
18159380 TTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAGCCGC
1 TTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGC
**
18159445 TAGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAGTGGAGTAGATCGAAGCTACAAATCTCTTCT
66 TAGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCT
*
18159510 CCCTTAAATGGCATTGGAACGGCTCC
131 CCCTGAAATGGCATTGGAACGGCTCC
* * * *
18159536 TTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAGCGGC
1 TTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGC
* * * *
18159601 TCGAAGCCACAATTCGTATCTCCTTGAAGTTCCAACGGAGTGGATCGAGGCTACAAATCTCTTCT
66 TAGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCT
18159666 CCCTGAAATGGCATTGGA
131 CCCTGAAATGGCATTGGA
18159684 GCCGCTCAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 136 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (156 bp):
TTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCCCTTCTCCCTGAAATGGCATTGGAGCCGC
TAGAAGCCACAAGTCGTATCTCCTTGAAGTTCCAACGGAGTAGATCGAAGCTACAAATCTCTTCT
CCCTGAAATGGCATTGGAACGGCTCC
Found at i:18159681 original size:88 final size:88
Alignment explanation
Indices: 18159532--18160141 Score: 880
Period size: 88 Copynumber: 6.9 Consensus size: 88
18159522 ATTGGAACGG
* * * *
18159532 CTCCTTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCCCTTCTCTCTGAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
18159597 CGGCTCGAAGCCACAATTCGTAT
66 CGGCTCGAAGCCACAATTCGTAT
* *
18159620 CTCCTTGAAGTTCCAACGGAGTGGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
* * *
18159685 CCGCTCAAATCCACAATTCGTAT
66 CGGCTCGAAGCCACAATTCGTAT
* * * ** * *
18159708 CTCCTTGAAGTTTCAGCGGAATAGATCAAAACTACAAATCTCTTCTCCCTGAAATGGCATTAGAA
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
*
18159773 CGGCTCGAAGCCACAATTTGTAT
66 CGGCTCGAAGCCACAATTCGTAT
* * * *
18159796 CTCCTTGAAGTTCCAGCAGAGTATATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
** **
18159861 CCTCTCGAAGCCACAATTTTTAT
66 CGGCTCGAAGCCACAATTCGTAT
* * * * *
18159884 CTTCTTAAAGTTTCAACGGAGTAGATCGATGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
* *
18159949 CGGCTTGAAGCCACAATTCATAT
66 CGGCTCGAAGCCACAATTCGTAT
*
18159972 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTGAAATGGCATTGGAG
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
*
18160037 CGGCTCGAAGCCACAATTCATAT
66 CGGCTCGAAGCCACAATTCGTAT
*
18160060 CTCCTTGAAGTTCCAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCCT-AGAATGGCATTGGA
1 CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGA-AATGGCATTGGA
*
18160124 GCGGCTTGAAGCCACAAT
65 GCGGCTCGAAGCCACAAT
18160142 CACAAACCCT
Statistics
Matches: 464, Mismatches: 57, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
87 1 0.00
88 463 1.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (88 bp):
CTCCTTGAAGTTCCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCCTGAAATGGCATTGGAG
CGGCTCGAAGCCACAATTCGTAT
Found at i:18160080 original size:44 final size:44
Alignment explanation
Indices: 18159944--18160080 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 44
18159934 GAAATGGCAT
*
18159944 TGGAGCGGCTTGAAGCCACAATTCATATCTCCTTGAAGTTCCAG
1 TGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGTTCCAG
* ** * * * * ** *
18159988 CGGAGTAGATCGAGGCTACAAATCTC-T-TCTCCTTGAAATGGCAT
1 TGGAGCGGCTCGAAGCCAC-AAT-TCATATCTCCTTGAAGTTCCAG
18160032 TGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGTTCCAG
1 TGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGTTCCAG
18160076 TGGAG
1 TGGAG
18160081 TAGATCGAGG
Statistics
Matches: 68, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 56 0.82
45 4 0.06
46 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (44 bp):
TGGAGCGGCTCGAAGCCACAATTCATATCTCCTTGAAGTTCCAG
Found at i:18160207 original size:44 final size:44
Alignment explanation
Indices: 18160151--18160765 Score: 186
Period size: 44 Copynumber: 13.6 Consensus size: 44
18160141 TCACAAACCC
* *
18160151 TATCTCCATGAAGTAGCAGCGGAGTA-AGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGA-TTGAAGTTACAAGTCT
* * *
18160195 TATCTTCCTGAAGTTA-CAGTGGAGTAGACTGAAGATAGCGAA-TCT
1 TATCTCCCTGAAG-TAGCAGTGGAGTAGATTGAAGTTA-C-AAGTCT
* * **
18160240 TATCTCCCTTAAGTTGCAGTGGAGTAGATTGAAGCTAGAAATCACAAACCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAG-T-----T-ACAAGTCT
* * *
18160291 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTACAAGTCT
* * * * * * *
18160335 TATCTCCCTGAATTTGTAGTGGAGCAGATTGGAGATAGCAATTCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTA-CAAGTCT
* * * ** *
18160380 CATTTCCCTGAAGATA-CGGTGGAACAGATTGAAGTTATAAATAGATCT
1 TATCTCCCTGAAG-TAGCAGTGGAGTAGATTGAAG-T-TACA-AG-TCT
* * * *
18160428 TATC-CCCTTGAAGTTGCAGTAGAGTAGA-T-CA--TATCAAATCT
1 TATCTCCC-TGAAGTAGCAGTGGAGTAGATTGAAGTTA-CAAGTCT
* * * ** *
18160469 TATCTCCCTTAAGTTGTAGTGGAGTAGATTGAAGGCACTAA-CCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTAC-AAGTCT
* * * ** *
18160513 TATC-CTCCTGAAATTGCAATGGAACAGATTGAAGTTATAAATAAACAGATCT
1 TATCTC-CCTGAAGTAGCAGTGGAGTAGATTGAAG---T---TACA-AG-TCT
* * * * * * *
18160565 TATCTCTCTGAAGTTGCAATAGAGCAGA-TCATAG-CA-AAG-CT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGA-AGTTACAAGTCT
* * * * *** *
18160606 TATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCGCTAA-CCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTAC-AAGTCT
* * * * *
18160650 TATCCCCCTGAAATTGCAGTGGGGCA-AGTTGAAGTTACAAGTCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGA-TTGAAGTTACAAGTCT
* * * *
18160694 TATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGATAGC-AGATCT
1 TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTA-CAAG-TCT
* * *
18160739 TATCTCCTTGAAGTTGCAATGGAGTAG
1 TATCTCCCTGAAGTAGCAGTGGAGTAG
18160766 TTCAAGCTAC
Statistics
Matches: 427, Mismatches: 94, Indels: 99
0.69 0.15 0.16
Matches are distributed among these distances:
41 50 0.12
42 10 0.02
43 8 0.02
44 158 0.37
45 99 0.23
46 5 0.01
47 8 0.02
48 18 0.04
49 1 0.00
50 5 0.01
51 37 0.09
52 27 0.06
53 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGTTACAAGTCT
Found at i:18160402 original size:140 final size:140
Alignment explanation
Indices: 18160139--18160413 Score: 345
Period size: 140 Copynumber: 2.0 Consensus size: 140
18160129 TTGAAGCCAC
* *
18160139 AATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGTAAGTTGAAGTTACAAGTCTTATCTTCCT
1 AATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCT
* * * * * **
18160204 GAAGTTACAGTGGAGTAGACTGAAGATAGCGAATCTTATCTCCCTTAAGTTGCAGTGGAGTAGAT
66 GAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTGAAGATACAGTGGAACAGAT
18160269 TGAAGCTAGA
131 TGAAGCTAGA
* * * * *
18160279 AATCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCT
1 AATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCT
* ** * * * *
18160344 GAATTTGTAGTGGAGCAGATTGGAGATAGC-AATTCTCATTTCCCTGAAGATACGGTGGAACAGA
66 GAAGTTACAGTGGAGCAGACTGAAGATAGCGAA-TCTCATCTCCCTGAAGATACAGTGGAACAGA
18160408 TTGAAG
130 TTGAAG
18160414 TTATAAATAG
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
139 2 0.02
140 111 0.98
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (140 bp):
AATCACAAACCCTATCTCCATGAAGTAGCAGCGGAGCAAGTTGAAGTTACAAGTCTTATCTCCCT
GAAGTTACAGTGGAGCAGACTGAAGATAGCGAATCTCATCTCCCTGAAGATACAGTGGAACAGAT
TGAAGCTAGA
Found at i:18160686 original size:137 final size:137
Alignment explanation
Indices: 18160399--18160667 Score: 413
Period size: 137 Copynumber: 2.0 Consensus size: 137
18160389 GAAGATACGG
* *
18160399 TGGAACAGATTGAAGTTATAAAT----AGATCTTATCCCCTTGAAGTTGCAGTAGAGTAGATCAT
1 TGGAACAGATTGAAGTTATAAATAAACAGATCTTATCCCCTTGAAGTTGCAATAGAGCAGATCAT
* * * * *
18160460 ATCAAATCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTGAAGGCACTAACCTTATCCTCCTGAA
66 AGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGAA
18160525 ATTGCAA
131 ATTGCAA
*
18160532 TGGAACAGATTGAAGTTATAAATAAACAGATCTTAT-CTCTCTGAAGTTGCAATAGAGCAGATCA
1 TGGAACAGATTGAAGTTATAAATAAACAGATCTTATCCCCT-TGAAGTTGCAATAGAGCAGATCA
*
18160596 TAGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCGCTAACCTTATCCCCCTGA
65 TAGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGA
18160661 AATTGCA
130 AATTGCA
18160668 GTGGGGCAAG
Statistics
Matches: 122, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
133 23 0.19
136 3 0.02
137 96 0.79
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (137 bp):
TGGAACAGATTGAAGTTATAAATAAACAGATCTTATCCCCTTGAAGTTGCAATAGAGCAGATCAT
AGCAAAGCTTATCTCCCTTAAGTTGTAGTGGAGTAGATTAAAGCCACTAACCTTATCCCCCTGAA
ATTGCAA
Found at i:18162080 original size:22 final size:22
Alignment explanation
Indices: 18162055--18162098 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
