Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 131 of 216
Found at i:41705144 original size:159 final size:159
Alignment explanation
Indices: 41704855--41705310 Score: 770
Period size: 159 Copynumber: 2.9 Consensus size: 159
41704845 AGTGGAATAG
* *
41704855 ATTAAAGCTGAAGTGGAACGGATTAAAGCTGAAGGCAGCGAATCCTATCTTCTTGGCGTTACAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACAGT
* * *
41704920 GGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGCGGAGTAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
*
41704985 CTGAAGATAGTGAATCGTATCTCCCTAGC
131 CTGAAGATAGCGAATCGTATCTCCCTAGC
*
41705014 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTAGCGTTACAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACAGT
*
41705079 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGGCATTGCAGCGGAGCAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
*
41705144 CTGAAGATAGCGAATCGTATCTCCCTGGC
131 CTGAAGATAGCGAATCGTATCTCCCTAGC
* * * * *
41705173 ATTAAAGTTGAAGTTGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCTTTGGCATTACAGT
1 ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACAGT
*
41705238 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTACAGC-GAGCAGATCAAGA
66 GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
41705302 CTGAAGATA
131 CTGAAGATA
41705311 ACAAACCTTA
Statistics
Matches: 280, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
158 22 0.08
159 258 0.92
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (159 bp):
ATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACAGT
GGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTGCAGCGGAGCAGATCAAGA
CTGAAGATAGCGAATCGTATCTCCCTAGC
Found at i:41705263 original size:108 final size:108
Alignment explanation
Indices: 41705085--41705284 Score: 249
Period size: 108 Copynumber: 1.9 Consensus size: 108
41705075 CAGTGGAATA
* * * * * * *
41705085 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGGCATTGCAGCGGAGCAGATCAAGACTGAAG
1 GATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTACAGCGGAACAGATAAAGACTAAAG
41705150 ATAGCGAATCGTATCTCCCTGGCATTAAAGTTGAAGTTGAGCG
66 ATAGCGAATCGTATCTCCCTGGCATTAAAGTTGAAGTTGAGCG
* * * *
41705193 GATTAAAGCTGAAGGTAGCGAATCCTATCTCTTTGGCATTACAGTGGAATAGATTAAAG-CTAAA
1 GATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTACAGCGGAACAGA-TAAAGACTAAA
* * * *
41705257 GGTAGCGAATCTTGTTTCCCTGGCATTA
65 GATAGCGAATCGTATCTCCCTGGCATTA
41705285 CAGCGAGCAG
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
108 72 0.95
109 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (108 bp):
GATTAAAGCTAAAGGTAGCGAATCCTATCTCCTTGGCATTACAGCGGAACAGATAAAGACTAAAG
ATAGCGAATCGTATCTCCCTGGCATTAAAGTTGAAGTTGAGCG
Found at i:41705281 original size:51 final size:51
Alignment explanation
Indices: 41704866--41705287 Score: 283
Period size: 51 Copynumber: 8.0 Consensus size: 51
41704856 TTAAAGCTGA
** * * * *
41704866 AGTGGAACGGATTAAAGCTGAAGGCAGCGAATCCTATCTTCTTGGCGTTAC
1 AGTGGAATAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * * *
41704917 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGC
1 AGTGGAATAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * * * *
41704968 AGCGGAGTAGA-TCAAGACTGAAGATAGTGAATCGTATCTCCCTAGCATTAA
1 AGTGGAATAGATTAAAG-CTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * *
41705019 AGCT-GAAGTGGAGCGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTAGCGTTAC
1 AG-TGGAA-T--A---GATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * * * *
41705076 AGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGGCATTGC
1 AGTGGAATAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* ** * * * *
41705127 AGCGGAGCAGA-TCAAGACTGAAGATAGCGAATCGTATCTCCCTGGCATTAA
1 AGTGGAATAGATTAAAG-CTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* **
41705178 AGTTGAAGTTGAGCGGATTAAAGCTGAAGGTAGCGAATCCTATCTCTTTGGCATTAC
1 AGTGGAA--T-A---GATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
* * * *
41705235 AGTGGAATAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTAC
1 AGTGGAATAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
41705286 AG
1 AG
41705288 CGAGCAGATC
Statistics
Matches: 283, Mismatches: 70, Indels: 36
0.73 0.18 0.09
Matches are distributed among these distances:
50 8 0.03
51 188 0.66
52 1 0.00
54 4 0.01
55 1 0.00
56 2 0.01
57 71 0.25
58 8 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (51 bp):
AGTGGAATAGATTAAAGCTGAAGGTAGCGAATCCTATCTCCCTGGCATTAC
Found at i:41705608 original size:138 final size:138
Alignment explanation
Indices: 41705360--41705608 Score: 324
Period size: 138 Copynumber: 1.8 Consensus size: 138
41705350 AAGATACCAA
* * ** * *
41705360 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTAAAGTTGCA
** *
41705425 GTAGAGCAGATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACC
66 GTAGAGCAGATTAAAATGACCAATCCTATACCTCTGAACTTGCAGTAGGTCGGATTAAATCTACC
41705490 ATAACAAG
131 ATAACAAG
*
41705498 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACATTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAAC-TTATCTCCCTAAAGTTGC
* * * *
41705563 AGTGGAGCAGGTTGAAGAT-ACCAAT-CT-TATCTCCTGAACTTGCAGT
65 AGTAGAGCAGATT-AAAATGACCAATCCTATACCT-CTGAACTTGCAGT
41705609 GGAGCAGATT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
137 4 0.04
138 55 0.59
139 31 0.33
140 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (138 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTAAAGTTGCA
GTAGAGCAGATTAAAATGACCAATCCTATACCTCTGAACTTGCAGTAGGTCGGATTAAATCTACC
ATAACAAG
Found at i:41705616 original size:182 final size:182
Alignment explanation
Indices: 41705308--41705665 Score: 472
Period size: 182 Copynumber: 2.0 Consensus size: 182
41705298 AAGACTGAAG
** * * *
41705308 ATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTG
1 ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTG
* ** * *
41705373 AAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCAGATT-
66 AAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATTG
* *
41705437 AAAATGATGAATCCTATAC-CTCTGAAGTTGCAGTAG-GTCGGATTAAATCTACC
131 AAAAT-ATGAATCCTAT-CTCCCTGAAGTTGAAGTAGAG-CGGATTAAATCTACC
**
41705490 ATAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACATTATCTCCCT
1 ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAAC-TTATCTCCCT
* * *
41705555 GAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT-CCTGAACTTGCAGTGGAGCAGATT
65 GAAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATT
** *
41705619 GAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAA
130 GAAAATATGAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAA
41705666 ATGATTAATC
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
181 1 0.01
182 101 0.66
183 50 0.33
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (182 bp):
ATAACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAACAAACTTATCTCCCTG
AAGTTGCAGTGGAGCAGATTGAAGATACCAATCTTATCTCCCTAAACTTGCAGTAGAGCAGATTG
AAAATATGAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAATCTACC
Found at i:41705678 original size:226 final size:227
Alignment explanation
Indices: 41705303--41705750 Score: 763
Period size: 226 Copynumber: 2.0 Consensus size: 227
41705293 AGATCAAGAC
* *
41705303 TGAAGATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAATCTTATCT
1 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* * *
41705368 CCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCA
66 CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
*
41705433 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAATCTACCATAACAAG
131 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
*
41705498 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
196 TCTTATCTCCCTAAAGTTACAGTGGAGCAGAT
41705530 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
1 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
* *
41705595 -CCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCG
66 CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
* *
41705659 GATTAAAATGATTAATCCTATACCTCTGAATTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
131 GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
* **
41705724 TCTTATCTCTCTAAAGTTGTAGTGGAG
196 TCTTATCTCCCTAAAGTTACAGTGGAG
41705751 TAGACTGTAG
Statistics
Matches: 207, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
226 144 0.70
227 63 0.30
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (227 bp):
TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
CCCTGAACTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTAAAGTTGAAGTAGAGCA
GATTAAAATGATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGAATTAAATCTACCATAACAAG
