Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 319 of 322
Found at i:105725896 original size:68 final size:68
Alignment explanation
Indices: 105725816--105725959 Score: 288
Period size: 68 Copynumber: 2.1 Consensus size: 68
105725806 ATGCTACATC
105725816 TTGGGGCATCAACAAAGTCTTCTAGGTCTTCTAGACACATATCAAGTTCAAAAGGGTCTTCAAAA
1 TTGGGGCATCAACAAAGTCTTCTAGGTCTTCTAGACACATATCAAGTTCAAAAGGGTCTTCAAAA
105725881 TGT
66 TGT
105725884 TTGGGGCATCAACAAAGTCTTCTAGGTCTTCTAGACACATATCAAGTTCAAAAGGGTCTTCAAAA
1 TTGGGGCATCAACAAAGTCTTCTAGGTCTTCTAGACACATATCAAGTTCAAAAGGGTCTTCAAAA
105725949 TGT
66 TGT
105725952 TTGGGGCA
1 TTGGGGCA
105725960 GAGAAACTCA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 76 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (68 bp):
TTGGGGCATCAACAAAGTCTTCTAGGTCTTCTAGACACATATCAAGTTCAAAAGGGTCTTCAAAA
TGT
Found at i:105727983 original size:132 final size:132
Alignment explanation
Indices: 105726746--105727894 Score: 1756
Period size: 132 Copynumber: 8.7 Consensus size: 132
105726736 TGAAGTCATA
* *
105726746 AAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105726811 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105726876 TC
131 TC
105726878 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105726943 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105727008 TC
131 TC
105727010 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105727075 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105727140 TC
131 TC
105727142 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105727207 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105727272 TC
131 TC
105727274 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105727339 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105727404 TC
131 TC
105727406 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
105727471 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
105727536 TC
131 TC
* * *
105727538 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTC
1 AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
* * * * *** * * *
105727603 CCTATATTGGTAGGGAGTGGATCGAAGAAAGTAAATCTTGTCTTCATGTATTGG-CGTGAAGTAG
66 CCTATATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAG
105727667 ATC
130 ATC
* * * * * * * * * * * * ** *
105727670 GAAGATAA-CAGGTCCTGTCTCCCTATATTGGTAG-GGAGTGGATCGAAGAA-AGTAAATCTTGT
1 AAAGA-AAGAAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAA-AATAGCAGGTCCTGT
* * * * * * * * *
105727732 CTTCATGTATTGG-CGTGAAGTAGATCGAAGATAACAGGTCCTGTC-TCCCTATATTGGTAG-GG
63 CTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCC-ATACTGGTAGCGA
*
105727794 AGTGGATC
125 AGTAGATC
* * * *
105727802 GAAGAAAGTAA-ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCT
1 AAAGAAAG-AAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCT
* *
105727866 CCCTATATTGGTAGGGAGTGGATCGAAGA
65 TCCTATATTGGTAGGAAGTGGATCGAAGA
105727895 AAGTAAATCT
Statistics
Matches: 933, Mismatches: 71, Indels: 26
0.91 0.07 0.03
Matches are distributed among these distances:
131 8 0.01
132 899 0.96
133 26 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
AAAGAAAGAAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAAATAGCAGGTCCTGTCTT
CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGA
TC
Found at i:105728035 original size:46 final size:44
Alignment explanation
Indices: 105726747--105728049 Score: 570
Period size: 44 Copynumber: 29.6 Consensus size: 44
105726737 GAAGTCATAA
* ** *
105726747 AAGAAAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105726791 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105726835 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105726879 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105726923 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105726967 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105727011 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105727055 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105727099 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105727143 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105727187 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105727231 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105727275 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105727319 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105727363 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105727407 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * *
105727451 AAAATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
** ** * * *
105727495 AAGAT-GCAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCA
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * *
105727539 AAGAAAGAAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * * * *
105727583 AAGATAACAGGTCCTGTCTCCCTATATTGGTAGGGAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
* * * ** *
105727627 AAGAAAGTAAATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * * * *
105727671 AAGATAACAGGTCCTGTCTCCCTATATTGGTAGGGAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
* * * ** *
105727715 AAGAAAGTAAATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * * * *
105727759 AAGATAACAGGTCCTGTCTCCCTATATTGGTAGGGAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
* * * ** *
105727803 AAGAAAGTAAATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * * ** * * * * *
105727847 AAGATAACAGGTCCTGTCTCCCTATATTGGTAGGGAGTGGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
* * * ** *
105727891 AAGAAAGTAAATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAG-GAAGTAGATCG
* * ** * * *
105727935 AAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTAGATTG
1 AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
* *
105727979 AAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCG
1 AAGATAGCAGATCTTACCTTCCTGTA-TTGGCAG-GAAGTAGATCG
* * *
105728025 AAGATGGCAGATTTTACCTCCCTGT
1 AAGATAGCAGATCTTACCTTCCTGT
105728050 GACTCCAGTG
Statistics
Matches: 953, Mismatches: 277, Indels: 56
0.74 0.22 0.04
Matches are distributed among these distances:
43 142 0.15
44 655 0.69
45 125 0.13
46 31 0.03
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTACCTTCCTGTATTGGCAGGAAGTAGATCG
Found at i:105728133 original size:44 final size:44
Alignment explanation
Indices: 105728085--105728416 Score: 243
Period size: 44 Copynumber: 7.6 Consensus size: 44
105728075 GATAACTCTG
* * *
105728085 TCTCCCTAGACAGCAGGGGAATAGATTGAAGATTACAGATCTTA
1 TCTCCCTAGACAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
* * * * *
105728129 TCTCCCTA-AGCAGTAGTGGAGTAGATCGAAGATGCCAGATTTTC
1 TCTCCCTAGA-CAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
* * * ** * *
105728173 CCTCCCT-GACTA-TAGTGGAGTACATTGAAGCCGATA-A-CTCTG
1 TCTCCCTAGAC-AGCAGTGGAGTAGATTGAAGATGACAGATCT-TA
* *
105728215 TCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTA
1 TCTCCCTAGACAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
* * *
105728259 TCTCCCTA-AGCAGTAGTGGAGTAGATCGAAGATGACAGATTTTA
1 TCTCCCTAGA-CAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
* * * ** * *
105728303 CCTCCCTGTGACTA-CAGTGGAGTACATTGAAGCCGATA-A-CTCTG
1 TCTCCCT-AGAC-AGCAGTGGAGTAGATTGAAGATGACAGATCT-TA
* *
105728347 TCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTA
1 TCTCCCTAGACAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
* *
105728391 TCTCCCTA-AGCAGTAGTGGAGCAGAT
1 TCTCCCTAGA-CAGCAGTGGAGTAGAT
105728417 CGCATCCAGT
Statistics
Matches: 218, Mismatches: 53, Indels: 34
0.71 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 10 0.05
43 64 0.29
44 118 0.54
45 23 0.11
46 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TCTCCCTAGACAGCAGTGGAGTAGATTGAAGATGACAGATCTTA
Found at i:105728388 original size:132 final size:132
Alignment explanation
Indices: 105728019--105728418 Score: 723
Period size: 132 Copynumber: 3.0 Consensus size: 132
105728009 GCAGCGAAGC
* *
105728019 AGATCGAAGATGGCAGATTTTACCTCCCTGTGACTCCAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
*
105728084 GTCTCCCTAGACAGCAGGGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
105728149 GT
131 GT
* * *
105728151 AGATCGAAGATGCCAGATTTTCCCTCCC--TGACTATAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
105728214 GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
105728279 GT
131 GT
105728281 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
105728346 GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
66 GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
105728411 GC
131 GT
105728413 AGATCG
1 AGATCG
105728419 CATCCAGTCT
Statistics
Matches: 257, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
130 125 0.49
132 132 0.51
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (132 bp):
AGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
GTCTCCCTAGACAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GT
Found at i:105728476 original size:82 final size:83
Alignment explanation
Indices: 105728381--105729085 Score: 739
Period size: 82 Copynumber: 8.6 Consensus size: 83
105728371 ATTGAAGATT
** * *
105728381 ACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATC-CAG-TCTTATCTCCCTAAGTA
1 ACAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACAGATCTTATCTCCCTAAGCA
* *
105728443 GTAGTGGAGCAGA-CAAAACC
64 GTAGTGGAGCAGATC-ACATC
* * ** **
105728463 ACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATC-GCATTA-AG-TCTTATCTCCCTAAGCA
1 ACAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACAGATCTTATCTCCCTAAGCA
* * * *
105728525 GTAGCGGAGCGGA-CAAAACC
64 GTAGTGGAGCAGATC-ACATC
* * * ** *
105728545 ACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCA
1 ACAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACAGATCTTATCTCCCTAAGCA
* *
105728607 GTAGTGGAGCAGA-CAAAACC
64 GTAGTGGAGCAGATC-ACATC
* ** *
105728627 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCA
1 ACAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACAGATCTTATCTCCCTAAGCA
*