18162045 TTCAGGGGGA
18162055 AGGGAAAATTTCCCTTTTGGTC
1 AGGGAAAATTTCCCTTTTGGTC
*
18162077 AGGGAAAATTTCTCTTTTGGTC
1 AGGGAAAATTTCCCTTTTGGTC
18162099 CCTCGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.39
Consensus pattern (22 bp):
AGGGAAAATTTCCCTTTTGGTC
Found at i:18162361 original size:3 final size:3
Alignment explanation
Indices: 18162355--18162553 Score: 102
Period size: 3 Copynumber: 66.7 Consensus size: 3
18162345 ATTTACTACC
* * *
18162355 ATT ATT ATT AAT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATC ATT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * * * * * **
18162404 ACAT GTT ATT ATTT CTT TTT CTT TTT ATT ATG GCT -TT ATT ATT ATT
1 A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
18162450 ACT ATT ATT ACT ATT TTT ATCT -TT ATT ATT ATT ATT ATC A-T CTT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
18162494 ATT -TT ATT ACT ATT ATC ATT TTT GTA ATT ATT ATT ACT ATT -GT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
18162540 ATT ACT ATT ATT AT
1 ATT ATT ATT ATT AT
18162554 ATTTTCATCT
Statistics
Matches: 142, Mismatches: 46, Indels: 16
0.70 0.23 0.08
Matches are distributed among these distances:
2 5 0.04
3 130 0.92
4 7 0.05
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:18162524 original size:43 final size:41
Alignment explanation
Indices: 18162439--18162550 Score: 116
Period size: 43 Copynumber: 2.7 Consensus size: 41
18162429 TATTATGGCT
* * * *
18162439 TTATTATTATTACTATTATTACTATTTTTATCTTTATTATTA
1 TTATTACTATTA-TATTATTACTATTATCATCTTTATAATTA
* * * *
18162481 TTATTATCATCTTATTTTATTACTATTATCATTTTTGTAATTA
1 TTATTA-C-TATTATATTATTACTATTATCATCTTTATAATTA
*
18162524 TTATTACTATTGTATTATTACTATTAT
1 TTATTACTATTATATTATTACTATTAT
18162551 TATATTTTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 17 0.30
42 7 0.12
43 29 0.51
44 4 0.07
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (41 bp):
TTATTACTATTATATTATTACTATTATCATCTTTATAATTA
Found at i:18162602 original size:17 final size:17
Alignment explanation
Indices: 18162577--18162615 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18162567 TTTATTTTCT
*
18162577 TATTACTTATCTATTTA
1 TATTTCTTATCTATTTA
*
18162594 TATTTCTTATTTATTTA
1 TATTTCTTATCTATTTA
18162611 TATTT
1 TATTT
18162616 TTGTTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTCTTATCTATTTA
Found at i:18162628 original size:17 final size:17
Alignment explanation
Indices: 18162608--18162642 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18162598 TCTTATTTAT
*
18162608 TTATATTTTTGTTATTA
1 TTATATTTTTGGTATTA
18162625 TTATATTTTTGGTATTA
1 TTATATTTTTGGTATTA
18162642 T
1 T
18162643 ATCTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (17 bp):
TTATATTTTTGGTATTA
Found at i:18162677 original size:26 final size:26
Alignment explanation
Indices: 18162621--18162678 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
18162611 TATTTTTGTT
*
18162621 ATTA-TTATATTTTTGGTATTATATC
1 ATTATTTATATTTATGGTATTATATC
18162646 -TCTATTTATATTTAT-GTATTAATATC
1 AT-TATTTATATTTATGGTATT-ATATC
18162672 ATTATTT
1 ATTATTT
18162679 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 7 0.25
26 19 0.68
27 1 0.04
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTATTTATATTTATGGTATTATATC
Found at i:18166422 original size:18 final size:19
Alignment explanation
Indices: 18166399--18166434 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18166389 TCTTTCTAGC
18166399 TTATTTTTATTT-ATTAAA
1 TTATTTTTATTTAATTAAA
*
18166417 TTATTTTTCTTTAATTAA
1 TTATTTTTATTTAATTAA
18166435 TTTTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTTTATTTAATTAAA
Found at i:18166631 original size:23 final size:22
Alignment explanation
Indices: 18166605--18166666 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
18166595 CCCTGTATAG
18166605 TATGCAAACCATACATGTTTAGT
1 TATGCAAACCATACATGTTTA-T
* *
18166628 TATGTGAAA-CATACTTGTTTAT
1 TATG-CAAACCATACATGTTTAT
*
18166650 TATGCAAACCCTACATG
1 TATGCAAACCATACATG
18166667 ATAAAATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
23 15 0.47
24 3 0.09
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (22 bp):
TATGCAAACCATACATGTTTAT
Found at i:18173195 original size:43 final size:43
Alignment explanation
Indices: 18173136--18173378 Score: 355
Period size: 43 Copynumber: 5.7 Consensus size: 43
18173126 TTCCGATATA
18173136 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
* * *
18173179 TGTAAGAACACATCTGGGACATTGGCATCGATATGTGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
*
18173222 TGTAAGACCACGTCTGGGACGTTGGCATTGATATGTGATTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
* * *
18173265 TGTAATACCACGTCTAGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
*
18173308 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGATTATA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTATG
* **
18173351 TGTAAGACCATGTCTGGGGTGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18173379 TGTACGATAT
Statistics
Matches: 178, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
42 2 0.01
43 175 0.98
44 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTATG
Found at i:18178934 original size:3 final size:3
Alignment explanation
Indices: 18178883--18178922 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18178873 AATTTTGTTG
18178883 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18178923 TAATCTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18181122 original size:12 final size:13
Alignment explanation
Indices: 18181098--18181128 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
18181088 TATGAGAAAG
18181098 TGAAATAATGAAT
1 TGAAATAATGAAT
18181111 TGAAAT-ATGAAT
1 TGAAATAATGAAT
18181123 TGAAAT
1 TGAAAT
18181129 TGAGATATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
TGAAATAATGAAT
Found at i:18188813 original size:27 final size:26
Alignment explanation
Indices: 18188758--18188833 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 26
18188748 TCTCATCCCT
* *
18188758 ATTTTA-CCTCAATAAAATTTTGACT
1 ATTTTACCCCCAATAAAATTTTGACG
18188783 ATTTTACCCCCAATAAAAGTTTTGACG
1 ATTTTACCCCCAATAAAA-TTTTGACG
* * *
18188810 ATTTTACGCCTAGTAAAATTTTGA
1 ATTTTACCCCCAATAAAATTTTGA
18188834 GAAAATATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
25 6 0.14
26 16 0.36
27 22 0.50
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCCAATAAAATTTTGACG
Found at i:18188994 original size:12 final size:12
Alignment explanation
Indices: 18188977--18189001 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18188967 TGCAAAAGGA
18188977 TCATTTCCATTT
1 TCATTTCCATTT
18188989 TCATTTCCATTT
1 TCATTTCCATTT
18189001 T
1 T
18189002 TTGGAAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:18195677 original size:33 final size:33
Alignment explanation
Indices: 18195640--18195706 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
18195630 TCCTAAGGTT
18195640 TTTATTTTCTCTTCTCCTTTCTTAGTTTTAGAG
1 TTTATTTTCTCTTCTCCTTTCTTAGTTTTAGAG
18195673 TTTATTTTCTCTTCTCCTTTCTTAGTTTTAGAG
1 TTTATTTTCTCTTCTCCTTTCTTAGTTTTAGAG
18195706 T
1 T
18195707 CAGAACGGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.18, G:0.09, T:0.61
Consensus pattern (33 bp):
TTTATTTTCTCTTCTCCTTTCTTAGTTTTAGAG
Found at i:18198563 original size:15 final size:15
Alignment explanation
Indices: 18198545--18198573 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18198535 ATATTTATAA
18198545 AATTATTATTATTAT
1 AATTATTATTATTAT
18198560 AATTATTATTATTA
1 AATTATTATTATTA
18198574 GATAGGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:18200932 original size:60 final size:59
Alignment explanation
Indices: 18200868--18201004 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 59
18200858 AATTGTGTTA
*
18200868 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAAATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAAATTAATACTG
* * * * * *
18200928 ATATGGGCTAGGCCTAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAAATTAATACTG
*
18200988 ATATGGGCTAAGACCCA
1 ATATGGGC-AAGGCCCA
18201005 GTTAACACTG
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
59 1 0.02
60 49 0.78
61 13 0.21
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (59 bp):
ATATGGGCAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAAATTAATACTG
Found at i:18210030 original size:11 final size:11
Alignment explanation
Indices: 18210016--18210040 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18210006 GGAGTAAAGA
18210016 AAATAAGGAAT
1 AAATAAGGAAT
18210027 AAATAAGGAAT
1 AAATAAGGAAT
18210038 AAA
1 AAA
18210041 ATAGAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAATAAGGAAT
Found at i:18214788 original size:30 final size:30
Alignment explanation
Indices: 18214748--18214804 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
18214738 ACGGCCATGA
* *
18214748 TACACGGGCGTGTGGCTTGCTCGTGTGTCC
1 TACACAGGCGTGTGGCTTGCCCGTGTGTCC
*
18214778 TACACAGGCGTGTGGTTTGCCCGTGTG
1 TACACAGGCGTGTGGCTTGCCCGTGTG
18214805 AAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.09, C:0.25, G:0.37, T:0.30
Consensus pattern (30 bp):
TACACAGGCGTGTGGCTTGCCCGTGTGTCC
Found at i:18216880 original size:12 final size:12
Alignment explanation
Indices: 18216863--18216887 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18216853 AGTTTACGAG
18216863 AAATAATTTTAA
1 AAATAATTTTAA
18216875 AAATAATTTTAA
1 AAATAATTTTAA
18216887 A
1 A
18216888 GGGATCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATTTTAA
Found at i:18226174 original size:9 final size:9
Alignment explanation
Indices: 18226140--18226170 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
18226130 TAAAAATATT
18226140 TTTTTATAA
1 TTTTTATAA
18226149 TTTTTATAA
1 TTTTTATAA
18226158 TTTTTA-AA
1 TTTTTATAA
18226166 TTTTT
1 TTTTT
18226171 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18226182 original size:22 final size:21
Alignment explanation
Indices: 18226154--18226196 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
18226144 TATAATTTTT
*
18226154 ATAATTTTTAAATTTTTTAAAA
1 ATAATTTATAAA-TTTTTAAAA
*
18226176 ATAATTTATATATTTTTAAAA
1 ATAATTTATAAATTTTTAAAA
18226197 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAATTTATAAATTTTTAAAA
Found at i:18226201 original size:38 final size:39
Alignment explanation
Indices: 18226142--18226220 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 39
18226132 AAAATATTTT
*
18226142 TTTATAATTTTTATAATTTTTAAATTTTTTAAAAA-TAA
1 TTTATAATTTTTATAAATTTTAAATTTTTTAAAAATTAA
*
18226180 TTTATATATTTTTA-AAATTTTAATTTTTTTAAAAATTAA
1 TTTATA-ATTTTTATAAATTTTAAATTTTTTAAAAATTAA
18226219 TT
1 TT
18226221 AATTGCTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTATAATTTTTATAAATTTTAAATTTTTTAAAAATTAA
Found at i:18226218 original size:16 final size:17
Alignment explanation
Indices: 18226164--18226220 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
18226154 ATAATTTTTA
*
18226164 AATTTTTTAAAAATAATTT
1 AATTTTTTTAAAAT-A-TT
* *
18226183 ATATATTTTTAAAATTTT
1 A-ATTTTTTTAAAATATT
18226201 AATTTTTTTAAAA-ATT
1 AATTTTTTTAAAATATT
18226217 AATT
1 AATT
18226221 AATTGCTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 6 0.19
17 11 0.34
18 3 0.09
19 1 0.03
20 11 0.34
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTTTAAAATATT
Found at i:18226224 original size:20 final size:20
Alignment explanation
Indices: 18226161--18226224 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
18226151 TTTATAATTT
*
18226161 TTAAATTTTTTAAAAA-TAA
1 TTAATTTTTTTAAAAATTAA
*
18226180 TTTATATATTTTT-AAAATT--
1 -TTA-ATTTTTTTAAAAATTAA
18226199 TTAATTTTTTTAAAAATTAA
1 TTAATTTTTTTAAAAATTAA
18226219 TTAATT
1 TTAATT
18226225 GCTAACGTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
17 7 0.19
18 9 0.25
20 13 0.36
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAATTTTTTTAAAAATTAA
Found at i:18229335 original size:24 final size:24
Alignment explanation
Indices: 18229306--18229392 Score: 138
Period size: 24 Copynumber: 3.6 Consensus size: 24
18229296 CATTCCAATC
18229306 CGCACACATAGTGCCGTACAAATT
1 CGCACACATAGTGCCGTACAAATT
*
18229330 CACACACATAGTGCCGTACAAATT
1 CGCACACATAGTGCCGTACAAATT
* * *
18229354 CGCACACATAGTTCCATTCAAATT
1 CGCACACATAGTGCCGTACAAATT
18229378 CGCACACATAGTGCC
1 CGCACACATAGTGCC
18229393 AAAATCATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (24 bp):
CGCACACATAGTGCCGTACAAATT
Found at i:18229363 original size:72 final size:72
Alignment explanation
Indices: 18229258--18229392 Score: 173
Period size: 72 Copynumber: 1.9 Consensus size: 72
18229248 CATGTTAACC
* ** * *
18229258 CACACACATAATGCCTTAGTAATTCACATACATA-TTGACATTCCAATCCGCACACATAGTGCCG
1 CACACACATAATGCCGTACAAATTCACACACATAGTT-ACATTCAAATCCGCACACATAGTGCCG
18229322 TACAAATT
65 TACAAATT
* * * *
18229330 CACACACATAGTGCCGTACAAATTCGCACACATAGTTCCATTCAAATTCGCACACATAGTGCC
1 CACACACATAATGCCGTACAAATTCACACACATAGTTACATTCAAATCCGCACACATAGTGCC
18229393 AAAATCATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
72 51 0.96
73 2 0.04
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (72 bp):
CACACACATAATGCCGTACAAATTCACACACATAGTTACATTCAAATCCGCACACATAGTGCCGT
ACAAATT
Found at i:18230587 original size:17 final size:17
Alignment explanation
Indices: 18230565--18230598 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18230555 CCCCACTTAA
*
18230565 TATATTATAACTTATTT
1 TATATTATAACATATTT
*
18230582 TATATTTTAACATATTT
1 TATATTATAACATATTT
18230599 CCATTATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:18234642 original size:30 final size:29
Alignment explanation
Indices: 18234606--18234662 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
18234596 CACCCTTGAA
* *
18234606 ATATTTACACTATTAGTCCTTCAAATTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTC
18234636 ATATTTACACTTTAATCCCTCAAATTT
1 ATATTTACACTTTAATCCCTCAAATTT
18234663 GGAGTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.32, C:0.21, G:0.02, T:0.46
Consensus pattern (29 bp):
ATATTTACACTTTAATCCCTCAAATTTTC
Found at i:18234671 original size:30 final size:30
Alignment explanation
Indices: 18234606--18234672 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
18234596 CACCCTTGAA
* * *
18234606 ATATTTACACTATTAGTCCTTCAAATTTTC
1 ATATTTACACTATTAATCCCTCAAATTTGC
*
18234636 ATATTTACACT-TTAATCCCTCAAATTTGG
1 ATATTTACACTATTAATCCCTCAAATTTGC
18234665 AGTATTTA
1 A-TATTTA
18234673 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTGC
Found at i:18235562 original size:18 final size:18
Alignment explanation
Indices: 18235541--18235600 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
18235531 ACATCTGAGA
18235541 TTGTTTTTGTACCTGAAC
1 TTGTTTTTGTACCTGAAC
** *
18235559 TTGTAATTGCCACCATGAGA-
1 TTGTTTTTG-TACC-TGA-AC
18235579 TTGTTTTTGTACCTGAAC
1 TTGTTTTTGTACCTGAAC
18235597 TTGT
1 TTGT
18235601 AATTGCCACC
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.03
18 14 0.44
19 6 0.19
20 10 0.31
21 1 0.03
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (18 bp):
TTGTTTTTGTACCTGAAC
Found at i:18235578 original size:38 final size:38
Alignment explanation
Indices: 18235536--18235612 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
18235526 AAAGAACATC
18235536 TGAGATTGTTTTTGTACCTGAACTTGTAATTGCCACCA
1 TGAGATTGTTTTTGTACCTGAACTTGTAATTGCCACCA
18235574 TGAGATTGTTTTTGTACCTGAACTTGTAATTGCCACCA
1 TGAGATTGTTTTTGTACCTGAACTTGTAATTGCCACCA
18235612 T
1 T
18235613 TCCTGATCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.40
Consensus pattern (38 bp):
TGAGATTGTTTTTGTACCTGAACTTGTAATTGCCACCA
Found at i:18246465 original size:22 final size:22
Alignment explanation
Indices: 18246437--18246481 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
18246427 TTACGCTGAT
* *
18246437 TCATAGAGTTGATTTGTAGGGA
1 TCATAGAATTGATTAGTAGGGA
18246459 TCATAGAATTGATTAGTAGGGA
1 TCATAGAATTGATTAGTAGGGA
18246481 T
1 T
18246482 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.29, T:0.36
Consensus pattern (22 bp):
TCATAGAATTGATTAGTAGGGA
Found at i:18247517 original size:5 final size:5
Alignment explanation
Indices: 18247507--18247533 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18247497 TAGATTATTC
18247507 CTTTT CTTTT CTTTT CTTTT CTTTT CT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CT
18247534 GACAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:18251188 original size:18 final size:17
Alignment explanation
Indices: 18251165--18251227 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
18251155 TATTTGTAAC
18251165 ATTATATATATAAATTTT
1 ATTATAT-TATAAATTTT
*
18251183 ATTATATGTTATATATTTTT
1 ATTATA--TTATA-AATTTT
**
18251203 ATTATATTATTTATTTT
1 ATTATATTATAAATTTT
18251220 ATTATATT
1 ATTATATT
18251228 TTTATATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 12 0.32
18 10 0.26
19 4 0.11
20 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
ATTATATTATAAATTTT
Found at i:18251195 original size:23 final size:20
Alignment explanation
Indices: 18251179--18251226 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
18251169 TATATATAAA
18251179 TTTTATTATATGTTATATAT
1 TTTTATTATATGTTATATAT
*
18251199 TTTTATTATA--TTATTTA-
1 TTTTATTATATGTTATATAT
18251216 TTTTATTATAT
1 TTTTATTATAT
18251227 TTTTATATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
20 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTATATAT
Found at i:18251204 original size:20 final size:18
Alignment explanation
Indices: 18251165--18251234 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
18251155 TATTTGTAAC
* *
18251165 ATTATATATATAAATTTT
1 ATTATATTTATATATTTT
18251183 ATTATATGTTATATATTTTT
1 ATTATAT-TTATATA-TTTT
*
18251203 ATTATA-TTATTTATTTT
1 ATTATATTTATATATTTT
*
18251220 ATTATATTTTTATAT
1 ATTATATTTATATAT
18251235 GTAAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
17 10 0.23
18 19 0.43
19 5 0.11
20 10 0.23
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (18 bp):
ATTATATTTATATATTTT
Found at i:18251233 original size:25 final size:28
Alignment explanation
Indices: 18251181--18251234 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
18251171 TATATAAATT
*
18251181 TTATTATATGTTATATATTTTTATTATA
1 TTATTATATGTTATATATATTTATTATA
*
18251209 TTATT-TATTTTAT-TATATTT-TTATA
1 TTATTATATGTTATATATATTTATTATA
18251234 T
1 T
18251235 GTAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 7 0.29
28 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (28 bp):
TTATTATATGTTATATATATTTATTATA
Found at i:18263585 original size:176 final size:175
Alignment explanation
Indices: 18263352--18263735 Score: 565
Period size: 176 Copynumber: 2.2 Consensus size: 175
18263342 TTTGACGAGA
* * *
18263352 AACAAATCGAAGACATAGCAGATCTGACTTTCAGATGTTTTCACATCAAAACAGATCCAAGATAA
1 AACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAA
* * *
18263417 -TAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACATAGCAGGTCTAACCTTCAGATG-TTT
66 CT-GATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTT
* *
18263480 ATACTGAAGCAAATCCAAGATGATTTGGGCATTCTTGTGTTTACAAGG
130 -TACTGAAGCAAATCCAAGATGATTT-GGCATCCTTGTGTTCACAAGG
* *
18263528 AACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
1 AACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAA
* *
18263593 CTGATCTGACATCTCTATTTCGACGGAGAGTAGATACATAGCAGATCTAACCTTCAGATGATTTT
66 CTGATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTT
*
18263658 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGG
131 ACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGG
* * * * *
18263703 AGCAAATCAAAGACACAGTAGATTTGGCTTTCA
1 AACAAATCGAAGACATAGCAGATTTGACTTTCA
18263736 CGTGTTTACG
Statistics
Matches: 187, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
175 46 0.25
176 137 0.73
177 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (175 bp):
AACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAACAGATCCAAGATAA
CTGATCTGACATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTT
ACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGG
Found at i:18265427 original size:21 final size:22
Alignment explanation
Indices: 18265403--18265450 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
18265393 TAACATTATA
18265403 TATATAAATTTTATTATA-TGT
1 TATATAAATTTTATTATATTGT
* *
18265424 TATAT-ATTTTTATTATATTTT
1 TATATAAATTTTATTATATTGT
18265445 TATATA
1 TATATA
18265451 TAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATATAAATTTTATTATATTGT
Found at i:18265427 original size:23 final size:24
Alignment explanation
Indices: 18265401--18265454 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 24
18265391 TGTAACATTA
18265401 TATATATAAATTTTATTATA-TGT
1 TATATATAAATTTTATTATATTGT
*
18265424 TATATAT---TTTTATTATATTTT
1 TATATATAAATTTTATTATATTGT
18265445 TATATATAAA
1 TATATATAAA
18265455 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 10 0.38
21 9 0.35
23 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATATATAAATTTTATTATATTGT
Found at i:18267298 original size:2 final size:2
Alignment explanation
Indices: 18267291--18267323 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18267281 TTCCTCTTTG
18267291 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18267324 TTTGTGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:18267998 original size:17 final size:18
Alignment explanation
Indices: 18267966--18268000 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18267956 TATAAAATAG
*
18267966 AAATTATATTTTTTATAA
1 AAATTATATATTTTATAA
18267984 AAATTAT-TATTTTATAA
1 AAATTATATATTTTATAA
18268001 TTTAGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAATTATATATTTTATAA
Found at i:18272357 original size:12 final size:12
Alignment explanation
Indices: 18272340--18272377 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
18272330 AAAGATATAT
18272340 AATATATTCCTA
1 AATATATTCCTA
**
18272352 AATATATTTATA
1 AATATATTCCTA
18272364 AATATATTCCTA
1 AATATATTCCTA
18272376 AA
1 AA
18272378 AAATATACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:18279789 original size:31 final size:30
Alignment explanation
Indices: 18279746--18279820 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
18279736 TAAATGACTA
* *
18279746 AAATGAAAGTTGAGTGACAT-CTTTATCATT
1 AAATTAAAGTTGAGTGA-ATAATTTATCATT
*
18279776 GAAATTAAAGTTGAGTGATTAATTTATCATT
1 -AAATTAAAGTTGAGTGAATAATTTATCATT
18279807 AAGATTAAAGTTGA
1 AA-ATTAAAGTTGA
18279821 ATAACTGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.37
Consensus pattern (30 bp):
AAATTAAAGTTGAGTGAATAATTTATCATT
Found at i:18281158 original size:17 final size:18
Alignment explanation
Indices: 18281127--18281160 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18281117 AATTTAACTT
18281127 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
18281145 TAATT-AATTCTTTAAA
1 TAATTAAATTATTTAAA
18281161 TTATAGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:18281561 original size:21 final size:22
Alignment explanation
Indices: 18281520--18281566 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
18281510 GAGAGTTTTC
*
18281520 TTTATTTTATGTGTATATAATA
1 TTTATATTATGTGTATATAATA
* *
18281542 TTTATATTAT-TGTATTTAATG
1 TTTATATTATGTGTATATAATA
18281563 TTTA
1 TTTA
18281567 AATAAATGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
TTTATATTATGTGTATATAATA
Found at i:18281663 original size:3 final size:3
Alignment explanation
Indices: 18281657--18281700 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
18281647 ATAGGATGGA
18281657 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18281701 AAGCATGGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18283012 original size:17 final size:17
Alignment explanation
Indices: 18282990--18283044 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
18282980 GCCATTTTTT
18282990 GTTAAAAGAAAAAAAAA
1 GTTAAAAGAAAAAAAAA
18283007 GTTAAAAACGAAAAAAAAA
1 GTT-AAAA-GAAAAAAAAA
* * *
18283026 CTGAAGCAGAAAAAAAAA
1 GTTAA-AAGAAAAAAAAA
18283044 G
1 G
18283045 CTGAGCGGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.52
19 12 0.39
ACGTcount: A:0.71, C:0.05, G:0.15, T:0.09
Consensus pattern (17 bp):
GTTAAAAGAAAAAAAAA
Found at i:18283640 original size:16 final size:16
Alignment explanation
Indices: 18283611--18283694 Score: 78
Period size: 16 Copynumber: 5.1 Consensus size: 16
18283601 CTATTTTACA
*
18283611 AAAATAGTATAAAAAAT
1 AAAATATTA-AAAAAAT
*
18283628 AAATTATTAAAAAAAT
1 AAAATATTAAAAAAAT
*** *
18283644 ATCTTAATAAAAAAAT
1 AAAATATTAAAAAAAT
*
18283660 AAAATACTAAAAGAAAT
1 AAAATATTAAAA-AAAT
*
18283677 AAAATATGAAAAAAAT
1 AAAATATTAAAAAAAT
18283693 AA
1 AA
18283695 TTTTTTTGGA
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
16 34 0.62
17 21 0.38
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (16 bp):
AAAATATTAAAAAAAT
Found at i:18283924 original size:150 final size:150
Alignment explanation
Indices: 18283732--18285004 Score: 1803
Period size: 151 Copynumber: 8.4 Consensus size: 150
18283722 GTTTTTTTTT
*
18283732 AAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTAAAT
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAATTTTAAA-
*
18283796 AATACAAACAAAGGGACAAAATTAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
65 AATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
*
18283861 CATTTGAAACATTATTTACTA
130 CATTTGAAACATTATGTACTA
*
18283882 AAATAATATAAAAAATAAAATACGAAAATAGAATA-TTTAAAAAATAAAATCCGAAAATTTTAAA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AAAATTTTAAA
* * *
18283946 AATACAAACAAAGGGTCAAAATTAGGGTTATTTATTAAATTAATAT-AAAAACACTAAAATAATA
65 AATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
*
18284010 CATTTCAAACATTATGTACTA
130 CATTTGAAACATTATGTACTA
* *
18284031 AAATAATATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATCCGAGAATTTT-AA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AAAATTTTAAA
* * * *
18284095 AATACAAAGAAATGGTCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACGCTAAAATAATA
65 AATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
* *
18284160 TATTTGAAACATTATGTACTC