TCTTATCTCCCTAAAGTTACAGTGGAGCAGAT
Found at i:41705679 original size:44 final size:44
Alignment explanation
Indices: 41705303--41705662 Score: 314
Period size: 44 Copynumber: 8.0 Consensus size: 44
41705293 AGATCAAGAC
* * * *
41705303 TGAAGATAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGT
1 TGAAGATATC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
*
41705348 TGAAGATACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * *
41705392 TGAAGCTATTAATCTTATCTCCCTAAAGTTGTAGTAGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
41705436 T-AAAATGATGAATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGAT
1 TGAAGAT-ATCAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGAT
* * * *
41705480 TAAATCTACCATAACAAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGAT
1 T-GA---A-GATATCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * *
41705530 TGAAGATAACAAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGT
1 TGAAGATATCAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* *
41705575 TGAAGATACCAATCTTATCT-CCTGAACTTGCAGTGGAGCAGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
41705618 TGAAGCTATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGAT
1 TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
41705662 T
1 T
41705663 AAAATGATTA
Statistics
Matches: 256, Mismatches: 45, Indels: 29
0.78 0.14 0.09
Matches are distributed among these distances:
43 40 0.16
44 123 0.48
45 58 0.23
46 2 0.01
49 8 0.03
50 25 0.10
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGATATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
Found at i:41705708 original size:44 final size:44
Alignment explanation
Indices: 41705625--41705709 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
41705615 GATTGAAGCT
*
41705625 ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGGATTAAAATG
1 ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGAATTAAAATG
* * *
41705669 ATTAATCCTATAC-CTCTGAATTTGCAGTAG-GTCGAATTAAA
1 ATTAATCCTAT-CTCCCTGAAGTTGAAGTAGAG-CGAATTAAA
41705710 TCTACCATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 1 0.03
44 33 0.94
45 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTAATCCTATCTCCCTGAAGTTGAAGTAGAGCGAATTAAAATG
Found at i:41705845 original size:44 final size:44
Alignment explanation
Indices: 41705781--41705864 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
41705771 TTATCATATC
* * *
41705781 AAACCTTATCTTTCTGAAGTTACAATAGAGCAGGTTGAAGTACT
1 AAACCTTATCTTCCTAAAGTTACAACAGAGCAGGTTGAAGTACT
* * *
41705825 AAACCTTATCTTCCTAAAGTTGCAGCGGAGCAGGTTGAAG
1 AAACCTTATCTTCCTAAAGTTACAACAGAGCAGGTTGAAG
41705865 AAAAAAAATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AAACCTTATCTTCCTAAAGTTACAACAGAGCAGGTTGAAGTACT
Found at i:41705942 original size:45 final size:44
Alignment explanation
Indices: 41705829--41705954 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 44
41705819 AGTACTAAAC
* *
41705829 CTTATCTTCCTAAAGTTGCAGCGGAGCAGGTTGAAGAAAAAAAAT
1 CTTAT-TTCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAAAAAT
* * * * * *
41705874 CTTATCTCCCTGAACTTGCAGTGGAGCAGACTGAAGATAGAAAAT
1 CTTAT-TTCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAAAAAT
* *
41705919 CTTATTTCTCTAAAGTTGTAGTGGAGTAGATTGAAG
1 CTTATTTC-CTAAAGTTGCAGTGGAGCAGATTGAAG
41705955 CCATTAATCC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 2 0.03
45 64 0.97
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (44 bp):
CTTATTTCCTAAAGTTGCAGTGGAGCAGATTGAAGAAAAAAAAT
Found at i:41705994 original size:44 final size:44
Alignment explanation
Indices: 41705931--41706030 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 44
41705921 TATTTCTCTA
* * * * *
41705931 AAGTTGTAGTGGAGTAGATTGAAGCCATTAATCCTAT-CTCCCTG
1 AAGTTGTAGTAGAGAAGATTAAAACCATGAATCCTATAC-CCCTG
* *
41705975 AAGTTGTAGTAGAGAAGATTAAAACGATGAATCCTATACCTCTG
1 AAGTTGTAGTAGAGAAGATTAAAACCATGAATCCTATACCCCTG
*
41706019 AAGTTGCAGTAG
1 AAGTTGTAGTAG
41706031 GTCTGATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (44 bp):
AAGTTGTAGTAGAGAAGATTAAAACCATGAATCCTATACCCCTG
Found at i:41712679 original size:19 final size:19
Alignment explanation
Indices: 41712655--41712693 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41712645 TTTTTTGTTT
41712655 TTAAATGAATAAACCTCTA
1 TTAAATGAATAAACCTCTA
41712674 TTAAATGAATAAACCTCTA
1 TTAAATGAATAAACCTCTA
41712693 T
1 T
41712694 CTCTAACCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.33
Consensus pattern (19 bp):
TTAAATGAATAAACCTCTA
Found at i:41720540 original size:27 final size:28
Alignment explanation
Indices: 41720431--41720580 Score: 223
Period size: 27 Copynumber: 5.4 Consensus size: 28
41720421 GAGATTGGCG
* * * *
41720431 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41720460 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41720488 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41720516 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41720543 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41720570 CTGAGTGTGCG
1 CTAAGTGTGCG
41720581 GACTTAATAT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 51 0.45
28 48 0.42
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41720548 original size:55 final size:56
Alignment explanation
Indices: 41720431--41720580 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 56
41720421 GAGATTGGCG
* * * * *
41720431 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
41720488 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
41720543 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
41720581 GACTTAATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 24 0.28
55 26 0.30
56 22 0.25
57 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41727328 original size:21 final size:21
Alignment explanation
Indices: 41727287--41727328 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41727277 AAGAAAGGAA
* **
41727287 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
41727308 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
41727329 GTTATTACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:41728877 original size:27 final size:28
Alignment explanation
Indices: 41728768--41728917 Score: 223
Period size: 27 Copynumber: 5.4 Consensus size: 28
41728758 GAGATTGGCG
* * * *
41728768 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41728797 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41728825 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41728853 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41728880 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41728907 CTGAGTGTGCG
1 CTAAGTGTGCG
41728918 GACTTAATAT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 51 0.45
28 48 0.42
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41728885 original size:55 final size:56
Alignment explanation
Indices: 41728768--41728917 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 56
41728758 GAGATTGGCG
* * * * *
41728768 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
41728825 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
41728880 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
41728918 GACTTAATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 24 0.28
55 26 0.30
56 22 0.25
57 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41735916 original size:27 final size:28
Alignment explanation
Indices: 41735807--41735956 Score: 223
Period size: 27 Copynumber: 5.4 Consensus size: 28
41735797 GAGATTGGCG
* * * *
41735807 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41735836 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41735864 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41735892 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41735919 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41735946 CTGAGTGTGCG
1 CTAAGTGTGCG
41735957 GACTTAATAT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 51 0.45
28 48 0.42
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41735924 original size:55 final size:56
Alignment explanation
Indices: 41735807--41735956 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 56
41735797 GAGATTGGCG
* * * * *
41735807 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
41735864 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
41735919 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
41735957 GACTTAATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 24 0.28
55 26 0.30
56 22 0.25
57 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41744233 original size:27 final size:28