105728689 GTAGTGGAGCAGATCGCATC
64 GTAGTGGAGCAGATCACATC
* *
105728709 -CAGTCTTATCTCCCTAAGTAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCTCTAAGCAGT
1 ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGT
* * *
105728773 AGTGGAGTAGATCGCATT
66 AGTGGAGCAGATCACATC
* * * * *
105728791 A-AGTCTTATCTCCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAAT
1 ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGT
*
105728855 AGTGGAGCAGATCGCATC
66 AGTGGAGCAGATCACATC
*
105728873 A-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAAT
1 ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGT
*
105728937 AGTGGAGCAGATCGCATC
66 AGTGGAGCAGATCACATC
*
105728955 A-AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGTAGT
1 ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGT
105729019 AGTGGAGCAGATCACATC
66 AGTGGAGCAGATCACATC
** * *
105729037 -CAGTCTTATCTCCCTAAATAGTAGTGGAGCAGACTAAAAACACAAATCT
1 ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-AAAACCACAGATCT
105729086 CATCCCCATG
Statistics
Matches: 572, Mismatches: 43, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
79 1 0.00
80 31 0.05
81 5 0.01
82 522 0.91
83 13 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (83 bp):
ACAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCACATC
Found at i:105729065 original size:286 final size:286
Alignment explanation
Indices: 105728386--105729029 Score: 1227
Period size: 286 Copynumber: 2.2 Consensus size: 286
105728376 AGATTACAGA
105728386 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGA
105728451 GCAGACAAAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCT
66 GCAGACAAAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCT
105728516 CCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGAT
131 CCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGAT
105728581 CGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAA
196 CGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAA
105728646 GCAATAGTGGAGCAGATCGCATCAAG
261 GCAATAGTGGAGCAGATCGCATCAAG
105728672 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGA
105728737 GCAGACAAAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCT
66 GCAGACAAAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCT
105728802 CCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGAT
131 CCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGAT
105728867 CGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAA
196 CGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAA
105728932 GCAATAGTGGAGCAGATCGCATCAAG
261 GCAATAGTGGAGCAGATCGCATCAAG
** *
105728958 TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CAAAACCACAGATCTTATCTCCCTAAGTAGTAGT
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATC-CAG-TCTTATCTCCCTAAGTAGTAGT
105729022 GGAGCAGA
63 GGAGCAGA
105729030 TCACATCCAG
Statistics
Matches: 352, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
285 1 0.00
286 318 0.90
287 3 0.01
288 30 0.09
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (286 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTAGTAGTGGA
GCAGACAAAACCACAGATCTTATCTCTCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCT
CCCTAAGCAGTAGCGGAGCGGACAAAACCACAGATCTTATCTCTCTAAGTAATAGTGGAGCAGAT
CGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAAAACCACAGATCTTATCTCCCTAA
GCAATAGTGGAGCAGATCGCATCAAG
Found at i:105732346 original size:6 final size:6
Alignment explanation
Indices: 105732327--105732386 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
105732317 ATTGAGTCCA
* * *
105732327 TTTA-T TTT-TT TTTATT TTTATT TTTAAT TTTATT TCTATT TTTATG
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
105732373 TTGATT GTTATT TT
1 TTTATT TTTATT TT
105732387 CTTAAACTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
5 7 0.16
6 36 0.84
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:105732359 original size:18 final size:17
Alignment explanation
Indices: 105732327--105732386 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 17
105732317 ATTGAGTCCA
105732327 TTTATTTTT-TTTTATT
1 TTTATTTTTATTTTATT
105732343 TTTATTTTTAATTTTATT
1 TTTATTTTT-ATTTTATT
* *
105732361 TCTATTTTTATGTTGATT
1 TTTATTTTTAT-TTTATT
*
105732379 GTTATTTT
1 TTTATTTT
105732387 CTTAAACTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 9 0.24
17 2 0.05
18 26 0.70
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTTATT
Found at i:105734254 original size:30 final size:30
Alignment explanation
Indices: 105734214--105734271 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
105734204 CTGGGCACTT
* *
105734214 CCACATGGGCTGTGCACACGCCCATGTGAG
1 CCACACGGGCTGGGCACACGCCCATGTGAG
**
105734244 CCACACGGGCTGGGCACTTGCCCATGTG
1 CCACACGGGCTGGGCACACGCCCATGTG
105734272 CCAGCCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (30 bp):
CCACACGGGCTGGGCACACGCCCATGTGAG
Found at i:105735122 original size:67 final size:67
Alignment explanation
Indices: 105735004--105735142 Score: 242
Period size: 67 Copynumber: 2.1 Consensus size: 67
105734994 TCTAGGTGGA
* *
105735004 TTCTTTCCTAGGTATTGTCTATCTCATTGGTTTATTCGATTATATTTTTAATTCATTCTCTGTTG
1 TTCTTTCCTAGGTATTGTCTATCTCATTGGTTTATTCGATTATATTCTTAATTCATTCTCTATTG
105735069 CG
66 CG
* *
105735071 TTCTTTCCTGGGTATTGTCTATCTCATTGGTTTATTCGATTTTATTCTTAATTCATTCTCTATTG
1 TTCTTTCCTAGGTATTGTCTATCTCATTGGTTTATTCGATTATATTCTTAATTCATTCTCTATTG
105735136 CG
66 CG
105735138 TTCTT
1 TTCTT
105735143 CATAATTAGT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.55
Consensus pattern (67 bp):
TTCTTTCCTAGGTATTGTCTATCTCATTGGTTTATTCGATTATATTCTTAATTCATTCTCTATTG
CG
Found at i:105736123 original size:24 final size:24
Alignment explanation
Indices: 105736096--105736147 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
105736086 TTAGTAAGTA
*
105736096 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
105736120 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
105736144 AAAT
1 AAAT
105736148 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:105736746 original size:44 final size:41
Alignment explanation
Indices: 105736650--105736731 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
105736640 AAAATAAGAC
105736650 ACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTT
1 ACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTT
105736691 ACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTT
1 ACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTT
105736732 CTTGTTCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.20, G:0.10, T:0.20
Consensus pattern (41 bp):
ACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTT
Found at i:105737596 original size:29 final size:29
Alignment explanation
Indices: 105737528--105737595 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
105737518 GGAGAAGAAG
*
105737528 AAGTATAAACATATTGGGTCATTTATACAAA
1 AAGTA-AAA-ATATTGGGCCATTTATACAAA
105737559 AAGTAAAAATATTGGGCCATTTATGA-AAA
1 AAGTAAAAATATTGGGCCATTTAT-ACAAA
105737588 AA-TAAAAA
1 AAGTAAAAA
105737596 AGGAAGGACA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
28 6 0.17
29 20 0.57
30 4 0.11
31 5 0.14
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.28
Consensus pattern (29 bp):
AAGTAAAAATATTGGGCCATTTATACAAA
Found at i:105737784 original size:30 final size:31
Alignment explanation
Indices: 105737720--105737784 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
105737710 ATGTTAATGG
*
105737720 GTGACTGATTTGTCACTTTTTGATAATGTTA
1 GTGACTGATTTGTCACTTTTTGATAAAGTTA
* *
105737751 GTGACTGATTTGTTA-TTTTT-TTAAAGTTGA
1 GTGACTGATTTGTCACTTTTTGATAAAGTT-A
105737781 GTGA
1 GTGA
105737785 TTGAATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.20
30 10 0.33
31 14 0.47
ACGTcount: A:0.23, C:0.06, G:0.22, T:0.49
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTTGATAAAGTTA
Found at i:105739791 original size:21 final size:21
Alignment explanation
Indices: 105739767--105739815 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
105739757 TTCTATTAAG
105739767 CTCTTACAAGGTTCTGTTCAA
1 CTCTTACAAGGTTCTGTTCAA
** * *
105739788 CTCTTATGAGTTTCTGTTCAG
1 CTCTTACAAGGTTCTGTTCAA
105739809 CTCTTAC
1 CTCTTAC
105739816 GAGCTTTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
CTCTTACAAGGTTCTGTTCAA
Found at i:105739840 original size:21 final size:22
Alignment explanation
Indices: 105739778--105739847 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 22
105739768 TCTTACAAGG
* *
105739778 TTCTGTTCAACTCTTATGAG-T
1 TTCTGTTCAGCCCTTATGAGCT
* *
105739799 TTCTGTTCAGCTCTTACGAGCT
1 TTCTGTTCAGCCCTTATGAGCT
105739821 TT-TGATT-AGCCCTTATGAGC-
1 TTCTG-TTCAGCCCTTATGAGCT
105739841 TTCTGTT
1 TTCTGTT
105739848 AATGATGTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.10
21 33 0.79
22 5 0.12
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.46
Consensus pattern (22 bp):
TTCTGTTCAGCCCTTATGAGCT
Found at i:105746686 original size:19 final size:18
Alignment explanation
Indices: 105746664--105746704 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
105746654 AAAAAAATTC
*
105746664 AAAAATT-TATATTTTTT
1 AAAAATTATAAATTTTTT
105746681 GAAAAATTATAAATTTTTT
1 -AAAAATTATAAATTTTTT
105746700 AAAAA
1 AAAAA
105746705 AAATCTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AAAAATTATAAATTTTTT
Found at i:105746705 original size:19 final size:18
Alignment explanation
Indices: 105746664--105746705 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
105746654 AAAAAAATTC
* *
105746664 AAAAATTTATATTTTTTG
1 AAAAATTTAAATTTTTTA
105746682 AAAAATTATAAATTTTTTA
1 AAAAATT-TAAATTTTTTA
105746701 AAAAA
1 AAAAA
105746706 AATCTAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAAATTTAAATTTTTTA
Found at i:105750438 original size:20 final size:20
Alignment explanation
Indices: 105750410--105750469 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
105750400 TATCATTAAA
*
105750410 TTATGTTAAATTATATATTT
1 TTATATTAAATTATATATTT
*
105750430 TTATATTAAATATAATAAATTGT
1 TTATATTAAAT-T-ATATATT-T
105750453 TTATA--AAATTAT-TATTT
1 TTATATTAAATTATATATTT