130 CATTTGAAACATTATGTACTA
* * * *
18284181 AAATAATATAAAAAATAAAATACAAAAATAATATATTTTTAAAAATAAAATGCGAAAATTTTAAA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CCAAAATTTTAAA
*
18284246 AATACAAA-AAAGGGGCAAAAATCAGGGTTATTTACTAAATTAATAT-AAAAA-ACTAAAATAAT
65 AATACAAACAAAGGGAC-AAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
* *
18284308 ATATTAGAAACATTATGTACTA
129 ACATTTGAAACATTATGTACTA
* * *
18284330 AAATAATATAAAAAAATAAAAATACGAAAATAGTACATTTTTAAAAATAAAATCTGAAAATTTTA
1 AAATAATAT-AAAAAAT-AAAATACGAAAATAGTATATTTTAAAAAATAAAATC-CAAAATTTTA
* * * *
18284395 AAAATAAAAACAAAGGGCCAAAATCAAGGTTATTTACTAAATTAATATAAAAAAATACTAAAATA
63 AAAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATAT-AAAAAACACTAAAATA
* *
18284460 ATATATTTGAAACATAATGTACTA
127 ATACATTTGAAACATTATGTACTA
* *
18284484 AAATAATATAAAAAATAAAATATGAAAATAGTATATATTT-AAAAATAAAATTCAGAAATTTTAA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATAT-TTTAAAAAATAAAATCCA-AAATTTTAA
* * * *
18284548 AAACACAAACAAATGGATAAAATTAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
64 AAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAAT
*
18284613 ACATTTAAAACATTATGTACTA
129 ACATTTGAAACATTATGTACTA
* * * *
18284635 AAATAATATAAAAAATAAAATA-AAAAATATTATATTTTTAAAAATAAAATCTGAAAATTTTAAA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATC-CAAAATTTTAAA
* * * * * * *
18284699 AATAAAAAGAAATGGTCAAAATCAAGATTATTTACTAAATTAATATGAAAAAAATACTAAAATAA
65 AATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATAT--AAAAAACACTAAAATAA
18284764 TACATTTGAAACATTATGTACTA
128 TACATTTGAAACATTATGTACTA
* * *
18284787 AAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTTAAAAATACAATCCGAGAATTTTAAA
1 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AAAATTTTAAA
* *
18284851 AATACAAACAAAGGGACAAAATTAGGGTTATTTACTAAATTAATAT-AAACACACTAAAATAATA
65 AATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
18284915 CATTTGAAACATTATGTACTA
130 CATTTGAAACATTATGTACTA
* *
18284936 AAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAGATCCAAAAATTTTAA
1 AAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCC-AAAATTTTAA
18285001 AAAT
64 AAAT
18285005 TTAAAAAATA
Statistics
Matches: 1014, Mismatches: 85, Indels: 47
0.88 0.07 0.04
Matches are distributed among these distances:
149 202 0.20
150 273 0.27
151 277 0.27
152 207 0.20
153 15 0.01
154 40 0.04
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (150 bp):
AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAATTTTAAAA
ATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAATAATAC
ATTTGAAACATTATGTACTA
Found at i:18284198 original size:12 final size:13
Alignment explanation
Indices: 18284181--18284215 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
18284171 TTATGTACTC
18284181 AAATAATATA-AA
1 AAATAATATACAA
*
18284193 AAATAAAATACAA
1 AAATAATATACAA
18284206 AAATAATATA
1 AAATAATATA
18284216 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAATATACAA
Found at i:18284651 original size:12 final size:12
Alignment explanation
Indices: 18284634--18284668 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
18284624 ATTATGTACT
18284634 AAAATAATATAA
1 AAAATAATATAA
*
18284646 AAAATAAAATAA
1 AAAATAATATAA
*
18284658 AAAATATTATA
1 AAAATAATATA
18284669 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:18288629 original size:46 final size:46
Alignment explanation
Indices: 18288577--18288743 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
18288567 TGTAACCCGC
18288577 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
* * *
18288623 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGG--G-C--GTTCGCAT
* * * *
18288673 CTC-T---TGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
18288716 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
18288744 GAGTTCGGAT
Statistics
Matches: 100, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 55 0.55
47 25 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
Found at i:18288696 original size:93 final size:93
Alignment explanation
Indices: 18288584--18288756 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
18288574 CGCCCATAAG
* * *
18288584 TGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 TGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
18288649 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
18288677 TGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
18288742 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
18288757 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:18288771 original size:46 final size:44
Alignment explanation
Indices: 18288582--18288771 Score: 100
Period size: 46 Copynumber: 4.1 Consensus size: 44
18288572 CCCGCCCATA
* * ** ** **
18288582 AGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
18288627 AAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
18288677 --TGAACTCGGACTCAACTCAACAAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
18288720 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
18288767 AGTGA
1 AGTGA
18288772 CATGTCACTT
Statistics
Matches: 109, Mismatches: 20, Indels: 30
0.69 0.13 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 61 0.56
47 25 0.23
48 5 0.05
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:18290628 original size:16 final size:17
Alignment explanation
Indices: 18290603--18290650 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
18290593 CATGTTTTGT
18290603 TATA-TATGTAAT-TTA
1 TATATTATGTAATATTA
18290618 TATATTATGT-ATATTA
1 TATATTATGTAATATTA
18290634 TATATGTATGTATATAT
1 TATAT-TATGTA-ATAT
18290651 ATTTGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 6 0.21
16 13 0.46
17 5 0.18
19 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (17 bp):
TATATTATGTAATATTA
Found at i:18290651 original size:16 final size:17
Alignment explanation
Indices: 18290615--18290658 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
18290605 TATATGTAAT
18290615 TTATATAT-TATGTATA
1 TTATATATGTATGTATA
18290631 TTATATATGTATGTATA
1 TTATATATGTATGTATA
*
18290648 -TATATTTGTAT
1 TTATATATGTAT
18290659 ATAGTACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (17 bp):
TTATATATGTATGTATA
Found at i:18290657 original size:29 final size:29
Alignment explanation
Indices: 18290602--18290660 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
18290592 ACATGTTTTG
18290602 TTATATATGTAATTTATATATTATGTATA
1 TTATATATGTAATTTATATATTATGTATA
18290631 TTATATATGT-ATGTATATATATT-TGTATA
1 TTATATATGTAAT-T-TATATATTATGTATA
18290660 T
1 T
18290661 AGTACTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 18 0.64
30 8 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (29 bp):
TTATATATGTAATTTATATATTATGTATA
Found at i:18290759 original size:31 final size:34
Alignment explanation
Indices: 18290724--18290785 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
18290714 TTTATATACT
18290724 TCATTA-TTATTTCTAATAT-TAT-TATTATTAG
1 TCATTATTTATTTCTAATATGTATATATTATTAG
18290755 TCATTATTTATTTCTAATATGTATATATTAT
1 TCATTATTTATTTCTAATATGTATATATTAT
18290786 GTAAATGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 6 0.21
32 13 0.46
33 3 0.11
34 6 0.21
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.58
Consensus pattern (34 bp):
TCATTATTTATTTCTAATATGTATATATTATTAG
Found at i:18290909 original size:29 final size:30
Alignment explanation
Indices: 18290859--18290920 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
18290849 CCATCTTATG
* *
18290859 TATATATTTTTAAATACTATATTGTATATA
1 TATATATTCTTAAATACCATATTGTATATA
*
18290889 TATATATTCTT-AATACCATATTGTCTATA
1 TATATATTCTTAAATACCATATTGTATATA
18290918 TAT
1 TAT
18290921 CATTATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (30 bp):
TATATATTCTTAAATACCATATTGTATATA
Found at i:18291008 original size:21 final size:21
Alignment explanation
Indices: 18290971--18291012 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
18290961 ATATCAAGAC
18290971 ACATATTTTATTATACTTGTAT
1 ACATATTTTATTATAC-TGTAT
18290993 ACATATTTTA-TATACTGTAT
1 ACATATTTTATTATACTGTAT
18291013 TATTTTCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 5 0.25
22 10 0.50
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (21 bp):
ACATATTTTATTATACTGTAT
Found at i:18295132 original size:17 final size:17
Alignment explanation
Indices: 18295112--18295144 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18295102 CCCAATAAAA
*
18295112 ACAATAAACCAAAATAC
1 ACAAAAAACCAAAATAC
18295129 ACAAAAAACCAAAATA
1 ACAAAAAACCAAAATA
18295145 ATTAAATGTT
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:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (17 bp):