Alignment explanation
Indices: 41744124--41744273 Score: 223
Period size: 27 Copynumber: 5.4 Consensus size: 28
41744114 GAGATTGGCG
* * * *
41744124 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
41744153 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41744181 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41744209 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
41744236 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
41744263 CTGAGTGTGCG
1 CTAAGTGTGCG
41744274 GACTTAATAT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 51 0.45
28 48 0.42
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41744241 original size:55 final size:56
Alignment explanation
Indices: 41744124--41744273 Score: 223
Period size: 55 Copynumber: 2.7 Consensus size: 56
41744114 GAGATTGGCG
* * * * *
41744124 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
41744181 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
*
41744236 CTAAGTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCG
41744274 GACTTAATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
54 24 0.28
55 26 0.30
56 22 0.25
57 15 0.17
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:41751047 original size:19 final size:19
Alignment explanation
Indices: 41751025--41751062 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
41751015 AGGCTCTCGG
*
41751025 GTCCAATTTACAATTTCAA
1 GTCCAATTTACAAGTTCAA
*
41751044 GTCCAATTTTCAAGTTCAA
1 GTCCAATTTACAAGTTCAA
41751063 TTACCTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (19 bp):
GTCCAATTTACAAGTTCAA
Found at i:41751155 original size:18 final size:19
Alignment explanation
Indices: 41751115--41751156 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
41751105 AAAATATTAT
* *
41751115 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTC
*
41751134 ATTAA-TTTAATTTACTTC
1 ATTAATTTTAATTGACTTC
41751152 ATTAA
1 ATTAA
41751157 AATTAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTC
Found at i:41753192 original size:17 final size:17
Alignment explanation
Indices: 41753165--41753211 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
41753155 GTCCCTATAC
41753165 TATTAATATAATGTTCTA
1 TATT-ATATAATGTTCTA
41753183 TATTATATAATGTTCTA
1 TATTATATAATGTTCTA
**
41753200 TAAAATATAATG
1 TATTATATAATG
41753212 CATAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 23 0.85
18 4 0.15
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (17 bp):
TATTATATAATGTTCTA
Found at i:41753623 original size:19 final size:20
Alignment explanation
Indices: 41753595--41753633 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41753585 TAATTAAATT
41753595 TTAATGAAG-TAAAACATAA
1 TTAATGAAGTTAAAACATAA
*
41753614 TTAATTAAGTTAAAACATAA
1 TTAATGAAGTTAAAACATAA
41753634 ACTAATCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
TTAATGAAGTTAAAACATAA
Found at i:41756691 original size:17 final size:18
Alignment explanation
Indices: 41756653--41756717 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 18
41756643 CAAATTAGAA
*
41756653 ATTAATATAAAGATAATAAT
1 ATTAATA-AAA-ATATTAAT
*
41756673 ATTAATTAAAAT-TTAAT
1 ATTAATAAAAATATTAAT
* *
41756690 ATTCATAAAAATATTAAAC
1 ATTAATAAAAATATT-AAT
41756709 ATTAATAAA
1 ATTAATAAA
41756718 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
17 14 0.38
18 4 0.11
19 13 0.35
20 6 0.16
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (18 bp):
ATTAATAAAAATATTAAT
Found at i:41756997 original size:16 final size:15
Alignment explanation
Indices: 41756971--41757000 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
41756961 AAACATAACA
41756971 ACTTTATTATTAATT
1 ACTTTATTATTAATT
41756986 ACTTTCATTATTAAT
1 ACTTT-ATTATTAAT
41757001 AAAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ACTTTATTATTAATT
Found at i:41758904 original size:20 final size:20
Alignment explanation
Indices: 41758876--41758945 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
41758866 GTGCAAGCAA
* * *
41758876 AGGCTCCGAGGTGTGAATAG
1 AGGCACCGAAGTGCGAATAG
41758896 AGGCACCGAAGTGCGAATAG
1 AGGCACCGAAGTGCGAATAG
* * *
41758916 AGGCACCAAAGTGCAAACAG
1 AGGCACCGAAGTGCGAATAG
*
41758936 AGCCACCGAA
1 AGGCACCGAA
41758946 ATACAGAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.31, T:0.10
Consensus pattern (20 bp):
AGGCACCGAAGTGCGAATAG
Found at i:41762758 original size:44 final size:43
Alignment explanation
Indices: 41762710--41762978 Score: 241
Period size: 44 Copynumber: 6.2 Consensus size: 43
41762700 CTCCTGGGGA
* * * * *
41762710 AGATAAGATTCGCTGTCCTCTATCTGCTCCACTACTGCTTAGAG
1 AGATAAGATT-GCTATCTTCAATCTACTCCACTACTGCTTAGGG
* * *
41762754 AGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGG
1 AGATAAGAT-TGCTATCTTCAATCTACTCCACTACTGCTTAGGG
** * * *
41762798 AGATAAGGCTGATATCTTCGATCAACTCCACTACTGCTTAGGG
1 AGATAAGATTGCTATCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
41762841 AGATAAGATTTGCAATTTTCAACCTACTCCACTGCTGCTCAGGG
1 AGATAAGA-TTGCTATCTTCAATCTACTCCACTACTGCTTAGGG
** * * * *
41762885 AGATAAGGCTGGTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTGCTATCTTCAATCTACTCCACTACTGCTTAGGG
* * * * *
41762928 AGATAAGATCTGCAATTTTCAACCTACTCCGCTACTGCTCAGGG
1 AGATAAGAT-TGCTATCTTCAATCTACTCCACTACTGCTTAGGG
41762972 AGATAAG
1 AGATAAG
41762979 GCTTGTGACT
Statistics
Matches: 174, Mismatches: 48, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
43 67 0.39
44 106 0.61
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
AGATAAGATTGCTATCTTCAATCTACTCCACTACTGCTTAGGG
Found at i:41762829 original size:87 final size:87
Alignment explanation
Indices: 41762736--41762981 Score: 411
Period size: 87 Copynumber: 2.8 Consensus size: 87
41762726 CCTCTATCTG
* *
41762736 CTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
41762801 TAAGGCTGATATCTTCGATCAA
66 TAAGGCTGATATCTTCGATCAA
* *
41762823 CTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTTCAACCTACTCCACTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
* * **
41762888 TAAGGCTGGTGTCTTCGATCTG
66 TAAGGCTGATATCTTCGATCAA
*
41762910 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCGCTACTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
41762975 TAAGGCT
66 TAAGGCT
41762982 TGTGACTAAA
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 148 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (87 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTCAGGGAGA
TAAGGCTGATATCTTCGATCAA
Found at i:41762845 original size:131 final size:130
Alignment explanation
Indices: 41762576--41762850 Score: 331
Period size: 131 Copynumber: 2.1 Consensus size: 130
41762566 CAAAACATCG
* * *
41762576 GGGAGATAGGATTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAAGTT
1 GGGAGATAAGATTCACTGTCCTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGAAAGTT
* * ** * *
41762641 TCAACCTACTCCGCTGCTGCTCAGGGAGATAAGGCTTGTGACTTAAATCTGCTTCCTTACTCCTG
66 TCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTTGTGACTTAAATCAACTTCCCTACTCCTA
* * * *
41762706 GGGAAGATAAGATTCGCTGTCCTCTATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGCAATT
1 GGG-AGATAAGATTCACTGTCCTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGAAAGT
* **
41762771 TTCAACCTACTCCACTACTGCTTAGGGAGATAAGGC-TGAT-ATCTTCGATCAAC-TCCACTACT
65 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTTG-TGA-CTTAAATCAACTTCC-CTACT
*
41762833 GCTTA
127 -CCTA
41762838 GGGAGATAAGATT
1 GGGAGATAAGATT
41762851 TGCAATTTTC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
130 9 0.07
131 109 0.89
132 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (130 bp):
GGGAGATAAGATTCACTGTCCTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGAAAGTT
TCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTTGTGACTTAAATCAACTTCCCTACTCCTA
Found at i:41762871 original size:131 final size:130
Alignment explanation
Indices: 41762605--41762978 Score: 326
Period size: 131 Copynumber: 2.9 Consensus size: 130
41762595 CTTCGATCTG
* * * *
41762605 CTCCACTACTGCTTAGGGAGATAAGATCTGAAAGTTTCAACCTACTCCGCTGCTGCTCAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
* * * * * ** *
41762670 TAAGGCTTG-TGA-CTTAAATCTGCTTCCTTACT-CCTGGGGAAGATAAGATTCGCTGTCCTCTA
66 TAAGGC-TGAT-ATCTTCAATCTAC-TCCCTACTGCTTAGGG-AGATAAGATTCGCAATCCTCAA
* *
41762732 TCTG
127 CCTA
* *
41762736 CTCCACTACTGCTTAGAGAGATAAGATCTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
* * * **
41762801 TAAGGCTGATATCTTCGATCAACTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTTCAACCT
66 TAAGGCTGATATCTTCAATCTACTCC-CTACTGCTTAGGGAGATAAGATTCGCAATCCTCAACCT
41762866 A
130 A
* * * *** * * * *
41762867 CTCCACTGCTGCTCAGGGAGATAAG-GCTGGTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