105750470 AAAGCCTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.09
19 2 0.06
20 11 0.32
21 5 0.15
22 6 0.18
23 6 0.18
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATATTAAATTATATATTT
Found at i:105751964 original size:18 final size:18
Alignment explanation
Indices: 105751922--105751966 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
105751912 CATATTTTTA
**
105751922 TTTT-AATTTTAATTTTT
1 TTTTAAATTTTAAAATTT
105751939 TTTGTAAATTTTAAAATTT
1 TTT-TAAATTTTAAAATTT
105751958 TTTTAAATT
1 TTTTAAATT
105751967 CTATCAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 7 0.29
19 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAAATTTTAAAATTT
Found at i:105752908 original size:15 final size:13
Alignment explanation
Indices: 105752888--105752932 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
105752878 GCTTCTTCTT
105752888 TTTTTAGTTTATGAA
1 TTTTTA-TTTAT-AA
105752903 TTTTTATTT-TAA
1 TTTTTATTTATAA
105752915 TTTTTA-TTATAA
1 TTTTTATTTATAA
105752927 TTTTTA
1 TTTTTA
105752933 AATTATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.07
12 17 0.59
13 1 0.03
14 3 0.10
15 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTATTTATAA
Found at i:105757782 original size:83 final size:83
Alignment explanation
Indices: 105757643--105757808 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
105757633 GGGCATCAGG
*
105757643 AAAAATAACTTGTATTACTACCAAGGTAGTACAGTTATTGGAGCAGTCGCTGCAGCTTCCGGTAA
1 AAAAATAACTTGTATTACTACCAAGGTAGTACAGTTATTGGAGCAGTCGCTACAGCTTCCGGTAA
*
105757708 CAAAGACTTGGACTCAAT
66 CAAAGAATTGGACTCAAT
105757726 AAAAATAACTTGTATTACTACCAAGGTAGTACAGTTATTGGAGCAGTCGCTACAGCTTCCGGTAA
1 AAAAATAACTTGTATTACTACCAAGGTAGTACAGTTATTGGAGCAGTCGCTACAGCTTCCGGTAA
105757791 CAAAGAATTGGACTCAAT
66 CAAAGAATTGGACTCAAT
105757809 GCAGTTGTGG
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.27
Consensus pattern (83 bp):
AAAAATAACTTGTATTACTACCAAGGTAGTACAGTTATTGGAGCAGTCGCTACAGCTTCCGGTAA
CAAAGAATTGGACTCAAT
Found at i:105758728 original size:21 final size:21
Alignment explanation
Indices: 105758702--105758742 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105758692 AGACGAGCAA
* *
105758702 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
105758723 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
105758743 TTGAGTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105762493 original size:11 final size:11
Alignment explanation
Indices: 105762477--105762525 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
105762467 TACAAATTAT
105762477 TTTATATAAAA
1 TTTATATAAAA
*
105762488 TTTATAT-AAT
1 TTTATATAAAA
*
105762498 TTTATGATTAAA
1 TTTAT-ATAAAA
*
105762510 TTTAAATAAAA
1 TTTATATAAAA
105762521 TTTAT
1 TTTAT
105762526 TTTTATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (11 bp):
TTTATATAAAA
Found at i:105762513 original size:22 final size:21
Alignment explanation
Indices: 105762470--105762518 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
105762460 AAAATATTAC
*
105762470 AAATTATTTTATATAAAATTT
1 AAATAATTTTATATAAAATTT
* *
105762491 ATATAATTTTATGATTAAATTT
1 AAATAATTTTAT-ATAAAATTT
105762513 AAATAA
1 AAATAA
105762519 AATTTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATAATTTTATATAAAATTT
Found at i:105770963 original size:19 final size:19
Alignment explanation
Indices: 105770939--105770978 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
105770929 GGTTGAAATT
*
105770939 AATAAACAAAAGTAAACTA
1 AATAAAAAAAAGTAAACTA
*
105770958 AATAAAAAAAATTAAACTA
1 AATAAAAAAAAGTAAACTA
105770977 AA
1 AA
105770979 ATAATTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (19 bp):
AATAAAAAAAAGTAAACTA
Found at i:105773238 original size:47 final size:47
Alignment explanation
Indices: 105773169--105773264 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
105773159 ACACATAGTC
*
105773169 CTCTTTCCCTTGTGCAATAAAACCCTCTGGCTGCTCCATGTAAAGCT
1 CTCTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCT
105773216 CTCTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCT
1 CTCTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCT
105773263 CT
1 CT
105773265 TCTTCCAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (47 bp):
CTCTTTCCCTTGTGCAACAAAACCCTCTGGCTGCTCCATGTAAAGCT
Found at i:105788465 original size:3 final size:3
Alignment explanation
Indices: 105788457--105788512 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
105788447 TGTTATAATT
*
105788457 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
105788505 TCA TTA TT
1 TTA TTA TT
105788513 GTTTATTAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:105788842 original size:13 final size:15
Alignment explanation
Indices: 105788810--105788845 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
105788800 ATTATCTCTA
105788810 ATATATGTATATATT
1 ATATATGTATATATT
*
105788825 ATATATGTTTATATT
1 ATATATGTATATATT
105788840 ATATAT
1 ATATAT
105788846 ATTATTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:105788857 original size:22 final size:25
Alignment explanation
Indices: 105788817--105788862 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
105788807 CTAATATATG
*
105788817 TATATATTATATATGTTTA-TATTA
1 TATATATTATATATCTTTACTATTA
105788841 TATATATTAT-T-TCTTTACTATT
1 TATATATTATATATCTTTACTATT
105788863 CCATGTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
23 5 0.25
24 10 0.50
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (25 bp):
TATATATTATATATCTTTACTATTA
Found at i:105790222 original size:24 final size:24
Alignment explanation
Indices: 105790195--105790244 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
105790185 TATCTTTTCA
105790195 ATATTATATCTTTATACATGACAT
1 ATATTATATCTTTATACATGACAT
105790219 ATATTATATCTTTATACATGACAT
1 ATATTATATCTTTATACATGACAT
105790243 AT
1 AT
105790245 GTATATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATTATATCTTTATACATGACAT
Found at i:105790415 original size:28 final size:27
Alignment explanation
Indices: 105790358--105790461 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 27
105790348 TTACATTATG
* *
105790358 TATGTATTTCTCAT-ATTATTAATTGTA
1 TATGTATTT-TTATGATTATTAATTGCA
*
105790385 TATGTATTTTTATGATGTATTAGTTGCA
1 TATGTATTTTTATGAT-TATTAATTGCA
* * *
105790413 TATATATTTTTATG-TTATCTTATGTACA
1 TATGTATTTTTATGATTAT-TAAT-TGCA
*
105790441 TAT-TATTTTATATTATTATTA
1 TATGTATTTT-TATGATTATTA
105790462 CTAAGTATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 6 0.10
27 20 0.32
28 32 0.52
29 4 0.06
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.58
Consensus pattern (27 bp):
TATGTATTTTTATGATTATTAATTGCA
Found at i:105797807 original size:32 final size:32
Alignment explanation
Indices: 105797771--105797834 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
105797761 CTGACGCAAG
105797771 TAAAGATGTCTCAAGGATACGCCCTTGTCCCC
1 TAAAGATGTCTCAAGGATACGCCCTTGTCCCC
*
105797803 TAAAGATGTCTCAAGGATATGCCCTTGTCCCC
1 TAAAGATGTCTCAAGGATACGCCCTTGTCCCC
105797835 CGGGTTTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (32 bp):
TAAAGATGTCTCAAGGATACGCCCTTGTCCCC
Found at i:105800346 original size:26 final size:26
Alignment explanation
Indices: 105800309--105800366 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
105800299 TGATACAAAT
105800309 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
105800335 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
105800361 TGATAA
1 TGATAA
105800367 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:105802020 original size:27 final size:26
Alignment explanation
Indices: 105801990--105802126 Score: 175
Period size: 27 Copynumber: 5.1 Consensus size: 26
105801980 AGCGTCCTGA
105801990 TGGCTATGCCACAATTATCTGATCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGG
* *
105802017 TGGCTTTGCCACATATATCTGTTCTGG
1 TGGCTATGCCACAT-TATCTGATCTGG
105802044 TGGCTATGCCACGATTATCTGATCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGG
* *
105802071 TGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTATGCCACAT-TATCTGATCTGG
* *
105802098 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTATGCCACATTATCTG-ATCTGG
105802125 TG
1 TG
105802127 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
TGGCTATGCCACATTATCTGATCTGG
Found at i:105802072 original size:54 final size:53
Alignment explanation
Indices: 105801990--105802144 Score: 222
Period size: 54 Copynumber: 2.9 Consensus size: 53
105801980 AGCGTCCTGA
105801990 TGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
*
105802044 TGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
* * * * *
105802098 TGGCTCTGCCACAATATCTGTATCTGGTGACTTCGTCACA-ATATCTG
1 TGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
105802145 GCAGCCTCGC
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 14 0.15
54 78 0.85
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
TGGCTATGCCACATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTGG
Found at i:105802137 original size:27 final size:27
Alignment explanation
Indices: 105801997--105802144 Score: 148
Period size: 27 Copynumber: 5.5 Consensus size: 27
105801987 TGATGGCTAT
*
105801997 GCCACAATTATCTG-ATCTGGTGGCTTT
1 GCCACAA-TATCTGTATCTGGTGGCTTC
105802024 GCCACATATATCTGT-TCTGGTGGCTAT-
1 GCCACA-ATATCTGTATCTGGTGGCT-TC
*
105802051 GCCACGATTATCTG-ATCTGGTGGC-TC
1 GCCAC-AATATCTGTATCTGGTGGCTTC
105802077 TGCCACATATATCTGT-TCTGGTGGC-TC
1 -GCCACA-ATATCTGTATCTGGTGGCTTC
*
105802104 TGCCACAATATCTGTATCTGGTGACTTC
1 -GCCACAATATCTGTATCTGGTGGCTTC
*
105802132 GTCACAATATCTG
1 GCCACAATATCTG
105802145 GCAGCCTCGC
Statistics
Matches: 106, Mismatches: 4, Indels: 22
0.80 0.03 0.17
Matches are distributed among these distances:
25 1 0.01
26 9 0.08
27 91 0.86
28 5 0.05
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GCCACAATATCTGTATCTGGTGGCTTC
Found at i:105805670 original size:70 final size:70
Alignment explanation
Indices: 105805588--105805727 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 70
105805578 ACGCTGAGGT
*
105805588 ATTTTCAATTTCCGTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTT
1 ATTTTCAATTTCCGTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
105805653 GAGCC
66 GAGCC
* *
105805658 ATTTTCAATTTCCGTTTTTCAATTTATGTTTCAAAAAAATTAACTCATATTGCGATAGGTGAGTT
1 ATTTTCAATTTCCGTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
105805723 GAGCC
66 GAGCC
105805728 TCAGGACACG
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (70 bp):
ATTTTCAATTTCCGTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCC
Found at i:105806408 original size:37 final size:37
Alignment explanation
Indices: 105806351--105806502 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
105806341 TATGATCAAT
*
105806351 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
105806386 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
105806423 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
105806468 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
105806503 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:105806486 original size:46 final size:46
Alignment explanation
Indices: 105806419--105806621 Score: 289
Period size: 46 Copynumber: 4.3 Consensus size: 46
105806409 TAAGTGTAGC
* * **
105806419 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
105806465 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
105806511 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
105806563 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
*
105806609 TACTTATCACTTT
1 CACTTATCACTTT
105806622 CCACTTGTCA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 99 0.69
49 2 0.01
52 43 0.30
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
Found at i:105806538 original size:52 final size:52
Alignment explanation
Indices: 105806462--105806641 Score: 264
Period size: 52 Copynumber: 3.6 Consensus size: 52
105806452 TAGCTAAAGC
* *
105806462 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
105806515 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
105806567 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
105806613 TATCACTTTCCACTTGTCACTTGATCAGA
1 TATCACTTTTCACTTGTCACTTGATCAGA
105806642 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
46 43 0.37
49 1 0.01
52 59 0.51
53 12 0.10
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:105806584 original size:98 final size:98
Alignment explanation
Indices: 105806419--105806641 Score: 374
Period size: 98 Copynumber: 2.3 Consensus size: 98
105806409 TAAGTGTAGC
* * * *
105806419 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACT
105806484 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
105806518 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
*
105806583 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
105806616 CACTTTCCACTTGTCACTTGATCAGA
1 CACTTTTCACTTGTCACTTGATCAGA
105806642 AGTACTCAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 108 0.92
99 9 0.08
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:105808673 original size:14 final size:14
Alignment explanation
Indices: 105808654--105808683 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
105808644 ATTACAGGTA
*
105808654 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
105808668 TTTTCAATTTATGT
1 TTTTCAATTTATGT
105808682 TT
1 TT
105808684 CAAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:105808742 original size:87 final size:87
Alignment explanation
Indices: 105808649--105809198 Score: 1039
Period size: 87 Copynumber: 6.3 Consensus size: 87
105808639 GGGCTATTAC
* * * * * *
105808649 AGGTATTTTCAATTTCTGTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105808714 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105808736 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105808801 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105808823 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105808888 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105808910 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105808975 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105808997 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105809062 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105809084 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
1 AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
105809149 AGTTGAGCCTCAGGTCATGCTG
66 AGTTGAGCCTCAGGTCATGCTG
105809171 AGGTATTTTCAATTTCTG-TTTTCAATTT
1 AGGTATTTTCAATTTCTGTTTTTCAATTT
105809199 ACGTTGTTCA
Statistics
Matches: 457, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
86 10 0.02
87 447 0.98
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (87 bp):
AGGTATTTTCAATTTCTGTTTTTCAATTTCTATCTAAAAAAAATGAACTCATATTGCAAGAGGTG
AGTTGAGCCTCAGGTCATGCTG
Found at i:105811952 original size:9 final size:9
Alignment explanation
Indices: 105811940--105811984 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
105811930 CGTATATTAA
105811940 TATTCTTAT
1 TATTCTTAT
105811949 TATTCTTAT
1 TATTCTTAT
105811958 TATTCTTAT
1 TATTCTTAT
* *
105811967 CATTATTAT
1 TATTCTTAT
*
105811976 TATTATTAT
1 TATTCTTAT
105811985 CATGTGTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (9 bp):
TATTCTTAT
Found at i:105811960 original size:3 final size:3
Alignment explanation
Indices: 105811934--105811984 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
105811924 TCATTACGTA
* * * * *
105811934 TAT TAA TAT TCT TAT TAT TCT TAT TAT TCT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
105811982 TAT
1 TAT
105811985 CATGTGTTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:105812124 original size:21 final size:21
Alignment explanation
Indices: 105812073--105812126 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
105812063 AATATGTATA
*
105812073 TATTATGTATATTTCTAATAC
1 TATTTTGTATATTTCTAATAC
* * *
105812094 TATATGGTATATTTCTAATAT
1 TATTTTGTATATTTCTAATAC
105812115 TATTTTGTATAT
1 TATTTTGTATAT
105812127 ATATATGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (21 bp):
TATTTTGTATATTTCTAATAC
Found at i:105812797 original size:28 final size:27
Alignment explanation
Indices: 105812740--105812843 Score: 70
Period size: 28 Copynumber: 3.8 Consensus size: 27
105812730 TTACATTATG
* *
105812740 TATGTATTTCTCAT-ATTATTAATTGTA
1 TATGTATTT-TTATGATTATTAATTGCA
*
105812767 TATGTATTTTTATGATGTATTAGTTGCA
1 TATGTATTTTTATGAT-TATTAATTGCA
* * * *
105812795 TATATTTTTTTATG-TTATCTTATGTACA
1 TATGTATTTTTATGATTAT-TAAT-TGCA
*
105812823 TAT-TATTTTATATTATTATTA
1 TATGTATTTT-TATGATTATTA
105812844 CTAAGTATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
26 6 0.10
27 19 0.32
28 31 0.52
29 4 0.07
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (27 bp):
TATGTATTTTTATGATTATTAATTGCA
Found at i:105813636 original size:32 final size:32
Alignment explanation
Indices: 105813600--105813664 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
105813590 TGTATGCATT
105813600 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
*
105813632 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGAATGATGGGCA
105813664 T
1 T
105813665 GATAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGAATGATGGGCA
Found at i:105815252 original size:26 final size:26
Alignment explanation
Indices: 105815223--105815275 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105815213 TTTACAGTTT
105815223 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105815249 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105815275 T
1 T
105815276 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105818369 original size:29 final size:30
Alignment explanation
Indices: 105818337--105818397 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
105818327 ATAATTCAAA
*
105818337 TAATTTGATTCG-ATTAACTCGAATTTT-TT
1 TAATTT-ATTCGAATTAAATCGAATTTTGTT
* *
105818366 TAATTTTTTTGAATTAAATCGAATTTTGTT
1 TAATTTATTCGAATTAAATCGAATTTTGTT
105818396 TA
1 TA
105818398 CCCCTAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.11
29 20 0.74
30 4 0.15
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.54
Consensus pattern (30 bp):
TAATTTATTCGAATTAAATCGAATTTTGTT
Found at i:105818826 original size:19 final size:19
Alignment explanation
Indices: 105818798--105818836 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
105818788 AATTATCAAG
*
105818798 TTTTTAAAAATTAGGTTTT
1 TTTTTAAAAATTAAGTTTT
*
105818817 TTTTTTAAAATTAAGTTTT
1 TTTTTAAAAATTAAGTTTT
105818836 T
1 T
105818837 AAAATTATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
TTTTTAAAAATTAAGTTTT
Found at i:105822980 original size:26 final size:26
Alignment explanation
Indices: 105822949--105823030 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
105822939 TGAAATACCC
*
105822949 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105822975 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105823001 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105823027 ATCA
1 ATCA
105823031 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105825274 original size:23 final size:20
Alignment explanation
Indices: 105825248--105825288 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
105825238 TTTTTAATAA
105825248 ATTTCTATTTTGTATAATTTTTT
1 ATTTC-ATTTT-TAT-ATTTTTT
105825271 ATTTCATTTTTATATTTT
1 ATTTCATTTTTATATTTT
105825289 AACTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 5 0.28
23 5 0.28
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (20 bp):
ATTTCATTTTTATATTTTTT
Found at i:105827242 original size:26 final size:26
Alignment explanation
Indices: 105827213--105827270 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
105827203 TGATACAAAT
105827213 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105827239 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105827265 TGATAA
1 TGATAA
105827271 GAATTTCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105830745 original size:4 final size:4
Alignment explanation
Indices: 105830731--105830766 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
105830721 AGTGTCTTTT
* *
105830731 TATA AATA TATA TATA TATA TATA TATA TATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA
105830767 AAAAGACACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TATA
Found at i:105830745 original size:6 final size:6
Alignment explanation
Indices: 105830731--105830766 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
105830721 AGTGTCTTTT
* *
105830731 TATAAA TATATA TATATA TATATA TATATA TTTATA
1 TATATA TATATA TATATA TATATA TATATA TATATA
105830767 AAAAGACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATA
Found at i:105832380 original size:7 final size:7
Alignment explanation
Indices: 105832366--105832407 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
105832356 AATTTTTATA
105832366 ATTT-TT
1 ATTTCTT
105832372 ATTTCTT
1 ATTTCTT
105832379 ATTTCTT
1 ATTTCTT
105832386 ATTTCTTT
1 ATTTC-TT
*
105832394 TTTTCTT
1 ATTTCTT
*
105832401 TTTTCTT
1 ATTTCTT
105832408 TTTTATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
6 4 0.12
7 23 0.70
8 6 0.18
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (7 bp):
ATTTCTT
Found at i:105832398 original size:22 final size:22
Alignment explanation
Indices: 105832368--105832417 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
105832358 TTTTTATAAT
*
105832368 TTTTATTTCTTATTTCTTATTTC
1 TTTT-TTTCTTATTTCTTATTTA
* *
105832391 TTTTTTTCTTTTTTCTTTTTTA
1 TTTTTTTCTTATTTCTTATTTA
105832413 TTTTT
1 TTTTT
105832418 AGGCTTAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTTTCTTATTTCTTATTTA
Found at i:105832400 original size:15 final size:15
Alignment explanation
Indices: 105832370--105832411 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
105832360 TTTATAATTT
*
105832370 TTATTTC-TTATTTC
1 TTATTTCTTTTTTTC
105832384 TTATTTCTTTTTTTC
1 TTATTTCTTTTTTTC
*
105832399 TTTTTTCTTTTTT
1 TTATTTCTTTTTT
105832412 ATTTTTAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTCTTTTTTTC
Found at i:105832408 original size:7 final size:7
Alignment explanation
Indices: 105832373--105832417 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
105832363 ATAATTTTTA
*
105832373 TTTCTTA
1 TTTCTTT
*
105832380 TTTCTTA
1 TTTCTTT
105832387 TTTCTTTT
1 TTTC-TTT
105832395 TTTCTTT
1 TTTCTTT
105832402 TTTCTTT
1 TTTCTTT
*
105832409 TTTATTT
1 TTTCTTT
105832416 TT
1 TT
105832418 AGGCTTAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:105833077 original size:10 final size:10
Alignment explanation
Indices: 105833064--105833104 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
105833054 TTTATTAAAA
105833064 TTTAATAACT
1 TTTAATAACT
105833074 TTT-ATAACT
1 TTTAATAACT
*
105833083 TTTAATAATT
1 TTTAATAACT
*
105833093 TTTTATAA-T
1 TTTAATAACT
105833102 TTT
1 TTT
105833105 TTTGCCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATAACT
Found at i:105833088 original size:19 final size:19
Alignment explanation
Indices: 105833064--105833104 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
105833054 TTTATTAAAA
105833064 TTTAATAA-CTTTTATAACT
1 TTTAATAATCTTTTATAA-T
*
105833083 TTTAATAATTTTTTATAAT
1 TTTAATAATCTTTTATAAT
105833102 TTT
1 TTT
105833105 TTTGCCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATAATCTTTTATAAT
Found at i:105833105 original size:9 final size:9
Alignment explanation
Indices: 105833037--105833105 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
105833027 TTCTGATACA
105833037 TTTATAATT
1 TTTATAATT
*
105833046 TTT-TATTT
1 TTTATAATT
*
105833054 TTTATTAAAAT
1 TTTA-T-AATT
* *
105833065 TTAATAACT
1 TTTATAATT
105833074 TTTATAACTT
1 TTTATAA-TT
*
105833084 TTAATAATTT
1 TTTATAA-TT
105833094 TTTATAATT
1 TTTATAATT
105833103 TTT
1 TTT
105833106 TTGCCACATG
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
8 7 0.15
9 17 0.37
10 17 0.37
11 5 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:105833105 original size:20 final size:20
Alignment explanation
Indices: 105833037--105833105 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
105833027 TTCTGATACA
105833037 TTTATAATTTTT--T-ATTT
1 TTTATAATTTTTAATAATTT
** *
105833054 TTTATTAAAATTTAATAA-CT
1 TTTA-TAATTTTTAATAATTT
*
105833074 TTTATAACTTTTAATAATTT
1 TTTATAATTTTTAATAATTT
105833094 TTTATAATTTTT
1 TTTATAATTTTT
105833106 TTGCCACATG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.10
18 6 0.15
19 11 0.28
20 18 0.45
21 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATAATTTTTAATAATTT
Found at i:105834305 original size:21 final size:20
Alignment explanation
Indices: 105834277--105834315 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
105834267 TTTAACATGA
*
105834277 ATTTATCCACCTCTAATTCC
1 ATTTATCCACCACTAATTCC
105834297 ATTTCATCCACCACTAATT
1 ATTT-ATCCACCACTAATT
105834316 TCCGTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.38
Consensus pattern (20 bp):
ATTTATCCACCACTAATTCC
Found at i:105834411 original size:36 final size:33
Alignment explanation
Indices: 105834357--105834542 Score: 134
Period size: 36 Copynumber: 5.9 Consensus size: 33
105834347 CCGCTCTAAT
** *
105834357 ATCAATTTATCCCCCTCTAATTGCTTTAATTGCA
1 ATCAA-TTATCCTGCTCTAATTGCTCTAATTGCA
105834391 ATTGCAATTCATCCTGCTCTAATTG--C-AATTGCA
1 A-T-CAATT-ATCCTGCTCTAATTGCTCTAATTGCA
105834424 AT---TTATCCTGCTCTAATTGCTCTAA-T---
1 ATCAATTATCCTGCTCTAATTGCTCTAATTGCA
*
105834450 ATCAATTTATCCCGCTCTAATTG--C-AATTGCA
1 ATCAA-TTATCCTGCTCTAATTGCTCTAATTGCA
* *
105834481 AT---TTATCCTGCTCTAATTTCTCTAACTGCA
1 ATCAATTATCCTGCTCTAATTGCTCTAATTGCA
105834511 ATTGCAATTTATCCTGCTCTAATTGCTCTAAT
1 A-T-CAA-TTATCCTGCTCTAATTGCTCTAAT
105834543 ATCAATTTCT
Statistics
Matches: 120, Mismatches: 9, Indels: 44
0.69 0.05 0.25
Matches are distributed among these distances:
26 2 0.02
27 32 0.27
28 4 0.03
29 3 0.03
30 25 0.21
31 3 0.03
32 1 0.01
33 8 0.07
34 1 0.01
35 3 0.03
36 38 0.32
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.41
Consensus pattern (33 bp):
ATCAATTATCCTGCTCTAATTGCTCTAATTGCA
Found at i:105834413 original size:27 final size:27
Alignment explanation
Indices: 105834378--105834498 Score: 172
Period size: 27 Copynumber: 4.4 Consensus size: 27
105834368 CCCCTCTAAT
* *
105834378 TGCTTTAATTGCAATTGCAATTCATCC
1 TGCTCTAATTGCAATTGCAATTTATCC
105834405 TGCTCTAATTGCAATTGCAATTTATCC
1 TGCTCTAATTGCAATTGCAATTTATCC
105834432 TGCTCTAATTGCTCTAATAT-CAATTTATCC
1 TGCTCTAATTG--C-AAT-TGCAATTTATCC
*
105834462 CGCTCTAATTGCAATTGCAATTTATCC
1 TGCTCTAATTGCAATTGCAATTTATCC
105834489 TGCTCTAATT
1 TGCTCTAATT
105834499 TCTCTAACTG
Statistics
Matches: 85, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
26 1 0.01
27 58 0.68
28 1 0.01
29 1 0.01
30 23 0.27
31 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TGCTCTAATTGCAATTGCAATTTATCC
Found at i:105834438 original size:63 final size:62
Alignment explanation
Indices: 105834359--105834579 Score: 258
Period size: 57 Copynumber: 3.5 Consensus size: 62
105834349 GCTCTAATAT
** * *
105834359 CAATTTATCCCCCTCTAATTGCTTTAATTGCAATTGCAATTCATCCTGCTCTAATTGCAATTG
1 CAATTTATCCTGCTCTAATTGCTCTAA-TGCAATTGCAATTTATCCTGCTCTAATTGCAATTG
*
105834422 CAATTTATCCTGCTCTAATTGCTCTAAT---A-T-CAATTTATCCCGCTCTAATTGCAATTG
1 CAATTTATCCTGCTCTAATTGCTCTAATGCAATTGCAATTTATCCTGCTCTAATTGCAATTG
*
105834479 CAATTTATCCTGCTCTAATTTCTCTAACTGCAATTGCAATTTATCCTGCTCTAATTGCTCTAATA
1 CAATTTATCCTGCTCTAATTGCTCTAA-TGCAATTGCAATTTATCCTGCTCTAATTG--C-AAT-
105834544 T-
61 TG
*
105834545 CAATTTCTTCC-GCTCTAATTGCTCTAATGTCAATT
1 CAATTT-ATCCTGCTCTAATTGCTCTAATG-CAATT
105834580 TAGCCAGCTC
Statistics
Matches: 137, Mismatches: 9, Indels: 21
0.82 0.05 0.13
Matches are distributed among these distances:
57 51 0.37
58 2 0.01
59 1 0.01
61 1 0.01
62 2 0.01
63 44 0.32
65 3 0.02
66 29 0.21
67 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (62 bp):
CAATTTATCCTGCTCTAATTGCTCTAATGCAATTGCAATTTATCCTGCTCTAATTGCAATTG
Found at i:105834452 original size:93 final size:92
Alignment explanation
Indices: 105834349--105834572 Score: 278
Period size: 93 Copynumber: 2.4 Consensus size: 92
105834339 CATAAATCCC
*
105834349 GCTCTAATATCAATTTATCCCCCTCTAATTGCTTTAATTGCAATTGCAAT-T-CATC-CTGCTCT
1 GCTCTAATATCAATTTATCCCGCTCTAATTGC-TTAATTGCAATT--AATCTGC-TCACTGCTCT
*
105834411 AATTGCAATTGCAATTTATCCTGCTCTAATT
62 AACTGCAATTGCAATTTATCCTGCTCTAATT
* * *
105834442 GCTCTAATATCAATTTATCCCGCTCTAATTGC--AATTGCAATTTATCCTGCTCTAATTTCTCTA
1 GCTCTAATATCAATTTATCCCGCTCTAATTGCTTAATTGCAATTAAT-CTGCTC--ACTGCTCTA
105834505 ACTGCAATTGCAATTTATCCTGCTCTAATT
63 ACTGCAATTGCAATTTATCCTGCTCTAATT
* *
105834535 GCTCTAATATCAATTTCTTCCGCTCTAATTGCTCTAAT
1 GCTCTAATATCAATTTATCCCGCTCTAATTGCT-TAAT
105834573 GTCAATTTAG
Statistics
Matches: 115, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
88 2 0.02
90 13 0.11
91 1 0.01
93 96 0.83
96 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.41
Consensus pattern (92 bp):
GCTCTAATATCAATTTATCCCGCTCTAATTGCTTAATTGCAATTAATCTGCTCACTGCTCTAACT
GCAATTGCAATTTATCCTGCTCTAATT
Found at i:105834456 original size:57 final size:57
Alignment explanation
Indices: 105834395--105834600 Score: 218
Period size: 57 Copynumber: 3.5 Consensus size: 57
105834385 ATTGCAATTG
*
105834395 CAATTCATCCTGCTCTAATTGCAATTGCAATTTATCCTGCTCTAATTGCTCTAATAT
1 CAATTTATCCTGCTCTAATTGCAATTGCAATTTATCCTGCTCTAATTGCTCTAATAT
* *
105834452 CAATTTATCCCGCTCTAATTGCAATTGCAATTTATCCTGCTCTAATTTCTCTAACTGCAATT
1 CAATTTATCCTGCTCTAATTGCAATTGCAATTTATCCTGCTCTAATTGCTCTAA-T---A-T
* *
105834514 GCAATTTATCCTGCTCTAATTGCTCTAATAT-CAATTTCTTCC-GCTCTAATTGCTCTAATGT
1 -CAATTTATCCTGCTCTAATTG--C-AAT-TGCAATTT-ATCCTGCTCTAATTGCTCTAATAT
* * * *
105834575 CAATTTAGCCAGCTCTGATTGTAATT
1 CAATTTATCCTGCTCTAATTGCAATT
105834601 TATCATACTC
Statistics
Matches: 127, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
56 1 0.01
57 54 0.43
58 1 0.01
60 18 0.14
61 2 0.02
62 1 0.01
63 20 0.16
65 2 0.02
66 24 0.19
67 4 0.03
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (57 bp):
CAATTTATCCTGCTCTAATTGCAATTGCAATTTATCCTGCTCTAATTGCTCTAATAT
Found at i:105834458 original size:30 final size:31
Alignment explanation
Indices: 105834393--105834595 Score: 196
Period size: 30 Copynumber: 6.7 Consensus size: 31
105834383 TAATTGCAAT
*
105834393 TGCAATTCATCCTGCTCTAATTG--C-AAT-
1 TGCAATTTATCCTGCTCTAATTGCTCTAATA