ACAAAAAACCAAAATAC
Found at i:18296179 original size:30 final size:30
Alignment explanation
Indices: 18296122--18296179 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
18296112 TATAATTTCA
* *
18296122 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* * *
18296152 TTTTATTTTTGTTTCACTTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
18296180 TGGCCATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:18296371 original size:29 final size:29
Alignment explanation
Indices: 18296339--18296395 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
18296329 TTTTAATCCT
* *
18296339 TTTTAAATTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATCTATTTA
*
18296368 TTTTAAATATTTTATATATTATCTATTT
1 TTTTAAATATTTTATATATAATCTATTT
18296396 TTACTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATCTATTTA
Found at i:18296444 original size:12 final size:11
Alignment explanation
Indices: 18296427--18296608 Score: 98
Period size: 12 Copynumber: 16.5 Consensus size: 11
18296417 TATGTAAAAA
18296427 ATTATTGTATAT
1 ATTATT-TATAT
18296439 ATTATTT-T-T
1 ATTATTTATAT
*
18296448 A-T--TTATGT
1 ATTATTTATAT
18296456 ATTATTTATTAT
1 ATTATTTA-TAT
18296468 ATTATTTATAT
1 ATTATTTATAT
18296479 -TATATTATATAT
1 AT-TATT-TATAT
*
18296491 TTTATTTATAT
1 ATTATTTATAT
*
18296502 ATTTTATTATAT
1 ATTAT-TTATAT
18296514 ATTA--TATCAT
1 ATTATTTAT-AT
* *
18296524 TTTATTATACAT
1 ATTATT-TATAT
*
18296536 ATTATTCATTAT
1 ATTATTTA-TAT
*
18296548 ATTATTTTTAT
1 ATTATTTATAT
*
18296559 TTTA-TTATAT
1 ATTATTTATAT
18296569 ATTATATTATAT
1 ATTAT-TTATAT
*
18296581 -TATATTATTATTT
1 AT-TA-T-TTATAT
18296594 ATTATTTAT-T
1 ATTATTTATAT
18296604 ATTAT
1 ATTAT
18296609 GTGTAATTTT
Statistics
Matches: 135, Mismatches: 15, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
6 2 0.01
7 1 0.01
8 3 0.02
9 6 0.04
10 21 0.16
11 31 0.23
12 58 0.43
13 12 0.09
14 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:18296472 original size:5 final size:5
Alignment explanation
Indices: 18296436--18296608 Score: 104
Period size: 5 Copynumber: 35.6 Consensus size: 5
18296426 AATTATTGTA
*
18296436 TATAT TAT-T TTTAT T-TAT GTATTAT T-TAT TATAT TAT-T TATAT TATAT
1 TATAT TATAT TATAT TATAT -TA-TAT TATAT TATAT TATAT TATAT TATAT
* * *
18296484 TATA- TATTT TAT-T TATA- TATTT TAT-T ATATAT TATAT CAT-T T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT -TATAT TATAT TATAT TATAT
* * *
18296529 TATA- CATAT TATTCAT TATAT TAT-T TTTAT TTTATT ATATAT TATAT
1 TATAT TATAT TA-T-AT TATAT TATAT TATAT TATA-T -TATAT TATAT
18296576 TATAT TATAT TATTAT T-TAT TAT-T TATTAT TAT
1 TATAT TATAT TA-TAT TATAT TATAT TA-TAT TAT
18296609 GTGTAATTTT
Statistics
Matches: 136, Mismatches: 9, Indels: 46
0.71 0.05 0.24
Matches are distributed among these distances:
3 1 0.01
4 41 0.30
5 71 0.52
6 13 0.10
7 10 0.07
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.65
Consensus pattern (5 bp):
TATAT
Found at i:18299634 original size:118 final size:118
Alignment explanation
Indices: 18299451--18299687 Score: 465
Period size: 118 Copynumber: 2.0 Consensus size: 118
18299441 GCCATCTCTA
18299451 ACAAAATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATTAACCTAAAACTGGTTTTT
1 ACAAAATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATTAACCTAAAACTGGTTTTT
18299516 TACCCTAATAATATAAAAAATAGAATAAAATACCAAAATAGGTTGTTTGAAAG
66 TACCCTAATAATATAAAAAATAGAATAAAATACCAAAATAGGTTGTTTGAAAG
18299569 ACAAAATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATTAACCTAAAACTGGTTTTT
1 ACAAAATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATTAACCTAAAACTGGTTTTT
*
18299634 TATCCTAATAATATAAAAAATAGAATAAAATACCAAAATAGGTTGTTTGAAAG
66 TACCCTAATAATATAAAAAATAGAATAAAATACCAAAATAGGTTGTTTGAAAG
18299687 A
1 A
18299688 TAAGTACCTA
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.32
Consensus pattern (118 bp):
ACAAAATCTATAACATGCCAAATAAATTTCATAAATATTATCTAATTAACCTAAAACTGGTTTTT
TACCCTAATAATATAAAAAATAGAATAAAATACCAAAATAGGTTGTTTGAAAG
Found at i:18299955 original size:23 final size:23
Alignment explanation
Indices: 18299926--18299998 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
18299916 CCAACAATCC
18299926 TAATAATAGTTTTTTACTAACAA
1 TAATAATAGTTTTTTACTAACAA
** *
18299949 TAATAATA---ACTAAC-AACAA
1 TAATAATAGTTTTTTACTAACAA
**
18299968 TAATAAGGGTTTTTTACTAACAA
1 TAATAATAGTTTTTTACTAACAA
18299991 TAATAATA
1 TAATAATA
18299999 ACTAACAAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
19 11 0.31
20 3 0.08
22 3 0.08
23 19 0.53
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (23 bp):
TAATAATAGTTTTTTACTAACAA
Found at i:18299962 original size:16 final size:16
Alignment explanation
Indices: 18299941--18299973 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18299931 ATAGTTTTTT
*
18299941 ACTAACAATAATAATA
1 ACTAACAACAATAATA
18299957 ACTAACAACAATAATA
1 ACTAACAACAATAATA
18299973 A
1 A
18299974 GGGTTTTTTA
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:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (16 bp):
ACTAACAACAATAATA
Found at i:18300006 original size:39 final size:39
Alignment explanation
Indices: 18299866--18300006 Score: 162
Period size: 39 Copynumber: 3.5 Consensus size: 39
18299856 AATATAAATC
*
18299866 AACAATAATAATAACTAACAATAAT-TGGGATTTTTTACT
1 AACAATAATAATAACTAACAATAATAAGGG-TTTTTTACT
* * **
18299905 AACAATAATAACCAAC-AATC-CTAATAATAGTTTTTTACT
1 AACAATAATAA-TAACTAA-CAATAATAAGGGTTTTTTACT
18299944 AACAATAATAATAACTAACAACAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACT---AACAATAATAAGGGTTTTTTACT
18299986 AACAATAATAATAACTAACAA
1 AACAATAATAATAACTAACAA
18300007 AAAAATCGAC
Statistics
Matches: 85, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
38 3 0.04
39 42 0.49
40 5 0.06
41 1 0.01
42 34 0.40
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.31
Consensus pattern (39 bp):
AACAATAATAATAACTAACAATAATAAGGGTTTTTTACT
Found at i:18300006 original size:42 final size:42
Alignment explanation
Indices: 18299866--18300006 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
18299856 AATATAAATC
*
18299866 AACAATAATAATAACT---AACAATAAT-TGGGATTTTTTACT
1 AACAATAATAATAACTAACAACAATAATAAGGG-TTTTTTACT
* * **
18299905 AAC---AATAATAACCAACAATC-CTAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAA-CAATAATAAGGGTTTTTTACT
18299944 AACAATAATAATAACTAACAACAATAATAAGGGTTTTTTACT
1 AACAATAATAATAACTAACAACAATAATAAGGGTTTTTTACT
18299986 AACAATAATAATAACTAACAA
1 AACAATAATAATAACTAACAA
18300007 AAAAATCGAC
Statistics
Matches: 84, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
36 9 0.11
39 21 0.25
40 2 0.02
41 1 0.01
42 51 0.61
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.31
Consensus pattern (42 bp):
AACAATAATAATAACTAACAACAATAATAAGGGTTTTTTACT
Found at i:18302601 original size:17 final size:19
Alignment explanation
Indices: 18302574--18302618 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
18302564 CTTATTTTAA
*
18302574 AATTTTAATATATATT-TT
1 AATTTTTATATATATTATT
*
18302592 -ATTTTTATATTTATTATT
1 AATTTTTATATATATTATT
18302610 AATTTTTAT
1 AATTTTTAT
18302619 GTTATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 13 0.57
18 2 0.09
19 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTATATATATTATT
Found at i:18307510 original size:13 final size:14
Alignment explanation
Indices: 18307484--18307515 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
18307474 ACTAACGACG
18307484 AATTAAACCATTAT
1 AATTAAACCATTAT
18307498 AATTAAA-CATTAT
1 AATTAAACCATTAT
18307511 AATTA
1 AATTA
18307516 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:18312478 original size:15 final size:15
Alignment explanation
Indices: 18312460--18312490 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18312450 ATTTAAAAAC
18312460 TAAGTATTTGTGTTT
1 TAAGTATTTGTGTTT
18312475 TAAGTATTTGTGTTT
1 TAAGTATTTGTGTTT
18312490 T
1 T
18312491 CTTATTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (15 bp):
TAAGTATTTGTGTTT
Found at i:18312829 original size:9 final size:9
Alignment explanation
Indices: 18312815--18312854 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
18312805 AGTTTAAATA
18312815 ATTAAAAAC
1 ATTAAAAAC
18312824 ATTAAAAAC
1 ATTAAAAAC
*
18312833 ATT-AAATC
1 ATTAAAAAC
*
18312841 ATTAAAAAT
1 ATTAAAAAC
18312850 ATTAA
1 ATTAA
18312855 TTTTCAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (9 bp):
ATTAAAAAC
Found at i:18314445 original size:28 final size:29
Alignment explanation
Indices: 18314391--18314463 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
18314381 TTAATCAAAA
18314391 CCCTAAACCTTAAA-TCATTAAACTATATC
1 CCCTAAACCTTAAACTCA-TAAACTATATC
18314420 CCC-ATAACCTTAAACTC-TAAACTATATC