* * * *
41762931 TAAGATCTGCA-ATTTTCAACCTACTCCGCTACTGCTCAGGGAGATAAG
66 TAAG-GCTG-ATATCTTCAATCTACTCC-CTACTGCTTAGGGAGATAAG
41762979 GCTTGTGACT
Statistics
Matches: 198, Mismatches: 39, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
130 41 0.21
131 151 0.76
132 6 0.03
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (130 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGAAATTTTCAACCTACTCCACTACTGCTTAGGGAGA
TAAGGCTGATATCTTCAATCTACTCCCTACTGCTTAGGGAGATAAGATTCGCAATCCTCAACCTA
Found at i:41763539 original size:39 final size:42
Alignment explanation
Indices: 41763083--41763884 Score: 327
Period size: 44 Copynumber: 18.7 Consensus size: 42
41763073 ATTTGAAATT
* * * *
41763083 CTTCGATCTATTCCCCTGTAATCTCAGGGAGATAAGA-CCTG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
* * * * * * *
41763124 ATGCAATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTA
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGAT--TCTG
* * * * * *
41763168 TTTTAATCCACTCCACTGTTATCTCAGGGAAATAGGATTACTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATT-CT-G
* * *
41763212 CTTCAATCTGCTCCACTGTAATCT-TGGGAGATAAGATTTTTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-TTCT-G
* *
41763255 CTTCAATCTGCTCCACTGTAA-CTTCAGGGAGATAATATT-TG
1 CTTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATTCTG
* * * *
41763296 AAATTATCCAGTCTATTCCACTGTAATCTCAGGGAGATAAGA-CCTG
1 ---CT-T-CAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
* * * * * * * *
41763342 ATTCGATCTACTCTACTATAATTTCAGAGAGATAAGATCCTTTA
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGAT--TCTG
* * * * * * *
41763386 TTTTAATCTGCTGCACTGCAATCTCAGGGAAATAGGATTACTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATT-CT-G
* * *
41763430 CTTTAATCTGCTCCACTGTAATCTCAGGGAGATAATATTTCTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-TTCT-G
* *
41763474 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGA-T-T-
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
** **
41763513 CTTCGGTCTACTCCACTGTAATCTCAGGGAGATAA-AACCTG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
* * * * * * * * *
41763554 ATGCGATCTATTCTACTGTAATTTTAGAGAGATAAGATTCTTTA
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTC--TG
* * ** * * *
41763598 TTTTAATCCGCTCCACTGTAATATCAGGGAAATAGGATTACTAG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATT-CT-G
* ** * ** **
41763642 CTTTAATCCGCTTCGTTGTAATCTCAGAAAGATAAGATTTCTGG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-TTCT-G
* * * *
41763686 CTTCAATCTGCTCCACTGTAACCTCAAGAAGATAAGA-T-T-
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
* * * * *
41763725 CTTCAGTCTATTCCCCTGTAATCTCAGGAAGATAAGA-CCTG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
* * * * * * * * *
41763766 ATGCGATCTACTCTACTGTAATTTTAGAGAGATAAGACCTTTTA
1 CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA--TTCTG
* * * * * *
41763810 TTTTAAT-TCGCTCCATTGTAATCTCAGGGAAATAGGATTACTGG
1 CTTCAATCT-ACTCCACTGTAATCTCAGGGAGATAAGATT-CT-G
* ***
41763854 CTTCAATCTGCTCTGTTGTAATCTCAGGGAG
1 CTTCAATCTACTCCACTGTAATCTCAGGGAG
41763885 GTAAAATCAG
Statistics
Matches: 560, Mismatches: 162, Indels: 75
0.70 0.20 0.09
Matches are distributed among these distances:
38 1 0.00
39 62 0.11
40 2 0.00
41 112 0.20
42 11 0.02
43 42 0.08
44 292 0.52
45 7 0.01
46 30 0.05
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (42 bp):
CTTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATTCTG
Found at i:41763627 original size:212 final size:212
Alignment explanation
Indices: 41763080--41763884 Score: 1139
Period size: 212 Copynumber: 3.8 Consensus size: 212
41763070 AAGATTTGAA
* *
41763080 ATTCTTC-GATCTATTCCCCTGTAATCTCAGGGAGATAAGACCTGATGCAATCTACTCTACTGTA
1 ATTCTTCAG-TCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTA
* *
41763144 ATTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTTATCTCAGGGAAATAGGATTAC
65 ATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTAC
* *
41763209 TGGCTTCAATCTGCTCCACTGTAATCT-TGGGAGATAAGATTTTTGGCTTCAATCTGCTCCACTG
130 TGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTG
*
41763273 TAACTTCAGGGAGATAATATTTG
195 TAACCTCAGGGAGAT-A-A---G
* * * *
41763296 AAATTATCCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATTCGATCTACTCTACTAT
1 --ATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGT
* * *
41763361 AATTTCAGAGAGATAAGATCCTTTATTTTAATCTGCTGCACTGCAATCTCAGGGAAATAGGATTA
64 AATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTA
* *
41763426 CTGGCTTTAATCTGCTCCACTGTAATCTCAGGGAGATAATATTTCTGGCTTCAATCTGCTCCACT
129 CTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACT
41763491 GTAACCTCAGGGAGATAAG
194 GTAACCTCAGGGAGATAAG
* * * *
41763510 ATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAAACCTGATGCGATCTATTCTACTGTAA
1 ATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
* * *
41763575 TTTTAGAGAGATAAGATTCTTTATTTTAATCCGCTCCACTGTAATATCAGGGAAATAGGATTACT
66 TTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT
* * * * ** **
41763640 AGCTTTAATCCGCTTCGTTGTAATCTCAGAAAGATAAGATTTCTGGCTTCAATCTGCTCCACTGT
131 GGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGT
* *
41763705 AACCTCAAGAAGATAAG
196 AACCTCAGGGAGATAAG
* *
41763722 ATTCTTCAGTCTATTCCCCTGTAATCTCAGGAAGATAAGACCTGATGCGATCTACTCTACTGTAA
1 ATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
* * *
41763787 TTTTAGAGAGATAAGA-CCTTTTATTTTAATTCGCTCCATTGTAATCTCAGGGAAATAGGATTAC
66 TTTCAGAGAGATAAGATCC-TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTAC
***
41763851 TGGCTTCAATCTGCTCTGTTGTAATCTCAGGGAG
130 TGGCTTCAATCTGCTCCACTGTAATCTCAGGGAG
41763885 GTAAAATCAG
Statistics
Matches: 527, Mismatches: 57, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
211 1 0.00
212 332 0.63
214 1 0.00
217 1 0.00
218 143 0.27
219 49 0.09
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (212 bp):
ATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAA
TTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACT
GGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGT
AACCTCAGGGAGATAAG
Found at i:41781235 original size:19 final size:20
Alignment explanation
Indices: 41781211--41781258 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
41781201 TGCAAACTAA
*
41781211 AGTGAGCTAA-AACGAGCTT
1 AGTGAGCTAAGAACGAGCTC
*
41781230 AGTGAGCTAAGAATGAGCTC
1 AGTGAGCTAAGAACGAGCTC
*
41781250 ATTGAGCTA
1 AGTGAGCTA
41781259 GAGTTGAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (20 bp):
AGTGAGCTAAGAACGAGCTC
Found at i:41784267 original size:15 final size:15
Alignment explanation
Indices: 41784247--41784279 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
41784237 TCTCTTTTTC
*
41784247 TTCACTCATTTTGTT
1 TTCACTCACTTTGTT
41784262 TTCACTCACTTTGTT
1 TTCACTCACTTTGTT
41784277 TTC
1 TTC
41784280 TCCTCTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.58
Consensus pattern (15 bp):
TTCACTCACTTTGTT
Found at i:41793535 original size:9 final size:9
Alignment explanation
Indices: 41793486--41793648 Score: 55
Period size: 9 Copynumber: 18.6 Consensus size: 9
41793476 TTTTGAAACT
*
41793486 TTTTTATGA
1 TTTTTATAA
41793495 TTTTTATAA
1 TTTTTATAA
*
41793504 TAATTTTACAA
1 T--TTTTATAA
*
41793515 -TTTTATTCA
1 TTTTTA-TAA
41793524 TTTTTATAA
1 TTTTTATAA
41793533 --TTTATAA
1 TTTTTATAA
**
41793540 TAATTAT-A
1 TTTTTATAA
*
41793548 TTGTT-T-A
1 TTTTTATAA
41793555 TTTTTATAA
1 TTTTTATAA
*
41793564 TTTTTTATGA
1 -TTTTTATAA
*
41793574 TTTTTATTAC
1 TTTTTA-TAA
*
41793584 TTTTCTACAAA
1 TTTT-TA-TAA
*
41793595 TTTTTAAAA
1 TTTTTATAA
41793604 GTTTTTA-AA
1 -TTTTTATAA
41793613 --TTT-T-A
1 TTTTTATAA
*
41793618 -TTTTACAA
1 TTTTTATAA
41793626 TTTTTAT-A
1 TTTTTATAA
41793634 TATTTTATAA
1 T-TTTTATAA
41793644 TTTTT
1 TTTTT
41793649 TAAATAATTA
Statistics
Matches: 118, Mismatches: 17, Indels: 38
0.68 0.10 0.22
Matches are distributed among these distances:
5 1 0.01
6 6 0.05
7 13 0.11
8 13 0.11
9 43 0.36
10 28 0.24
11 14 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:41793570 original size:10 final size:10
Alignment explanation
Indices: 41793555--41793650 Score: 54
Period size: 10 Copynumber: 9.6 Consensus size: 10
41793545 ATATTGTTTA
41793555 TTTTTATAAT
1 TTTTTATAAT
*
41793565 TTTTTATGA-
1 TTTTTATAAT
*
41793574 TTTTTATTACT
1 TTTTTA-TAAT
* * *
41793585 TTTCTACAAA
1 TTTTTATAAT
* *
41793595 TTTTTAAAAG
1 TTTTTATAAT
41793605 TTTTTA-AAT
1 TTTTTATAAT
* *
41793614 TTTATTTTACAA
1 TTT-TTATA-AT
41793626 TTTTTAT-AT
1 TTTTTATAAT
*
41793635 ATTTTATAAT
1 TTTTTATAAT
41793645 TTTTTA
1 TTTTTA
41793651 AATAATTATT
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
9 18 0.29