105834420 TGCAATTTATCCTGCTCTAATTGCTCTAATA
1 TGCAATTTATCCTGCTCTAATTGCTCTAATA
*
105834451 T-CAATTTATCCCGCTCTAATTG--C-AAT-
1 TGCAATTTATCCTGCTCTAATTGCTCTAATA
*
105834477 TGCAATTTATCCTGCTCTAATTTCTCTAACTGCAA
1 TGCAATTTATCCTGCTCTAATTGCTCTAA-T---A
105834512 TTGCAATTTATCCTGCTCTAATTGCTCTAATA
1 -TGCAATTTATCCTGCTCTAATTGCTCTAATA
* *
105834544 T-CAATTTCTTCC-GCTCTAATTGCTCTAATG
1 TGCAATTT-ATCCTGCTCTAATTGCTCTAATA
* * *
105834574 T-CAATTTAGCCAGCTCTGATTG
1 TGCAATTTATCCTGCTCTAATTG
105834596 TAATTTATCA
Statistics
Matches: 150, Mismatches: 10, Indels: 29
0.79 0.05 0.15
Matches are distributed among these distances:
26 1 0.01
27 44 0.29
28 1 0.01
29 4 0.03
30 64 0.43
31 6 0.04
32 1 0.01
35 1 0.01
36 28 0.19
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (31 bp):
TGCAATTTATCCTGCTCTAATTGCTCTAATA
Found at i:105834534 original size:21 final size:21
Alignment explanation
Indices: 105834474--105834536 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
105834464 CTCTAATTGC
105834474 AATTGCAATTTATCCTGCTCT
1 AATTGCAATTTATCCTGCTCT
* * *
105834495 AATTTC--TCTA-ACTG--C-
1 AATTGCAATTTATCCTGCTCT
105834510 AATTGCAATTTATCCTGCTCT
1 AATTGCAATTTATCCTGCTCT
105834531 AATTGC
1 AATTGC
105834537 TCTAATATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 12
0.62 0.12 0.25
Matches are distributed among these distances:
15 5 0.17
16 1 0.03
17 3 0.10
18 6 0.20
19 3 0.10
20 1 0.03
21 11 0.37
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (21 bp):
AATTGCAATTTATCCTGCTCT
Found at i:105834549 original size:36 final size:35
Alignment explanation
Indices: 105834463--105834579 Score: 129
Period size: 36 Copynumber: 3.4 Consensus size: 35
105834453 AATTTATCCC
105834463 GCTCTAATTGCAATTGCAATTTATCCTGCTCTAATT
1 GCTCTAATT-CAATTGCAATTTATCCTGCTCTAATT
* *
105834499 TCTCTAACTGCAATTGCAATTTATCCTGCTCTAATT
1 GCTCTAA-TTCAATTGCAATTTATCCTGCTCTAATT
*
105834535 GCTCTAA-T--A-T-CAATTTCTTCC-GCTCTAATT
1 GCTCTAATTCAATTGCAATTT-ATCCTGCTCTAATT
105834565 GCTCTAATGTCAATT
1 GCTCTAAT-TCAATT
105834580 TAGCCAGCTC
Statistics
Matches: 69, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
30 22 0.32
31 4 0.06
32 2 0.03
34 1 0.01
35 1 0.01
36 38 0.55
37 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (35 bp):
GCTCTAATTCAATTGCAATTTATCCTGCTCTAATT
Found at i:105838842 original size:19 final size:21
Alignment explanation
Indices: 105838796--105838843 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
105838786 ATTGTATACT
*
105838796 TGAAATAAAAATCCATAAAATC
1 TGAAA-AAAAATCCATAAAATA
*
105838818 TTAAAAAAAAT-C-TAAAATA
1 TGAAAAAAAATCCATAAAATA
105838837 TGAAAAA
1 TGAAAAA
105838844 TTTAAAAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 6 0.26
22 4 0.17
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.23
Consensus pattern (21 bp):
TGAAAAAAAATCCATAAAATA
Found at i:105839517 original size:25 final size:25
Alignment explanation
Indices: 105839478--105839536 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
105839468 AACTTAGTCC
105839478 ATTTATTTA-TATTTTTAAGAATTTAA
1 ATTT-TTTATTATTTTTAA-AATTTAA
* * *
105839504 GTTTTTTATTTTTTTTCAAATTTAA
1 ATTTTTTATTATTTTTAAAATTTAA
105839529 ATTTTTTA
1 ATTTTTTA
105839537 ATATAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
ATTTTTTATTATTTTTAAAATTTAA
Found at i:105839685 original size:19 final size:20
Alignment explanation
Indices: 105839663--105839702 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
105839653 ATCCAAAATT
105839663 TTAAATT-TACAA-AAAAAAA
1 TTAAATTCTA-AATAAAAAAA
105839682 TTAAATTCTAAATAAAAAAA
1 TTAAATTCTAAATAAAAAAA
105839702 T
1 T
105839703 ACAAAAACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAAATTCTAAATAAAAAAA
Found at i:105843129 original size:20 final size:20
Alignment explanation
Indices: 105843099--105843145 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
105843089 TAAAAATGAT
*
105843099 TAAAAAT-TTTAAATTTTAA
1 TAAAAATATTTAAAATTTAA
105843118 TAAAAATATTTAAAATTTAA
1 TAAAAATATTTAAAATTTAA
105843138 TAAAAATA
1 TAAAAATA
105843146 GGAAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAATATTTAAAATTTAA
Found at i:105843152 original size:20 final size:20
Alignment explanation
Indices: 105843113--105843152 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
105843103 AATTTTAAAT
***
105843113 TTTAATAAAAATATTTAAAA
1 TTTAATAAAAATAGGAAAAA
105843133 TTTAATAAAAATAGGAAAAA
1 TTTAATAAAAATAGGAAAAA
105843153 ATTATAAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
TTTAATAAAAATAGGAAAAA
Found at i:105843421 original size:29 final size:27
Alignment explanation
Indices: 105843389--105843461 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
105843379 TTTTGATGCA
105843389 TTTTATAATTTTTATAAAATTTTATA-TATT
1 TTTTAT-ATTTTTATAAAA-TTTA-ACTA-T
*
105843419 TTTTATGTTTTTATTAAAATTTAACTAT
1 TTTTATATTTTTA-TAAAATTTAACTAT
105843447 TTTTAT-TTTTTATAA
1 TTTTATATTTTTATAA
105843462 TTTTTTTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.08
27 6 0.15
28 8 0.20
29 12 0.30
30 11 0.28
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTATATTTTTATAAAATTTAACTAT
Found at i:105848325 original size:34 final size:34
Alignment explanation
Indices: 105848282--105848349 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
105848272 GCAGATTGAT
105848282 GAAGAGCTTGTATGGTTTGAAGCAAGCTCCAAGG
1 GAAGAGCTTGTATGGTTTGAAGCAAGCTCCAAGG
105848316 GAAGAGCTTGTATGGTTTGAAGCAAGCTCCAAGG
1 GAAGAGCTTGTATGGTTTGAAGCAAGCTCCAAGG
105848350 CAATGGTACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (34 bp):
GAAGAGCTTGTATGGTTTGAAGCAAGCTCCAAGG
Found at i:105850236 original size:50 final size:50
Alignment explanation
Indices: 105850161--105850261 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
105850151 TTGTTCGGTT
105850161 TCTTCCCAACAATATATTCATACATTCAGTTAGTTTTATGCATATATTAA
1 TCTTCCCAACAATATATTCATACATTCAGTTAGTTTTATGCATATATTAA
105850211 TCTTCCCAACAATATATTCATACATTCAGTTAGTTTTATGCATATATTAA
1 TCTTCCCAACAATATATTCATACATTCAGTTAGTTTTATGCATATATTAA
105850261 T
1 T
105850262 TATTTTACAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.43
Consensus pattern (50 bp):
TCTTCCCAACAATATATTCATACATTCAGTTAGTTTTATGCATATATTAA
Found at i:105852522 original size:85 final size:85
Alignment explanation
Indices: 105852415--105852638 Score: 448
Period size: 85 Copynumber: 2.6 Consensus size: 85
105852405 CAACGCAGGC
105852415 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTTCTGGACTTTTT
1 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTTCTGGACTTTTT
105852480 TTGCAGTCTTTATCCATTCT
66 TTGCAGTCTTTATCCATTCT
105852500 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTTCTGGACTTTTT
1 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTTCTGGACTTTTT
105852565 TTGCAGTCTTTATCCATTCT
66 TTGCAGTCTTTATCCATTCT
105852585 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTT
1 CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTT
105852639 TTGGGGAAAT
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 139 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (85 bp):
CTATTAAAGAAATGCAAATAAGGTGACTTTGGGGAAATTTCAATGTCTTAATTTCTGGACTTTTT
TTGCAGTCTTTATCCATTCT
Found at i:105853938 original size:95 final size:95
Alignment explanation
Indices: 105853775--105853979 Score: 410
Period size: 95 Copynumber: 2.2 Consensus size: 95
105853765 AGTAGGTTGA
105853775 GATATTATTTAATTTGCAGGCAGGTAATTTGTAGGAAGCAAAAAGAAAGTCAAAATAGGAACATC
1 GATATTATTTAATTTGCAGGCAGGTAATTTGTAGGAAGCAAAAAGAAAGTCAAAATAGGAACATC
105853840 GAGTATTCCGCGTGAGTGATCAATGAAGTT
66 GAGTATTCCGCGTGAGTGATCAATGAAGTT
105853870 GATATTATTTAATTTGCAGGCAGGTAATTTGTAGGAAGCAAAAAGAAAGTCAAAATAGGAACATC
1 GATATTATTTAATTTGCAGGCAGGTAATTTGTAGGAAGCAAAAAGAAAGTCAAAATAGGAACATC
105853935 GAGTATTCCGCGTGAGTGATCAATGAAGTT
66 GAGTATTCCGCGTGAGTGATCAATGAAGTT
105853965 GATATTATTTAATTT
1 GATATTATTTAATTT
105853980 CCTACTGCTT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 110 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (95 bp):
GATATTATTTAATTTGCAGGCAGGTAATTTGTAGGAAGCAAAAAGAAAGTCAAAATAGGAACATC
GAGTATTCCGCGTGAGTGATCAATGAAGTT
Found at i:105854489 original size:20 final size:20
Alignment explanation
Indices: 105854464--105854513 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
105854454 TGGCTTAAAA
105854464 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
105854484 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
105854501 GTGGTAGTGGATT
1 TTGGTAGTGGATT
105854514 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:105857455 original size:21 final size:21
Alignment explanation
Indices: 105857429--105857469 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105857419 AGACGAGCAA
* *
105857429 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
105857450 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
105857470 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:105860855 original size:24 final size:24
Alignment explanation
Indices: 105860828--105860878 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
105860818 AAAAACTTGC
*
105860828 AAAAATAT-TAAAATTAAAAAAATA
1 AAAAATATAT-AAATTAAAAAAAGA
* *
105860852 AAAATTATATAAATTGAAAAAAGA
1 AAAAATATATAAATTAAAAAAAGA
105860876 AAA
1 AAA
105860879 TATTGTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAAATATATAAATTAAAAAAAGA
Found at i:105860890 original size:19 final size:18
Alignment explanation
Indices: 105860868--105860920 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
105860858 ATATAAATTG
105860868 AAAAAAGAAAATATTGTAA
1 AAAAAAGAAAATATT-TAA
*
105860887 AAAATATGAAAAATATTTAA
1 AAAA-AAG-AAAATATTTAA
*
105860907 AAATATAGAAAATA
1 AAA-AAAGAAAATA
105860921 ATAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 10 0.36
20 9 0.32
21 9 0.32
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
AAAAAAGAAAATATTTAA
Found at i:105860901 original size:21 final size:20
Alignment explanation
Indices: 105860875--105860918 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 20
105860865 TTGAAAAAAG
105860875 AAAATATTGTAAAAA-ATATGA
1 AAAATATT-TAAAAATATA-GA
105860896 AAAATATTTAAAAATATAGA