1 CCCTA-AACCTTAAACTCATAAACTATATC
*
18314448 CCCTAAACCCTAAACT
1 CCCTAAACCTTAAACT
18314464 ATATCCCTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 25 0.62
29 13 0.32
30 2 0.05
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (29 bp):
CCCTAAACCTTAAACTCATAAACTATATC
Found at i:18314454 original size:21 final size:21
Alignment explanation
Indices: 18314430--18314483 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
18314420 CCCATAACCT
*
18314430 TAAACTCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
18314451 TAAACCCTAAACTATATCCCT
1 TAAACCCTAAACTATATCCCC
*
18314472 TAAACCATAAAC
1 TAAACCCTAAAC
18314484 CACAAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:18314625 original size:28 final size:28
Alignment explanation
Indices: 18314558--18314641 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
18314548 TAAAGTACCC
*
18314558 TAAACTATATCCCCTAAAACCTAAACCT
1 TAAACTATAACCCCTAAAACCTAAACCT
* * * *
18314586 CAAAATAATAACCCCT-AAGCCTTAACCT
1 TAAACT-ATAACCCCTAAAACCTAAACCT
* **
18314614 TAAACTATTAACCCATAACCCCTAAACC
1 TAAACTA-TAACCCCTAAAACCTAAACC
18314642 CCTAACCAAT
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
27 1 0.02
28 25 0.60
29 16 0.38
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.23
Consensus pattern (28 bp):
TAAACTATAACCCCTAAAACCTAAACCT
Found at i:18314654 original size:29 final size:28
Alignment explanation
Indices: 18314622--18314676 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
18314612 CTTAAACTAT
18314622 TAACCCATAACCCCTAAACCCCTAACCAA
1 TAACCCATAACCCCTAAACCCC-AACCAA
*
18314651 TAACCCATAACCCTTAAACCCCAACC
1 TAACCCATAACCCCTAAACCCCAACC
18314677 CTTAAAACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (28 bp):
TAACCCATAACCCCTAAACCCCAACCAA
Found at i:18314687 original size:28 final size:29
Alignment explanation
Indices: 18314627--18314697 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
18314617 ACTATTAACC
* **
18314627 CATAACCCCTAAACCCCTAACCAATAACC
1 CATAACCCATAAACCCCTAACCAATAAAA
* **
18314656 CATAACCCTTAAACCCC-AACCCTTAAAA
1 CATAACCCATAAACCCCTAACCAATAAAA
*
18314684 CATAAGCCATAAAC
1 CATAACCCATAAAC
18314698 ATAATCCCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.15
Consensus pattern (29 bp):
CATAACCCATAAACCCCTAACCAATAAAA
Found at i:18314699 original size:13 final size:13
Alignment explanation
Indices: 18314681--18314725 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
18314671 CCAACCCTTA
*
18314681 AAACATAAGCCAT
1 AAACATAATCCAT
*
18314694 AAACATAATCCCT
1 AAACATAATCCAT
18314707 AAACCCATAATCCAT
1 AAA--CATAATCCAT
18314722 AAAC
1 AAAC
18314726 CTATAAATAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 15 0.56
15 12 0.44
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (13 bp):
AAACATAATCCAT
Found at i:18314717 original size:15 final size:14
Alignment explanation
Indices: 18314623--18314731 Score: 57
Period size: 15 Copynumber: 7.6 Consensus size: 14
18314613 TTAAACTATT
18314623 AACCCATAACCCCTA
1 AACCCATAA-CCCTA
* *
18314638 AACCCCTAA-CCAA
1 AACCCATAACCCTA
18314651 TAACCCATAACCCTTA
1 -AACCCATAACCC-TA
*
18314667 AACCC-CAACCCTTA
1 AACCCATAACCC-TA
* *
18314681 AA-ACATAAGCCATA
1 AACCCATAA-CCCTA
18314695 AA--CATAATCCCTA
1 AACCCATAA-CCCTA
*
18314708 AACCCATAATCCATA
1 AACCCATAA-CCCTA
*
18314723 AACCTATAA
1 AACCCATAA
18314732 ATAGTAAATC
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
13 15 0.20
14 24 0.32
15 35 0.47
16 1 0.01
ACGTcount: A:0.45, C:0.37, G:0.01, T:0.17
Consensus pattern (14 bp):
AACCCATAACCCTA
Found at i:18323032 original size:14 final size:14
Alignment explanation
Indices: 18323013--18323049 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
18323003 TCTCAAATTG
*
18323013 CAATTTATCATATT
1 CAATTTATCATAGT
18323027 CAATTTAT--TAGT
1 CAATTTATCATAGT
18323039 CAATTTATCAT
1 CAATTTATCAT
18323050 TTCTTTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 11 0.55
14 9 0.45
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (14 bp):
CAATTTATCATAGT
Found at i:18325991 original size:17 final size:18
Alignment explanation
Indices: 18325947--18325998 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 18
18325937 TACCTCAATT
*
18325947 TTTATAATATCATTAATTAA
1 TTTA-AATAT-ATTTATTAA
18325967 TTTAAATAT-TTTATTATA
1 TTTAAATATATTTATTA-A
18325985 TTT-AATATATTTAT
1 TTTAAATATATTTAT
18325999 ATAAACTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 11 0.38
18 9 0.31
19 5 0.17
20 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATATATTTATTAA
Found at i:18325997 original size:18 final size:17
Alignment explanation
Indices: 18325951--18325998 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
18325941 TCAATTTTTA
*
18325951 TAATATCATTAATTAATT
1 TAATAT-ATTTATTAATT
18325969 TAA-ATATTTTATTATATT
1 TAATATA-TTTATTA-ATT
18325987 TAATATATTTAT
1 TAATATATTTAT
18325999 ATAAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.04
17 8 0.31
18 14 0.54
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATATATTTATTAATT
Found at i:18326001 original size:17 final size:18
Alignment explanation
Indices: 18325962--18325996 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18325952 AATATCATTA
18325962 ATTA-ATTTAAATATTTT
1 ATTATATTTAAATATTTT
18325979 ATTATATTTAATATATTT
1 ATTATATTTAA-ATATTT
18325997 ATATAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTATATTTAAATATTTT
Found at i:18326732 original size:6 final size:6
Alignment explanation
Indices: 18326716--18326750 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
18326706 TTCTGGGTTT
*
18326716 GCTTCA TCTTCA GCTTCA GCTTCA GCTTCA GCTTC
1 GCTTCA GCTTCA GCTTCA GCTTCA GCTTCA GCTTC
18326751 TGCAAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.34, G:0.14, T:0.37
Consensus pattern (6 bp):
GCTTCA
Found at i:18330303 original size:6 final size:6
Alignment explanation
Indices: 18330292--18330326 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
18330282 CAACAAGACT
18330292 GGCAAG GGCAAG GGCAAG GGCAAG GGCAAG GGCAA
1 GGCAAG GGCAAG GGCAAG GGCAAG GGCAAG GGCAA
18330327 ATTTGCCGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.49, T:0.00
Consensus pattern (6 bp):
GGCAAG
Found at i:18332567 original size:25 final size:24
Alignment explanation
Indices: 18332534--18332582 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
18332524 CCGCAATGTT
18332534 TATCCAGATCTTTAAATTTCTAGA
1 TATCCAGATCTTTAAATTTCTAGA
* **
18332558 TATCGCAGATTTTTATTTTTCTAGA
1 TATC-CAGATCTTTAAATTTCTAGA
18332583 ACAGATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.47
Consensus pattern (24 bp):
TATCCAGATCTTTAAATTTCTAGA
Found at i:18333476 original size:9 final size:9
Alignment explanation
Indices: 18333462--18333504 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
18333452 TAGTAATTCT
18333462 AAAATATTA
1 AAAATATTA
*
18333471 AAAATAAATA
1 AAAAT-ATTA
*
18333481 TAAATTATTA
1 -AAAATATTA
18333491 AAAATATTA
1 AAAATATTA
18333500 AAAAT
1 AAAAT
18333505 TATATTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 18 0.64
10 6 0.21
11 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:18334182 original size:13 final size:13
Alignment explanation
Indices: 18334164--18334191 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18334154 AGCTTCTTTT
18334164 TATTTTTAATTAA
1 TATTTTTAATTAA
18334177 TATTTTTAATTAA
1 TATTTTTAATTAA
18334190 TA
1 TA
18334192 AATATATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTTTTAATTAA
Found at i:18351162 original size:70 final size:70
Alignment explanation
Indices: 18351083--18351222 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
18351073 AAAATATATG
*
18351083 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAACTTATAAAA
1 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
18351148 AAATT
66 AAATT
18351153 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
1 GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
18351218 AAATT
66 AAATT
18351223 AAATTGATAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (70 bp):
GGTTAATTCAATCAATTAATCGAAATTTATTTTTTGTTGTTAAAATAAGTATAAAAATTATAAAA
AAATT
Found at i:18352025 original size:9 final size:9
Alignment explanation
Indices: 18351997--18352064 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
18351987 TTTATACAAA
*
18351997 TAATTCGAT
1 TAATTCGGT
*
18352006 TAATTAAGG-
1 TAATT-CGGT
*
18352015 TAATTCGGG
1 TAATTCGGT
*
18352024 TAATTTGGT
1 TAATTCGGT
*
18352033 TAATTCGAT
1 TAATTCGGT
*
18352042 TAATTCGAT
1 TAATTCGGT
18352051 TAATTCGGT
1 TAATTCGGT
18352060 TAATT
1 TAATT
18352065 TTATACTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
8 2 0.04
9 46 0.94