10 32 0.51
11 9 0.14
12 4 0.06
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:41793638 original size:23 final size:22
Alignment explanation
Indices: 41793596--41793641 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
41793586 TTCTACAAAT
41793596 TTTTAAAAGTTTTTAAATTTTA
1 TTTTAAAAGTTTTTAAATTTTA
*
41793618 TTTTACAA-TTTTTATATATTTTA
1 TTTTAAAAGTTTTTA-A-ATTTTA
41793641 T
1 T
41793642 AATTTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAAGTTTTTAAATTTTA
Found at i:41796436 original size:42 final size:41
Alignment explanation
Indices: 41796387--41796480 Score: 143
Period size: 41 Copynumber: 2.3 Consensus size: 41
41796377 GCTGGTGTGA
*
41796387 TATATCAGGCTAAAAGCCTAGCAGGCGTAGTGCCGGTGAATT
1 TATATCAGGCT-AAAGCCTAGCAGGCGTAGAGCCGGTGAATT
* *
41796429 TATATCAGACTAAAGCCTAGCAGGCGTAGAGCTGGTGAATT
1 TATATCAGGCTAAAGCCTAGCAGGCGTAGAGCCGGTGAATT
*
41796470 TTTATCAGGCT
1 TATATCAGGCT
41796481 TATGCCAAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 37 0.79
42 10 0.21
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (41 bp):
TATATCAGGCTAAAGCCTAGCAGGCGTAGAGCCGGTGAATT
Found at i:41800255 original size:46 final size:46
Alignment explanation
Indices: 41800198--41800295 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
41800188 CACTAGTAGG
* **
41800198 AAGCCTACTAGGCACAAGGCTCAATACATTACAATACACTGGCATA
1 AAGCCTACTAGGCACAAGGATCAATACATTACAATACACCAGCATA
* ** * *
41800244 AAGCCTTCTAGGCACAAGGATTGATACATTATAGTACACCAGCATA
1 AAGCCTACTAGGCACAAGGATCAATACATTACAATACACCAGCATA
41800290 AAGCCT
1 AAGCCT
41800296 GGTAGGCTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.21
Consensus pattern (46 bp):
AAGCCTACTAGGCACAAGGATCAATACATTACAATACACCAGCATA
Found at i:41810494 original size:25 final size:25
Alignment explanation
Indices: 41810466--41810536 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
41810456 GTTACCAATT
41810466 TTAGCTCTTATGAGCTTACTGATAC
1 TTAGCTCTTATGAGCTTACTGATAC
* *
41810491 TTAGCTCGTATGAGCTTACCGATAC
1 TTAGCTCTTATGAGCTTACTGATAC
* *
41810516 TTATCT-TGTATGATCTTACTG
1 TTAGCTCT-TATGAGCTTACTG
41810537 CTATTCAGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (25 bp):
TTAGCTCTTATGAGCTTACTGATAC
Found at i:41812509 original size:16 final size:16
Alignment explanation
Indices: 41812474--41812514 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
41812464 CCCGCATAAA
41812474 CAAA-AAATATAAAAC
1 CAAATAAATATAAAAC
41812489 CAAATAAAT-TAAAAC
1 CAAATAAATATAAAAC
41812504 CAAAATAAATA
1 C-AAATAAATA
41812515 AAGTCCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (16 bp):
CAAATAAATATAAAAC
Found at i:41812516 original size:15 final size:14
Alignment explanation
Indices: 41812482--41812516 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
41812472 AACAAAAAAT
41812482 ATAAAACCAAATAA
1 ATAAAACCAAATAA
41812496 ATTAAAACCAAAATAA
1 A-TAAAACC-AAATAA
41812512 ATAAA
1 ATAAA
41812517 GTCCAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 11 0.58
16 7 0.37
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (14 bp):
ATAAAACCAAATAA
Found at i:41813684 original size:23 final size:22
Alignment explanation
Indices: 41813653--41813696 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
41813643 TCATTTTTTA
41813653 ATTTATTTA-AGTATTTATATTTC
1 ATTTATTTATA-TATTTA-ATTTC
*
41813676 ATTTTTTTATATATTTAATTT
1 ATTTATTTATATATTTAATTT
41813697 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTTATTTATATATTTAATTTC
Found at i:41813827 original size:23 final size:24
Alignment explanation
Indices: 41813758--41813838 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
41813748 ATTAATATTG
* * *
41813758 TTTAAATTTGTCTTATATTATTAT
1 TTTAAATTTATCATAAATTATTAT
*
41813782 TTTAAATTTATCATAAATAATTAT
1 TTTAAATTTATCATAAATTATTAT
* **
41813806 TTTAAGTTT-TCATGCATTATTA-
1 TTTAAATTTATCATAAATTATTAT
*
41813828 TTCAAATTTAT
1 TTTAAATTTAT
41813839 TATGTATTAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
22 7 0.15
23 11 0.24
24 28 0.61
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTAAATTTATCATAAATTATTAT
Found at i:41815432 original size:37 final size:37
Alignment explanation
Indices: 41815377--41815486 Score: 211
Period size: 37 Copynumber: 3.0 Consensus size: 37
41815367 AGTGAAATGA
*
41815377 CATAATTCAATATGGTATGACATAGCTAAGTTGAAGG
1 CATACTTCAATATGGTATGACATAGCTAAGTTGAAGG
41815414 CATACTTCAATATGGTATGACATAGCTAAGTTGAAGG
1 CATACTTCAATATGGTATGACATAGCTAAGTTGAAGG
41815451 CATACTTCAATATGGTATGACATAGCTAAGTTGAAG
1 CATACTTCAATATGGTATGACATAGCTAAGTTGAAG
41815487 TATGCATTGA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (37 bp):
CATACTTCAATATGGTATGACATAGCTAAGTTGAAGG
Found at i:41816246 original size:19 final size:19
Alignment explanation
Indices: 41816222--41816262 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
41816212 GTGTTACATT
41816222 ATCGCTATGCATTCCTACA
1 ATCGCTATGCATTCCTACA
41816241 ATCGCTATGCATTCCTACA
1 ATCGCTATGCATTCCTACA
41816260 ATC
1 ATC
41816263 ACCATGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (19 bp):
ATCGCTATGCATTCCTACA
Found at i:41816299 original size:3 final size:3
Alignment explanation
Indices: 41816291--41816348 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
41816281 CATTAGTTAA
41816291 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
41816339 AAG AAG AAG A
1 AAG AAG AAG A
41816349 CAACAACAAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:41822245 original size:27 final size:27
Alignment explanation
Indices: 41822177--41822245 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
41822167 TTACGAAGTT
* * * *
41822177 TGCCAAAAAGGCATTCCTTTCATATTT
1 TGCCATAAAGGCGTTCCTTCCATATTG
**
41822204 TGCCATAAATACGTTCCTTCCATATTG
1 TGCCATAAAGGCGTTCCTTCCATATTG
41822231 TGCCATAAAGGCGTT
1 TGCCATAAAGGCGTT
41822246 AATCAGGCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (27 bp):
TGCCATAAAGGCGTTCCTTCCATATTG
Found at i:41823423 original size:11 final size:12
Alignment explanation
Indices: 41823407--41823462 Score: 80
Period size: 11 Copynumber: 4.8 Consensus size: 12
41823397 GGACCCAAGA
41823407 TGAATTAATTT-
1 TGAATTAATTTG
*
41823418 TGAATTAGTTTG
1 TGAATTAATTTG
41823430 TGAATTAATTT-
1 TGAATTAATTTG
*
41823441 TGAATTAGTTTG
1 TGAATTAATTTG
41823453 TGAATTAATT
1 TGAATTAATT
41823463 CACTTGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
11 20 0.51
12 19 0.49
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:41823437 original size:23 final size:23
Alignment explanation
Indices: 41823407--41823462 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
41823397 GGACCCAAGA
41823407 TGAATTAATTTTGAATTAGTTTG
1 TGAATTAATTTTGAATTAGTTTG
41823430 TGAATTAATTTTGAATTAGTTTG
1 TGAATTAATTTTGAATTAGTTTG
41823453 TGAATTAATT
1 TGAATTAATT
41823463 CACTTGTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (23 bp):
TGAATTAATTTTGAATTAGTTTG
Found at i:41824775 original size:22 final size:21
Alignment explanation
Indices: 41824729--41824784 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
41824719 AAAAATAATA
* *
41824729 TTATTTTAATAGATTTAATAT
1 TTATTTTAATAGATTTAAAAC
41824750 TTATTTTAATTTA-ATTTAAAAC
1 TTATTTTAA--TAGATTTAAAAC
*
41824772 TTATCTT-ATAGAT
1 TTATTTTAATAGAT
41824785 AAATATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 10 0.34
22 13 0.45
23 2 0.07
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (21 bp):
TTATTTTAATAGATTTAAAAC
Found at i:41825060 original size:61 final size:58
Alignment explanation
Indices: 41824967--41825092 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 58
41824957 ATAATTTTAT
* *
41824967 TTTAATATATTTAATATTAAATTAAAATTAATATTTATCTTACAGATAATTATT-CTATTAA
1 TTTAATAGATTTAATATTAAATTAAAATTAATATTTATCTT---GATAAGTATTAC-ATTAA
* *
41825028 TTTAATAGATTTAATATTATATT-TAATCTAATATTTATCTTGATAAGTATTACATTAA
1 TTTAATAGATTTAATATTAAATTAAAAT-TAATATTTATCTTGATAAGTATTACATTAA
41825086 TTTAATA
1 TTTAATA
41825093 TTAAAATGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
58 21 0.36
59 1 0.02
60 3 0.05
61 34 0.58
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (58 bp):
TTTAATAGATTTAATATTAAATTAAAATTAATATTTATCTTGATAAGTATTACATTAA
Found at i:41828051 original size:37 final size:37
Alignment explanation
Indices: 41828001--41828071 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
41827991 CATGACAATA
* *
41828001 GCTCATAAGAGCTAATCCACCCGATAACACGCCAGAT
1 GCTCATAAGAGCTAATCCAACCGAAAACACGCCAGAT
41828038 GCTCATAAGAGCTAATCCAACCGAAAACACGCCA
1 GCTCATAAGAGCTAATCCAACCGAAAACACGCCA
41828072 AAACAAGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.14
Consensus pattern (37 bp):
GCTCATAAGAGCTAATCCAACCGAAAACACGCCAGAT
Found at i:41837328 original size:14 final size:14