1 AAAATATTTAAAAATATAGA
105860916 AAA
1 AAA
105860919 TAATAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (20 bp):
AAAATATTTAAAAATATAGA
Found at i:105860979 original size:9 final size:9
Alignment explanation
Indices: 105860828--105860983 Score: 71
Period size: 9 Copynumber: 17.6 Consensus size: 9
105860818 AAAAACTTGC
105860828 AAAAA-TAT
1 AAAAATTAT
*
105860836 TAAAATTA-
1 AAAAATTAT
105860844 AAAAA--AT
1 AAAAATTAT
105860851 AAAAATTAT
1 AAAAATTAT
*
105860860 ATAAATTGA-
1 AAAAATT-AT
*
105860869 AAAAA-GA-
1 AAAAATTAT
* *
105860876 AAATATTGT
1 AAAAATTAT
*
105860885 AAAAAATAT
1 AAAAATTAT
*
105860894 GAAAAATATTT
1 -AAAAAT-TAT
105860905 AAAAA-TAT
1 AAAAATTAT
105860913 AGAAAA-TA-
1 A-AAAATTAT
* *
105860921 ATAAATTTT
1 AAAAATTAT
105860930 AATAAATTAAT
1 AA-AAATT-AT
*
105860941 AAAAATTAC
1 AAAAATTAT
105860950 AAAATATTAT
1 AAAA-ATTAT
*
105860960 AAAAAAGTAT
1 -AAAAATTAT
105860970 AAAAATTAT
1 AAAAATTAT
105860979 AAAAA
1 AAAAA
105860984 AATTTAAAAT
Statistics
Matches: 110, Mismatches: 22, Indels: 31
0.67 0.13 0.19
Matches are distributed among these distances:
6 1 0.01
7 13 0.12
8 13 0.12
9 45 0.41
10 29 0.26
11 9 0.08
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:105860984 original size:10 final size:10
Alignment explanation
Indices: 105860918--105860984 Score: 57
Period size: 10 Copynumber: 6.8 Consensus size: 10
105860908 AATATAGAAA
*
105860918 ATAATAAATT
1 ATAAAAAATT
* *
105860928 TTAATAAATT
1 ATAAAAAATT
105860938 A-ATAAAAATT
1 ATA-AAAAATT
* *
105860948 ACAAAATATT
1 ATAAAAAATT
*
105860958 ATAAAAAAGT
1 ATAAAAAATT
105860968 AT-AAAAATT
1 ATAAAAAATT
105860977 ATAAAAAA
1 ATAAAAAA
105860985 ATTTAAAATA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 9 0.20
10 36 0.78
11 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:105860991 original size:19 final size:19
Alignment explanation
Indices: 105860927--105860992 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
105860917 AATAATAAAT
*
105860927 TTTAATAAATTA-ATAAAAA
1 TTTAA-AAATTATAAAAAAA
* *
105860946 TTACAAAATATTATAAAAAAG
1 TT-TAAAA-ATTATAAAAAAA
*
105860967 TATAAAAATTATAAAAAAA
1 TTTAAAAATTATAAAAAAA
105860986 TTTAAAA
1 TTTAAAA
105860993 TATAAGACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 21 0.57
20 10 0.27
21 6 0.16
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TTTAAAAATTATAAAAAAA
Found at i:105866705 original size:21 final size:21
Alignment explanation
Indices: 105866679--105866719 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
105866669 ATCTGCTCAA
* *
105866679 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
105866700 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
105866720 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:105875072 original size:31 final size:29
Alignment explanation
Indices: 105875044--105875106 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
105875034 GGCAAAGCAT
* *
105875044 GCTAACATGGACGCGCTTTAGTAAAAAGC
1 GCTAACATAGACGCACTTTAGTAAAAAGC
* * *
105875073 GCTGACGTAGACGCACTTTAGTAAAAAGT
1 GCTAACATAGACGCACTTTAGTAAAAAGC
105875102 GCTAA
1 GCTAA
105875107 GGGGGACGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (29 bp):
GCTAACATAGACGCACTTTAGTAAAAAGC
Found at i:105875114 original size:29 final size:29
Alignment explanation
Indices: 105875052--105875120 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
105875042 ATGCTAACAT
* *
105875052 GGACGCGCTTTAGTAAAAAGCGCTGACGT
1 GGACGCGCTTTAGTAAAAAGCGCTAACGG
* * * *
105875081 AGACGCACTTTAGTAAAAAGTGCTAAGGG
1 GGACGCGCTTTAGTAAAAAGCGCTAACGG
105875110 GGACGCGCTTT
1 GGACGCGCTTT
105875121 TCCCTGTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (29 bp):
GGACGCGCTTTAGTAAAAAGCGCTAACGG
Found at i:105877443 original size:39 final size:40
Alignment explanation
Indices: 105877389--105877467 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
105877379 TATCTTTAAC
105877389 CATTTCCCTTATCTGTAATTTTTATGTAAGCAT-AATTTT
1 CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
*
105877428 CATTTCCCTTATCTGTAATTTTTGTGTAAGCATGAATTTT
1 CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
105877468 ATCTAAACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (40 bp):
CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
Found at i:105881483 original size:17 final size:18
Alignment explanation
Indices: 105881453--105881498 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
105881443 ATTTAAATTG
105881453 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
105881471 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
105881487 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
105881499 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:105883446 original size:101 final size:101
Alignment explanation
Indices: 105883271--105883467 Score: 385
Period size: 101 Copynumber: 2.0 Consensus size: 101
105883261 CTTCGATCGA
*
105883271 TAACTCGGTTCTTAATATGTATTCAAAATGTGGTGACATTGTGTCGGCTCGACGAGTTTTCGAAA
1 TAACTCAGTTCTTAATATGTATTCAAAATGTGGTGACATTGTGTCGGCTCGACGAGTTTTCGAAA
105883336 TGGTAGACGAGAAATGTATTTTCTTGTGGACTAAAG
66 TGGTAGACGAGAAATGTATTTTCTTGTGGACTAAAG
105883372 TAACTCAGTTCTTAATATGTATTCAAAATGTGGTGACATTGTGTCGGCTCGACGAGTTTTCGAAA
1 TAACTCAGTTCTTAATATGTATTCAAAATGTGGTGACATTGTGTCGGCTCGACGAGTTTTCGAAA
105883437 TGGTAGACGAGAAATGTATTTTCTTGTGGAC
66 TGGTAGACGAGAAATGTATTTTCTTGTGGAC
105883468 ATCGATGATT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (101 bp):
TAACTCAGTTCTTAATATGTATTCAAAATGTGGTGACATTGTGTCGGCTCGACGAGTTTTCGAAA
TGGTAGACGAGAAATGTATTTTCTTGTGGACTAAAG
Found at i:105894426 original size:25 final size:26
Alignment explanation
Indices: 105894374--105894426 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
105894364 TTTAAAATAT
* * * *
105894374 TTTTAAAATAATTTTTTTATTTTTTA
1 TTTTAAAATAATATTTTTAGTGTCTA
105894400 TTTTAAAATAA-ATTTTTAGTGTCTA
1 TTTTAAAATAATATTTTTAGTGTCTA
105894425 TT
1 TT
105894427 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTAAAATAATATTTTTAGTGTCTA
Found at i:105899245 original size:58 final size:58
Alignment explanation
Indices: 105899175--105899293 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
105899165 AATGAAAAGT
* * *
105899175 GAAATCAGCAAATAAATCTTGACCCACTATCTAACGAGATAAGAGCCAAAGGTATAGC
1 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
*
105899233 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAGGAACCAAAGGTATAGC
1 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
105899291 GAA
1 GAA
105899294 CGCCACACTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.18
Consensus pattern (58 bp):
GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
Found at i:105905368 original size:20 final size:21
Alignment explanation
Indices: 105905332--105905386 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
105905322 AAATTATAAT
105905332 CATTATAAAAATATACAAAAA
1 CATTATAAAAATATACAAAAA
*
105905353 CATTTTAAAAAT-TACAAAAA
1 CATTATAAAAATATACAAAAA
*
105905373 -ATTATTGAAAATAT
1 CATTA-TAAAAATAT
105905387 GGAAAAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.48
21 12 0.41
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (21 bp):
CATTATAAAAATATACAAAAA
Found at i:105905472 original size:25 final size:24
Alignment explanation
Indices: 105905423--105905490 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
105905413 TATTATAAAT
* *
105905423 AAAA-ATAAAATT-AAAAACTTGA
1 AAAATATAAAATTAAAAAAATTAA
105905445 AAAATATTAAAATTAAAAAAATTAA
1 AAAATA-TAAAATTAAAAAAATTAA
* *
105905470 AAATTATATAAATTACAAAAA
1 AAAATATA-AAATTAAAAAAA
105905491 GAAAATATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 9 0.24
25 24 0.63
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (24 bp):
AAAATATAAAATTAAAAAAATTAA
Found at i:105905473 original size:16 final size:16
Alignment explanation
Indices: 105905429--105905489 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
105905419 AAATAAAAAT
105905429 AAAATTAAAAACTTGAAA
1 AAAATTAAAAA-TT-AAA
*
105905447 AATATT-AAAATTAAA
1 AAAATTAAAAATTAAA
*
105905462 AAAATTAAAAATTATA
1 AAAATTAAAAATTAAA
*
105905478 TAAATTACAAAA
1 AAAATTA-AAAA
105905490 AGAAAATATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 8 0.22
16 16 0.43
17 8 0.22
18 5 0.14
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATTAAAAATTAAA
Found at i:105905518 original size:21 final size:20
Alignment explanation
Indices: 105905492--105905535 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
105905482 TTACAAAAAG
105905492 AAAATATTGTAAAAAATATGA
1 AAAATATTGTAAAAAATA-GA
* *
105905513 AAAATATTTTAAAATATAGA
1 AAAATATTGTAAAAAATAGA
105905533 AAA
1 AAA
105905536 TAATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTGTAAAAAATAGA
Found at i:105905577 original size:20 final size:22
Alignment explanation
Indices: 105905554--105905599 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
105905544 TTTAATAAAT
105905554 TAAAAAAA-TACAAAA-TATTA
1 TAAAAAAAGTACAAAATTATTA
*
105905574 TAAAAAAAGTATAAAATTATTA
1 TAAAAAAAGTACAAAATTATTA
105905596 -AAAA
1 TAAAA
105905600 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 10 0.43
22 5 0.22
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAAAAAGTACAAAATTATTA
Found at i:105929531 original size:6 final size:6
Alignment explanation
Indices: 105929520--105929593 Score: 148
Period size: 6 Copynumber: 12.3 Consensus size: 6
105929510 TGTTAATACC
105929520 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
105929568 TGTATA TGTATA TGTATA TGTATA TG
1 TGTATA TGTATA TGTATA TGTATA TG
105929594 CATGTGACCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:105934169 original size:24 final size:24
Alignment explanation
Indices: 105934142--105934189 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
105934132 AGCTTTGATG
105934142 TGGCAAAGATCGGGAAATCT-TGTT
1 TGGCAAAGATCGGG-AATCTCTGTT
105934166 TGGCAAAGATCGGGAATCTCTGTT
1 TGGCAAAGATCGGGAATCTCTGTT
105934190 AATAACAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (24 bp):
TGGCAAAGATCGGGAATCTCTGTT
Found at i:105936097 original size:4 final size:4