10 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:18355094 original size:30 final size:30
Alignment explanation
Indices: 18355058--18355115 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18355048 TTTTCAGGAT
18355058 CCATACAGGCTGGACACACGCCCATGTGAG
1 CCATACAGGCTGGACACACGCCCATGTGAG
* *
18355088 CCATACAGGTTGGACACATGCCCATGTG
1 CCATACAGGCTGGACACACGCCCATGTG
18355116 CCAACTTGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (30 bp):
CCATACAGGCTGGACACACGCCCATGTGAG
Found at i:18356222 original size:19 final size:18
Alignment explanation
Indices: 18356181--18356216 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18356171 TTAATTAGCC
18356181 ATTTTTATTTTTAGTTTA
1 ATTTTTATTTTTAGTTTA
*
18356199 ATTTTTGTTTTCTAGTTT
1 ATTTTTATTTT-TAGTTT
18356217 TCTTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (18 bp):
ATTTTTATTTTTAGTTTA
Found at i:18361570 original size:15 final size:16
Alignment explanation
Indices: 18361550--18361586 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18361540 CACCCCATTT
18361550 TTATTTTGTT-TATAA
1 TTATTTTGTTATATAA
*
18361565 TTA-TTTGTTATATTA
1 TTATTTTGTTATATAA
18361580 TTATTTT
1 TTATTTT
18361587 TATTTTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 10 0.53
16 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (16 bp):
TTATTTTGTTATATAA
Found at i:18361589 original size:14 final size:14
Alignment explanation
Indices: 18361550--18361623 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 14
18361540 CACCCCATTT
* *
18361550 TTATTTTGTTTATAA
1 TTATTTT-TATATTA
18361565 TTATTTGTTATATTA
1 TTATTT-TTATATTA
*
18361580 TTATTTTTATTTTA
1 TTATTTTTATATTA
* * *
18361594 CTAATTTTATTTTA
1 TTATTTTTATATTA
*
18361608 TTTATTATT-TATTA
1 -TTATTTTTATATTA
18361622 TT
1 TT
18361624 CTTAACTTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 2 0.04
14 23 0.48
15 22 0.46
16 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATTTTTATATTA
Found at i:18361741 original size:3 final size:3
Alignment explanation
Indices: 18361733--18361782 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
18361723 ATCATTGAGT
* * *
18361733 TTA TTA TTA TTA TTA TTA TTA TTT TTG TT- TTA TTT TTA TT- TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18361778 TTA TT
1 TTA TT
18361783 TTTTATTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 6 0.15
3 34 0.85
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:18361767 original size:11 final size:11
Alignment explanation
Indices: 18361751--18361796 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
18361741 ATTATTATTA
18361751 TTATTTTTGTT
1 TTATTTTTGTT
*
18361762 TTATTTTTATT
1 TTATTTTTGTT
*
18361773 TTATTTTATTTT
1 TTATTTT-TGTT
*
18361785 TTATTTATGTT
1 TTATTTTTGTT
18361796 T
1 T
18361797 CTTTTTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.80
Consensus pattern (11 bp):
TTATTTTTGTT
Found at i:18361771 original size:17 final size:17
Alignment explanation
Indices: 18361745--18361817 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
18361735 ATTATTATTA
*
18361745 TTATTATTATTTTTGTT
1 TTATTTTTATTTTTGTT
*
18361762 TTATTTTTA-TTTTATT
1 TTATTTTTATTTTTGTT
*
18361778 TTATTTTTTATTTATG-T
1 TTA-TTTTTATTTTTGTT
* * *
18361795 TTCTTTTTAATTTTGCT
1 TTATTTTTATTTTTGTT
18361812 TTATTT
1 TTATTT
18361818 GCTTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
16 19 0.42
17 23 0.51
18 3 0.07
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.77
Consensus pattern (17 bp):
TTATTTTTATTTTTGTT
Found at i:18361771 original size:23 final size:23
Alignment explanation
Indices: 18361739--18361790 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
18361729 GAGTTTATTA
*
18361739 TTATTATTATTATTATTTT-TGTT
1 TTATTTTTATT-TTATTTTATGTT
*
18361762 TTATTTTTATTTTATTTTATTTT
1 TTATTTTTATTTTATTTTATGTT
18361785 TTATTT
1 TTATTT
18361791 ATGTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (23 bp):
TTATTTTTATTTTATTTTATGTT
Found at i:18361785 original size:6 final size:6
Alignment explanation
Indices: 18361732--18361808 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
18361722 TATCATTGAG
* * * *
18361732 TTTATT ATTATT ATTATT ATTATT TTT-GT TTTATT TTTA-T TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
18361777 TTTATT TTT-TA TTTATG TTTCTT TTTAATT TT
1 TTTATT TTTATT TTTATT TTTATT TTT-ATT TT
18361809 GCTTTATTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
5 18 0.31
6 36 0.62
7 4 0.07
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:18375875 original size:22 final size:22
Alignment explanation
Indices: 18375848--18375902 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
18375838 TTGTTGGTGA
18375848 TGCTATGTTTTGTGCTGTTTAG
1 TGCTATGTTTTGTGCTGTTTAG
* * *
18375870 TGCTATTTTTTGTGTTGTTTGG
1 TGCTATGTTTTGTGCTGTTTAG
18375892 TG-T-TGTTTTGT
1 TGCTATGTTTTGT
18375903 TGTTGTGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 7 0.24
21 1 0.03
22 21 0.72
ACGTcount: A:0.05, C:0.05, G:0.27, T:0.62
Consensus pattern (22 bp):
TGCTATGTTTTGTGCTGTTTAG
Found at i:18375906 original size:11 final size:11
Alignment explanation
Indices: 18375876--18375989 Score: 131
Period size: 11 Copynumber: 10.5 Consensus size: 11
18375866 TTAGTGCTAT
*
18375876 TTTTTGTGTTG
1 TTTTGGTGTTG
18375887 -TTTGGTGTTG
1 TTTTGGTGTTG
*
18375897 TTTTGTTGTTG
1 TTTTGGTGTTG
*
18375908 TGTTGGTGTTG
1 TTTTGGTGTTG
*
18375919 TTTTAGTGTTG
1 TTTTGGTGTTG
*
18375930 TTTTGTTGTTG
1 TTTTGGTGTTG
*
18375941 TGTTGGTGTTG
1 TTTTGGTGTTG
*
18375952 TTTTGGTGCTG
1 TTTTGGTGTTG
* *
18375963 TTTTGTTGCTG
1 TTTTGGTGTTG
*
18375974 TTTTGGTGCTG
1 TTTTGGTGTTG
18375985 TTTTG
1 TTTTG
18375990 TTACTATTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
10 9 0.10
11 79 0.90
ACGTcount: A:0.01, C:0.03, G:0.33, T:0.63
Consensus pattern (11 bp):
TTTTGGTGTTG
Found at i:18375932 original size:33 final size:33
Alignment explanation
Indices: 18375881--18375989 Score: 166
Period size: 33 Copynumber: 3.3 Consensus size: 33
18375871 GCTATTTTTT
18375881 GTGTTG-TTTGGTGTTGTTTTGTTGTTGTGTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGTTGTGTTG
*
18375913 GTGTTGTTTTAGTGTTGTTTTGTTGTTGTGTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGTTGTGTTG
* * *
18375946 GTGTTGTTTTGGTGCTGTTTTGTTGCTGTTTTG
1 GTGTTGTTTTGGTGTTGTTTTGTTGTTGTGTTG
*
18375979 GTGCTGTTTTG
1 GTGTTGTTTTG
18375990 TTACTATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
32 6 0.09
33 64 0.91
ACGTcount: A:0.01, C:0.03, G:0.35, T:0.61
Consensus pattern (33 bp):
GTGTTGTTTTGGTGTTGTTTTGTTGTTGTGTTG
Found at i:18375999 original size:22 final size:22
Alignment explanation
Indices: 18375952--18375999 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
18375942 GTTGGTGTTG
* *
18375952 TTTTGGTGCTGTTTTGTTGCTG
1 TTTTGGTGCTGTTTTGTTACTA
18375974 TTTTGGTGCTGTTTTGTTACTA
1 TTTTGGTGCTGTTTTGTTACTA
18375996 TTTT
1 TTTT
18376000 TATACTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.04, C:0.08, G:0.25, T:0.62
Consensus pattern (22 bp):
TTTTGGTGCTGTTTTGTTACTA
Found at i:18376729 original size:11 final size:11
Alignment explanation
Indices: 18376707--18376748 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
18376697 TAAACCTTAA
*
18376707 TGCTGCTTTGG
1 TGCTGTTTTGG
*
18376718 TGTTGTTTTGG
1 TGCTGTTTTGG
18376729 TGCTGTTTTGG
1 TGCTGTTTTGG
*
18376740 TGGTGTTTT
1 TGCTGTTTT
18376749 ATTGTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (11 bp):
TGCTGTTTTGG
Found at i:18376738 original size:22 final size:22
Alignment explanation
Indices: 18376707--18376748 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18376697 TAAACCTTAA
*
18376707 TGCTGCTTTGGTGTTGTTTTGG
1 TGCTGCTTTGGTGGTGTTTTGG
*
18376729 TGCTGTTTTGGTGGTGTTTT
1 TGCTGCTTTGGTGGTGTTTT
18376749 ATTGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.57
Consensus pattern (22 bp):
TGCTGCTTTGGTGGTGTTTTGG
Found at i:18378834 original size:3 final size:3
Alignment explanation
Indices: 18378826--18378859 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18378816 AGGTTGAGAA
18378826 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18378860 TCGTAGGGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18384550 original size:16 final size:16
Alignment explanation
Indices: 18384529--18384589 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
18384519 CAGTAAATGA
18384529 TTAACTCCATTCCAAT
1 TTAACTCCATTCCAAT
* ** *
18384545 TTAACTTCATTTGATTCT
1 TTAACTCCATTCCA--AT
18384563 TTAACTCCATTCCAAT
1 TTAACTCCATTCCAAT
*
18384579 TTAACTTCATT
1 TTAACTCCATT
18384590 TGATTCTTTT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
16 22 0.65
18 12 0.35
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAACTCCATTCCAAT
Done.