Alignment explanation
Indices: 41837290--41837329 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
41837280 TTTGTTTTTC
41837290 TTTT-ACTT-TAACA
1 TTTTAACTTATAA-A
41837303 TTTTAA-TTATAAA
1 TTTTAACTTATAAA
41837316 TTTTAACTTATAAA
1 TTTTAACTTATAAA
41837330 ATCACATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTAACTTATAAA
Found at i:41838218 original size:12 final size:12
Alignment explanation
Indices: 41838201--41838225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41838191 ATTTTCTGTC
41838201 GAACTGTAATAA
1 GAACTGTAATAA
41838213 GAACTGTAATAA
1 GAACTGTAATAA
41838225 G
1 G
41838226 TTTCTACAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GAACTGTAATAA
Found at i:41842782 original size:16 final size:17
Alignment explanation
Indices: 41842758--41842791 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
41842748 GAAATTTTTT
*
41842758 TTATCAAAAATATAAAA
1 TTATCAAAAATAAAAAA
41842775 TTAT-AAAAATAAAAAA
1 TTATCAAAAATAAAAAA
41842791 T
1 T
41842792 ACTTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
TTATCAAAAATAAAAAA
Found at i:41842999 original size:16 final size:18
Alignment explanation
Indices: 41842980--41843016 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
41842970 TTTGAGAAAA
41842980 AAATT-CTA-TCAATTAT
1 AAATTCCTATTCAATTAT
*
41842996 AAATTCCTATTGAATTAT
1 AAATTCCTATTCAATTAT
41843014 AAA
1 AAA
41843017 ACAATTATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 3 0.17
18 10 0.56
ACGTcount: A:0.46, C:0.11, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTCCTATTCAATTAT
Found at i:41843160 original size:18 final size:18
Alignment explanation
Indices: 41843139--41843182 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
41843129 TTTTTCTTAT
*
41843139 ATTTTTTAATATTATTTA
1 ATTTTTTAATAATATTTA
* *
41843157 ATTTTTT-ATAATCTTTT
1 ATTTTTTAATAATATTTA
41843174 ATTTTTTAA
1 ATTTTTTAA
41843183 GAATTTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTAATAATATTTA
Found at i:41843177 original size:17 final size:17
Alignment explanation
Indices: 41843133--41843181 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
41843123 ATTTTATTTT
* *
41843133 TCTTATATTTTTTAATAT
1 TCTTTTATTTTTT-ATAA
* *
41843151 TATTTAATTTTTTATAA
1 TCTTTTATTTTTTATAA
41843168 TCTTTTATTTTTTA
1 TCTTTTATTTTTTA
41843182 AGAATTTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (17 bp):
TCTTTTATTTTTTATAA
Found at i:41843190 original size:17 final size:16
Alignment explanation
Indices: 41843138--41843191 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 16
41843128 ATTTTTCTTA
*
41843138 TATTTTTTAATATTATT
1 TATTTTTTAAAATT-TT
*
41843155 TAATTTTTTATAATCTTT
1 T-ATTTTTTAAAAT-TTT
41843173 TATTTTTTAAGAATTTT
1 TATTTTTTAA-AATTTT
41843190 TA
1 TA
41843192 GGGGTTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.45
18 16 0.52
19 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (16 bp):
TATTTTTTAAAATTTT
Found at i:41846873 original size:29 final size:28
Alignment explanation
Indices: 41846840--41846895 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
41846830 TTAAGGGGTC
* *
41846840 AAAATTAAATTATATCTTTTATAATAGTA
1 AAAATAAAATTATATCATTT-TAATAGTA
*
41846869 AAAATAAAATTTTATCATTTTAATAGT
1 AAAATAAAATTATATCATTTTAATAGT
41846896 CTATATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (28 bp):
AAAATAAAATTATATCATTTTAATAGTA
Found at i:41850583 original size:14 final size:15
Alignment explanation
Indices: 41850555--41850587 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
41850545 CTATCTAAAC
41850555 TTTAGTTTAATTTAT
1 TTTAGTTTAATTTAT
41850570 TTTAGTTT-ATTTAT
1 TTTAGTTTAATTTAT
41850584 TTTA
1 TTTA
41850588 AATTTTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (15 bp):
TTTAGTTTAATTTAT
Found at i:41863709 original size:45 final size:45
Alignment explanation
Indices: 41863648--41863883 Score: 307
Period size: 45 Copynumber: 5.3 Consensus size: 45
41863638 ACAACTACAG
* *
41863648 TCTTACTCATTTTTATCATGACGCCATAGCATATTTCAGCTATGT
1 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
* * * *
41863693 TCTTGCTCACTTTTATCATGACGCCATAGCATCTTTCAGCTATGG
1 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
* * *
41863738 TCTTACTAATTTTTATCATGACACCATAGCAT-ATTCAACTATGGT
1 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTAT-GT
* * * *
41863783 T-TTGCTCACTTTTATCATGACACCGTAGCATCTTTCAGCTATGG
1 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
*
41863827 TCTTACTTATTTTTATCATGACACCATAGCATCTTTCAGCTATG-
1 TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
*
41863871 TCTTAATCATTTT
1 TCTTACTCATTTT
41863884 AGGCTTATAA
Statistics
Matches: 164, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
44 47 0.29
45 117 0.71
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.42
Consensus pattern (45 bp):
TCTTACTCATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
Found at i:41863817 original size:89 final size:90
Alignment explanation
Indices: 41863647--41863871 Score: 355
Period size: 89 Copynumber: 2.5 Consensus size: 90
41863637 TACAACTACA
* * *
41863647 GTCTTACTCATTTTTATCATGACGCCATAGCATATTTCAGCTATGTTCTTGCTCACTTTTATCAT
1 GTCTTACTAATTTTTATCATGACACCATAGCATATTTCAACTATGTTCTTGCTCACTTTTATCAT
*
41863712 GACGCCATAGCATCTTTCAGCTATG
66 GACACCATAGCATCTTTCAGCTATG
41863737 GTCTTACTAATTTTTATCATGACACCATAGCATA-TTCAACTATGGTT-TTGCTCACTTTTATCA
1 GTCTTACTAATTTTTATCATGACACCATAGCATATTTCAACTAT-GTTCTTGCTCACTTTTATCA
*
41863800 TGACACCGTAGCATCTTTCAGCTATG
65 TGACACCATAGCATCTTTCAGCTATG
* * *
41863826 GTCTTACTTATTTTTATCATGACACCATAGCATCTTTCAGCTATGT
1 GTCTTACTAATTTTTATCATGACACCATAGCATATTTCAACTATGT
41863872 CTTAATCATT
Statistics
Matches: 125, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
89 82 0.66
90 43 0.34
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.40
Consensus pattern (90 bp):
GTCTTACTAATTTTTATCATGACACCATAGCATATTTCAACTATGTTCTTGCTCACTTTTATCAT
GACACCATAGCATCTTTCAGCTATG
Found at i:41864769 original size:4 final size:4
Alignment explanation
Indices: 41864762--41864812 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
41864752 TCTCTCTCTC
* * * * *
41864762 TATA TATA TATA TATA TATT TATT TATT TATA TATT TATA TATT TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
41864810 TAT
1 TAT
41864813 CTGAGCAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (4 bp):
TATA
Found at i:41864773 original size:8 final size:8
Alignment explanation
Indices: 41864766--41864812 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
41864756 TCTCTCTATA
*
41864766 TATATATA
1 TATATATT
41864774 TATATATT
1 TATATATT
*
41864782 TATTTATT
1 TATATATT
41864790 TATATATT
1 TATATATT
41864798 TATATATT
1 TATATATT
41864806 TATATAT
1 TATATAT
41864813 CTGAGCAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATATT
Found at i:41867476 original size:17 final size:15
Alignment explanation
Indices: 41867454--41867487 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
41867444 GAGGGCAACG
41867454 GGTGAGGGAGAGAGGGA
1 GGTGAGGGA-A-AGGGA
41867471 GGTGAGGGAAAGGGA
1 GGTGAGGGAAAGGGA
41867486 GG
1 GG
41867488 GGGACTTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.65, T:0.06
Consensus pattern (15 bp):
GGTGAGGGAAAGGGA
Found at i:41870839 original size:24 final size:24
Alignment explanation
Indices: 41870812--41870858 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41870802 TAAGAACATG
41870812 ACAACACCAAAGTACATAATCAAA
1 ACAACACCAAAGTACATAATCAAA
** *
41870836 ACAACACGGAAGTGCATAATCAA
1 ACAACACCAAAGTACATAATCAA
41870859 GATAGCACCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
ACAACACCAAAGTACATAATCAAA
Found at i:41873481 original size:37 final size:37
Alignment explanation
Indices: 41873424--41873573 Score: 187
Period size: 37 Copynumber: 3.9 Consensus size: 37
41873414 TATGATCACT
*
41873424 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
41873459 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
41873496 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC---C-A-C-C
*
41873539 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
41873574 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
40 1 0.01
41 2 0.02
42 1 0.01
44 32 0.32
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:41873617 original size:51 final size:51
Alignment explanation
Indices: 41873533--41873840 Score: 438
Period size: 51 Copynumber: 6.2 Consensus size: 51
41873523 TGTAGCTAGC
*
41873533 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
41873586 TATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
41873637 TATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