Alignment explanation
Indices: 105936088--105936142 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
105936078 CTAAAAATTT
* * * * *
105936088 TGTG TGTG TGTG TGTG CGTG TGTG TGCG TGTG TGTG CGTG CGTG CGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
*
105936136 CGTG TGT
1 TGTG TGT
105936143 TCATATTGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.00, C:0.11, G:0.49, T:0.40
Consensus pattern (4 bp):
TGTG
Found at i:105936101 original size:10 final size:10
Alignment explanation
Indices: 105936088--105936142 Score: 74
Period size: 10 Copynumber: 5.3 Consensus size: 10
105936078 CTAAAAATTT
*
105936088 TGTGTGTGTG
1 TGTGTGCGTG
105936098 TGTGTGCGTG
1 TGTGTGCGTG
105936108 TGTGTGCGTG
1 TGTGTGCGTG
105936118 TGTGTGCGTGCG
1 TGTGTGCGT--G
*
105936130 TGCGTGCGTG
1 TGTGTGCGTG
105936140 TGT
1 TGT
105936143 TCATATTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
10 31 0.77
12 9 0.22
ACGTcount: A:0.00, C:0.11, G:0.49, T:0.40
Consensus pattern (10 bp):
TGTGTGCGTG
Found at i:105940218 original size:9 final size:9
Alignment explanation
Indices: 105940189--105940233 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
105940179 TTAAGTTATA
105940189 TATAAATAT
1 TATAAATAT
**
105940198 TATATGTA-
1 TATAAATAT
105940206 TATAAATAT
1 TATAAATAT
105940215 TATAAATAT
1 TATAAATAT
*
105940224 TATAATTAT
1 TATAAATAT
105940233 T
1 T
105940234 TATTCAAATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (9 bp):
TATAAATAT
Found at i:105941700 original size:51 final size:51
Alignment explanation
Indices: 105941622--105941725 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
105941612 TATGTGCTGA
* * *
105941622 TTACTGTTATTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTG
1 TTACTGTTATCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
105941673 TTACTGTTATCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGTTATCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
105941724 TT
1 TT
105941726 CCGTTATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (51 bp):
TTACTGTTATCGTTACCGATTCAGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:105944596 original size:236 final size:236
Alignment explanation
Indices: 105944172--105944801 Score: 1010
Period size: 236 Copynumber: 2.7 Consensus size: 236
105944162 CCATCATCTA
* *
105944172 TGTCTAAAACTGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCTATACTCA
1 TGTCGAAAACTGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCATACTCA
*
105944237 TTAGTTACTTCGATTTCAACTAATGGCTCTGAACTGAGTTCTACTTGAACCTGAAATATACATAA
66 TTAGTTACTTCGGTTTCAACTAATGGCTCTGAACTGAGTTCTACTTGAACCTGAAATATACATAA
* *
105944302 AACATAAACTCAATGTGTAGTATTTTAAAAATTTTCGAGAAAAGTGTTCTTACTTGTGACTGGTG
131 AACATAAACTCGATGTGTAGTATTTTAAAAATTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
* * *
105944367 ATTGGAGATCACTTCATTCCAATCATCAATAAAGTTTTCGT
196 ATGGGAGATCACTTCATTCCAATCATCAATAAAGTTCTCAT
* *
105944408 TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCAACCCATACTCA
1 TGTCGAAAACTGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCATACTCA
*
105944473 TTAGTTACTTCGGTTTCAACTAATGACTCTGAACTGAGTTCTACTTGAACCTGAAATATACATAA
66 TTAGTTACTTCGGTTTCAACTAATGGCTCTGAACTGAGTTCTACTTGAACCTGAAATATACATAA
105944538 AACATAAACTCGATGTGTAGTATTTTAAAAATTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
131 AACATAAACTCGATGTGTAGTATTTTAAAAATTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
**
105944603 ATGGGAGATCACTTCATTCCCGTCATCAATAAAGTTCTCAT
196 ATGGGAGATCACTTCATTCCAATCATCAATAAAGTTCTCAT
* * * * *
105944644 TGTTGAAAACTGGATAGGGTGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACTCGTACTCA
1 TGTCGAAAACTGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCATACTCA
* * ** * * *
105944709 TTAGTTACTTCAGTTTCAACTAATGGCTC-CAGACCAAGTTCTGCTCGAACCTGAAATATACATT
66 TTAGTTACTTCGGTTTCAACTAATGGCTCTGA-ACTGAGTTCTACTTGAACCTGAAATATACATA
*
105944773 AAACGTAAACTCGATGTGTAGTATTTTAA
130 AAACATAAACTCGATGTGTAGTATTTTAA
105944802 TTAGTCACCA
Statistics
Matches: 364, Mismatches: 29, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
235 1 0.00
236 363 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (236 bp):
TGTCGAAAACTGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCATACTCA
TTAGTTACTTCGGTTTCAACTAATGGCTCTGAACTGAGTTCTACTTGAACCTGAAATATACATAA
AACATAAACTCGATGTGTAGTATTTTAAAAATTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
ATGGGAGATCACTTCATTCCAATCATCAATAAAGTTCTCAT
Found at i:105946368 original size:18 final size:18
Alignment explanation
Indices: 105946345--105946380 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
105946335 GATTGTCTTA
105946345 TATAAAA-AATATAAATAT
1 TATAAAATAAT-TAAATAT
105946363 TATAAAATAATTAAATAT
1 TATAAAATAATTAAATAT
105946381 AATATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAAATAATTAAATAT
Found at i:105951030 original size:13 final size:12
Alignment explanation
Indices: 105950971--105951041 Score: 55
Period size: 10 Copynumber: 6.2 Consensus size: 12
105950961 TAATATCAAA
105950971 ATATAAAA-AAT
1 ATATAAAATAAT
105950982 ATA-AAAAT-AT
1 ATATAAAATAAT
*
105950992 AT-TATAATAAT
1 ATATAAAATAAT
*
105951003 ATAGTATAAATATT
1 ATA-TA-AAATAAT
105951017 ATATAAAATAAT
1 ATATAAAATAAT
*
105951029 -TA-AATATAAT
1 ATATAAAATAAT
105951039 ATA
1 ATA
105951042 ATTAGTGGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
10 19 0.40
11 11 0.23
12 6 0.12
13 4 0.08
14 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (12 bp):
ATATAAAATAAT
Found at i:105952598 original size:51 final size:52
Alignment explanation
Indices: 105952522--105952635 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
105952512 GAATACTCGA
* *
105952522 TGGCCTGCACATAGTACCACCCTTGT-AGCCAAAGCTA-CCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCCTTCTTCACAAAG
** * *
105952573 TGGCCTTCACATAGTACTGCACTTGTGACCAAAGTTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAAG
105952625 -GAGCCTTCACA
1 TG-GCCTTCACA
105952636 AAGCGCCCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
51 31 0.57
52 23 0.43
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (52 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCCTTCTTCACAAAG
Found at i:105952647 original size:66 final size:66
Alignment explanation
Indices: 105952563--105952701 Score: 190
Period size: 66 Copynumber: 2.1 Consensus size: 66
105952553 AAGCTACCTT
* * ** * *
105952563 CTTCACAAAGTGGCCTTCACATAGTACTGCACTTGTGACCAAAGTTATCTTTCTTCACAAAG-GA
1 CTTCACAAAGCGCCCTTCACATAGTACCACAATTGTGACCAAAGCTATCTTTCTTCACAAAGTG-
105952627 GC
65 GC
* *
105952629 CTTCACAAAGCGCCCTTCACTTAGTACCACAATTGTGACCAAAGCTATCTTTCTTTACAAAGTGG
1 CTTCACAAAGCGCCCTTCACATAGTACCACAATTGTGACCAAAGCTATCTTTCTTCACAAAGTGG
105952694 C
66 C
105952695 CTTCACA
1 CTTCACA
105952702 TATTACCACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 63 0.98
67 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (66 bp):
CTTCACAAAGCGCCCTTCACATAGTACCACAATTGTGACCAAAGCTATCTTTCTTCACAAAGTGG
C
Found at i:105954675 original size:35 final size:35
Alignment explanation
Indices: 105954636--105954703 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
105954626 TATAATTTTT
*
105954636 AAAAGATTAAATTAAATATATA-TAATATTAAAAGA
1 AAAAGATAAAATTAAATATATATTAAT-TTAAAAGA
**
105954671 AAAAGATAAAATTTTATATATATTAATTTAAAA
1 AAAAGATAAAATTAAATATATATTAATTTAAAA
105954704 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (35 bp):
AAAAGATAAAATTAAATATATATTAATTTAAAAGA
Found at i:105954719 original size:18 final size:20
Alignment explanation
Indices: 105954696--105954734 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
105954686 ATATATATTA
*
105954696 ATTTAAA-ATTTTAAA-AAT
1 ATTTAAATAATTTAAATAAT
105954714 ATTTAAATAATTTAAATAAT
1 ATTTAAATAATTTAAATAAT
105954734 A
1 A
105954735 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAAATAATTTAAATAAT
Found at i:105959509 original size:236 final size:236
Alignment explanation
Indices: 105959096--105959725 Score: 987
Period size: 236 Copynumber: 2.7 Consensus size: 236
105959086 CCATCATTAA
*
105959096 TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCATCCGTACTCA
1 TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCGTACTCA
* *
105959161 TTAGTTACTTCCA-TTTCAACTAATGGCTCTGAACCAAGTTCTACTTGAACCTGCAATATACATA
66 TTAGTTACTT-CAGTTTCAACTAATGGCTCTGAACCAAGTTCTACTCGAACCTGAAATATACATA
* *
105959225 AAACATAAACTCAATGTGTAGTATTTTAAAATTTTCCGAGAAAAGTGTTCTTACTTGTGCCTGGT
130 AAACATAAACTCGATGTGTAGTATTTTAAAATTTTCCGAGAAAAGTGTTCTTACTTGTGACTGGT
* * *
105959290 GATTGGAGATCTCTTCATT-CCAATCATCAATAAAGTTCTCAT
195 GATGGGAGATCGCTTCATTCCCAA-CAGCAATAAAGTTCTCAT
* * *
105959332 TGTCGAAAACCGGACAGGGAGTTATATATTCATTAGTATGTTCACTTTGAGTCCACCCATACTCA
1 TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCGTACTCA
* *
105959397 TTAGTTACTTCGGTTTCAACTAATGGCTCTGAACCGAGTTCTACTCGAACCTGAAATATACATAA
66 TTAGTTACTTCAGTTTCAACTAATGGCTCTGAACCAAGTTCTACTCGAACCTGAAATATACATAA
* *
105959462 AACATAAATTTGATGTGTAGTATTTTAAAATTTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
131 AACATAAACTCGATGTGTAGTATTTTAAAATTTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
*
105959527 ATGGGAGATCGCTTCATTCCCGACAGCAATAAAGTTCTCAT
196 ATGGGAGATCGCTTCATTCCCAACAGCAATAAAGTTCTCAT
* * * * *
105959568 TGTCAAAAACTGGATAGGGTGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACTCGTACTCA
1 TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCGTACTCA
* * *
105959633 TTAGTTACTTCAGTTTCAACTAATGGCTC-CAGACCAAGTTCTGCTCGAACCTGAAATATACATT
66 TTAGTTACTTCAGTTTCAACTAATGGCTCTGA-ACCAAGTTCTACTCGAACCTGAAATATACATA
*
105959697 AAACGTAAACTCGATGTGTAGTATTTTAA
130 AAACATAAACTCGATGTGTAGTATTTTAA
105959726 TTAGTCACCA
Statistics
Matches: 359, Mismatches: 32, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
235 2 0.01
236 354 0.99
237 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (236 bp):
TGTCGAAAACCGGACAGGGAGTTATAAATTCATTAGTTTGTTCACTTTGAGTCCACCCGTACTCA
TTAGTTACTTCAGTTTCAACTAATGGCTCTGAACCAAGTTCTACTCGAACCTGAAATATACATAA
AACATAAACTCGATGTGTAGTATTTTAAAATTTTCCGAGAAAAGTGTTCTTACTTGTGACTGGTG
ATGGGAGATCGCTTCATTCCCAACAGCAATAAAGTTCTCAT
Done.