41873688 TATCAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
41873734 TATCACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* ** *
41873780 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
41873832 TATCACTTT
1 TATCACTTT
41873841 ATCACTTGAT
Statistics
Matches: 235, Mismatches: 11, Indels: 19
0.89 0.04 0.07
Matches are distributed among these distances:
46 87 0.37
48 2 0.01
49 1 0.00
51 93 0.40
52 44 0.19
53 8 0.03
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (51 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:41873702 original size:46 final size:46
Alignment explanation
Indices: 41873637--41873854 Score: 287
Period size: 46 Copynumber: 4.7 Consensus size: 46
41873627 AGCTATCACT
*
41873637 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCTGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
41873681 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
41873727 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
41873773 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
41873825 TACCACTTATCACTTTATCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
41873855 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
44 8 0.05
45 4 0.03
46 102 0.66
48 1 0.01
50 1 0.01
52 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:41873712 original size:97 final size:99
Alignment explanation
Indices: 41873533--41873840 Score: 414
Period size: 97 Copynumber: 3.1 Consensus size: 99
41873523 TGTAGCTAGC
*
41873533 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCAC
1 TATCACTT-TCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TT--C
41873598 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
61 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
* *
41873637 TATCACTTTCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC-T-TTGTC
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTC
*
41873700 ACTTGATCAGATAAGTATAGCCGAAGCTATCACT
66 ACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
*
41873734 TATCACTTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TT---CT
** *
41873794 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
62 TGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
41873832 TATCACTTT
1 TATCACTTT
41873841 ATCACTTGAT
Statistics
Matches: 187, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
92 39 0.21
94 1 0.01
96 1 0.01
97 47 0.25
98 44 0.24
100 1 0.01
102 42 0.22
103 4 0.02
104 8 0.04
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (99 bp):
TATCACTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTC
ACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
Found at i:41873825 original size:52 final size:52
Alignment explanation
Indices: 41873727--41873840 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 52
41873717 TAGCCGAAGC
* **
41873727 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* * *
41873780 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
41873832 TATCACTTT
1 TATCACTTT
41873841 ATCACTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
52 43 0.80
53 11 0.20
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:41876327 original size:37 final size:37
Alignment explanation
Indices: 41876273--41876380 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
41876263 GAGAGATTTA
41876273 GCTA-ACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
41876309 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
41876346 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
41876381 ATCATACGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 11 0.17
36 8 0.12
37 47 0.71
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:41877755 original size:99 final size:99
Alignment explanation
Indices: 41877631--41877824 Score: 318
Period size: 99 Copynumber: 2.0 Consensus size: 99
41877621 ATGTGAACAT
*
41877631 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTCC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
*
41877696 GTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
66 GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
* * *
41877730 GTGA-TATGTGATTTCGTTGTAAGACCATAGCTGGGCTATGGCATCGGTATGTGATTTGTGATTA
1 GTGATTATGTGATTCCG-TGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTA
*
41877794 CGTGTAAGACCATAGTTGGACTATGGCATCG
65 CGTGTAAGACCATAGCTGGACTATGGCATCG
41877825 AGAAAATGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
98 11 0.12
99 77 0.88
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (99 bp):
GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATTAC
GTGTAAGACCATAGCTGGACTATGGCATCGGTAA
Found at i:41877772 original size:50 final size:49
Alignment explanation
Indices: 41877631--41877824 Score: 316
Period size: 49 Copynumber: 3.9 Consensus size: 49
41877621 ATGTGAACAT
41877631 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
41877681 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
41877730 GTGATATGTGATTTCGTTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCG-TGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
41877780 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
41877825 AGAAAATGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
49 87 0.64
50 50 0.36
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:41881069 original size:46 final size:46
Alignment explanation
Indices: 41880943--41881304 Score: 367
Period size: 46 Copynumber: 7.6 Consensus size: 46
41880933 TTTGAGTACT
* **
41880943 TCTGATCAAGT-ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
41880988 TCTGACAATGACAAGTG-GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTG---AT--CAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
41881038 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
41881084 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
41881130 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
41881182 TCTGTATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTG-ATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * **
41881235 TCTGATCAAGAAGA-CAA---ATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAG-TGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
41881278 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTG
41881305 GCTACACTTA
Statistics
Matches: 277, Mismatches: 21, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
42 3 0.01
43 35 0.13
45 10 0.04
46 95 0.34
47 2 0.01
48 2 0.01
49 1 0.00
50 37 0.13
52 41 0.15
53 51 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:41881110 original size:53 final size:51
Alignment explanation
Indices: 41881052--41881304 Score: 300
Period size: 53 Copynumber: 5.1 Consensus size: 51
41881042 ATCAAGTGAT
*
41881052 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
*
41881098 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
41881150 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGTATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTG-ATCAAGTGACAAGTG
*
41881202 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAA--G--AA--G
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
** *
41881248 ACAA---ATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-AAGTG
41881298 ATAAGTG
1 A-AAGTG
41881305 GCTACACTTA
Statistics
Matches: 180, Mismatches: 8, Indels: 31
0.82 0.04 0.14
Matches are distributed among these distances:
43 32 0.18
45 2 0.01
46 47 0.26
48 4 0.02
50 5 0.03
52 41 0.23
53 49 0.27
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:41881277 original size:43 final size:38
Alignment explanation
Indices: 41881211--41881374 Score: 178
Period size: 37 Copynumber: 4.3 Consensus size: 38
41881201 GAAAAGTGAT
*
41881211 AAGTGATAGCTTCGGCTATACTTATCTGATCAAGAAGACAAA
1 AAGTGATAG-TT-GGCTACACTTATCTGATCAAGAAGAC--A
*
41881253 TAAGTGATAGCTTTAGCTACACTTATCTGATCAAG-AGACA
1 -AAGTGATAG--TTGGCTACACTTATCTGATCAAGAAGACA
41881293 AAGTGATAAG-TGGCTACACTTATCTGATCAAGAA-ACA
1 AAGTGAT-AGTTGGCTACACTTATCTGATCAAGAAGACA
* *
41881330 AAGTGATAGGTGGCTACACTTATCTGATC-AG-GGAC-
1 AAGTGATAGTTGGCTACACTTATCTGATCAAGAAGACA
41881365 AAGTGATAGT
1 AAGTGATAGT
41881375 GATCATACGT
Statistics
Matches: 110, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
35 9 0.08
36 6 0.05
37 50 0.45
38 1 0.01
39 7 0.06
40 3 0.03
42 4 0.04
43 28 0.25
44 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (38 bp):
AAGTGATAGTTGGCTACACTTATCTGATCAAGAAGACA
Found at i:41882839 original size:11 final size:11
Alignment explanation
Indices: 41882802--41882854 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
41882792 GAGAAAGAGA
*
41882802 GAATGAGATGAT
1 GAATGA-ATGAG
41882814 GAATG-ATGA-
1 GAATGAATGAG
41882823 GAATGAATGAG
1 GAATGAATGAG
*
41882834 GAATGATTGAG
1 GAATGAATGAG
*
41882845 GGATGAATGA
1 GAATGAATGA
41882855 AGAAATGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 5 0.14
10 8 0.22
11 18 0.50
12 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.23
Consensus pattern (11 bp):
GAATGAATGAG
Found at i:41883441 original size:14 final size:16
Alignment explanation
Indices: 41883366--41883457 Score: 57
Period size: 15 Copynumber: 5.8 Consensus size: 16
41883356 TATAATTAAA
* *
41883366 TAAATATATCTTAATAA
1 TAAATATATATT-ATAT
* *
41883383 TAATTATCATAATATA-
1 TAAATAT-ATATTATAT
* *
41883399 TATATATATAATATAT
1 TAAATATATATTATAT
*
41883415 T-AATTTCATATTAT-T
1 TAAATAT-ATATTATAT
41883430 TAAATATA-ATTATAT
1 TAAATATATATTATAT
*
41883445 TAACTATATATTA
1 TAAATATATATTA
41883458 AAATATTATT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
14 5 0.08
15 22 0.37
16 20 0.34
17 9 0.15
18 3 0.05
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATATATATTATAT
Found at i:41883894 original size:23 final size:23
Alignment explanation
Indices: 41883866--41883911 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
41883856 CGGTGCTATC
41883866 TTGATTATGCACTTCCGTGTTGT
1 TTGATTATGCACTTCCGTGTTGT
* **
41883889 TTGATTATGTACTTTGGTGTTGT
1 TTGATTATGCACTTCCGTGTTGT
41883912 CATGTTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.11, G:0.24, T:0.52
Consensus pattern (23 bp):
TTGATTATGCACTTCCGTGTTGT
Found at i:41885639 original size:37 final size:37
Alignment explanation
Indices: 41885582--41885733 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
41885572 TATGATCACT
*
41885582 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
41885617 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
41885654 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
41885699 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
41885734 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:41885717 original size:46 final size:46
Alignment explanation
Indices: 41885650--41886015 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
41885640 TAAGTGTAGC
* **
41885650 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
41885696 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
41885742 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
41885794 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
41885846 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
41885892 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
41885938 TACTTATCACTTTCCACTTGTCACTTGAT-AGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
41885989 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
41886016 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 17, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
45 11 0.04
46 143 0.49
48 1 0.00
49 2 0.01
50 1 0.00
51 30 0.10
52 101 0.35
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:41885769 original size:52 final size:52
Alignment explanation
Indices: 41885693--41886009 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
41885683 TAGCTAAAGC
* *
41885693 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
41885746 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
41885798 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
41885850 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
41885896 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
41885942 TATCACTTTCCACTTGTCACTTGAT-AGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
41885993 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
41886010 ATCAGAAGTA
Statistics
Matches: 238, Mismatches: 16, Indels: 21
0.87 0.06 0.08
Matches are distributed among these distances:
46 84 0.35
47 2 0.01
48 2 0.01
51 30 0.13
52 108 0.45
53 12 0.05
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:41885958 original size:196 final size:195
Alignment explanation
Indices: 41885650--41886001 Score: 596
Period size: 196 Copynumber: 1.8 Consensus size: 195
41885640 TAAGTGTAGC
* * * * *
41885650 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
41885715 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGAT-AGATAAGT
* *
41885780 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
130 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
41885845 T
195 T
*
41885846 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
41885911 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATAGATAAGTG
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATAGATAAGTG
*
41885976 TAGCTAAAGCTACCACTTATCACTTT
131 TAGCCAAAGCTACCACTTATCACTTT
41886002 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
195 32 0.22
196 113 0.78
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (195 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATAGATAAGTG
TAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
Found at i:41885986 original size:51 final size:52
Alignment explanation
Indices: 41885889--41886001 Score: 140
Period size: 51 Copynumber: 2.2 Consensus size: 52
41885879 TAGCCGAAGC
* **
41885889 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* * *
41885942 TATCACTTTCCAC-TTGTCACTTGAT-AGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
41885993 TATCACTTT
1 TATCACTTT
41886002 ATCACTTGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 30 0.57
52 12 0.23
53 11 0.21
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:41890675 original size:37 final size:37
Alignment explanation
Indices: 41890625--41890700 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
41890615 GAATCCGTTT
*
41890625 GTGCATTAATTCACTTGTAACGTTCATGGTATGTTGG
1 GTGCATTAATTCACTTCTAACGTTCATGGTATGTTGG
* *
41890662 GTGCATTAATTCACTTCTGACGTTCATGGTATTTTGG
1 GTGCATTAATTCACTTCTAACGTTCATGGTATGTTGG
41890699 GT
1 GT
41890701 ACCTAAATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.14, G:0.24, T:0.42
Consensus pattern (37 bp):
GTGCATTAATTCACTTCTAACGTTCATGGTATGTTGG
Found at i:41892517 original size:40 final size:41
Alignment explanation
Indices: 41892468--41892571 Score: 138
Period size: 41 Copynumber: 2.6 Consensus size: 41
41892458 AACACACCAG
* * * *
41892468 ATTGGCACCCAGTGCCTCATCGGAT-AATTCAAAGTATTAA
1 ATTGACACCCAGTGCCTCATCGAATAAATCCAAAGTAATAA
*
41892508 ATTGACACCCAGTGCCTCATCGAATAAATCCGAAGTAATAA
1 ATTGACACCCAGTGCCTCATCGAATAAATCCAAAGTAATAA
* *
41892549 ATTGACACCCAATGGCTCATCGA
1 ATTGACACCCAGTGCCTCATCGA
41892572 CTCAAAGTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 23 0.41
41 33 0.59
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (41 bp):
ATTGACACCCAGTGCCTCATCGAATAAATCCAAAGTAATAA
Found at i:41893464 original size:21 final size:22
Alignment explanation
Indices: 41893427--41893475 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
41893417 CCCTTCGTCT
41893427 CCTTCTTTCTCCTTCTTTCTTTC
1 CCTT-TTTCTCCTTCTTTCTTTC
*
41893450 CCTTTTTCT-CTTCTTTCTTTT
1 CCTTTTTCTCCTTCTTTCTTTC
41893471 CCTTT
1 CCTTT
41893476 CTGTTTCATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
22 5 0.20
23 4 0.16
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
CCTTTTTCTCCTTCTTTCTTTC
Found at i:41897585 original size:22 final size:22
Alignment explanation
Indices: 41897558--41897603 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
41897548 GAGATCAACA
41897558 AAAATA-TAAACACATACATATC
1 AAAATATTAAACACAT-CATATC
* *
41897580 AAAATATTAATCTCATCATATC
1 AAAATATTAAACACATCATATC
41897602 AA
1 AA
41897604 TCATCATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATATTAAACACATCATATC
Found at i:41900570 original size:25 final size:26
Alignment explanation
Indices: 41900525--41900576 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
41900515 TTTAATACAT
*
41900525 ATATTAATAGTATTTTATTAAT-TTA
1 ATATTAATAGTATTATATTAATATTA
*
41900550 ATATTAA-AGTGATTATCTTAATATTA
1 ATATTAATAGT-ATTATATTAATATTA
41900576 A
1 A
41900577 ATTTAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATTAATAGTATTATATTAATATTA
Found at i:41902239 original size:33 final size:35
Alignment explanation
Indices: 41902202--41902278 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 35
41902192 TTTAATATGA
* *
41902202 AATTTAGTTTAATACTTAT-T-ATAGAATTTTATT
1 AATTTAATTTAATAATTATCTGATAGAATTTTATT
*
41902235 AATTTAATTTAATAATTATCGTGATAGTATTTTATT
1 AATTTAATTTAATAATTATC-TGATAGAATTTTATT
41902271 AATTTAAT
1 AATTTAAT
41902279 ATTAGAGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 17 0.45
35 1 0.03
36 20 0.53
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (35 bp):
AATTTAATTTAATAATTATCTGATAGAATTTTATT
Found at i:41902291 original size:20 final size:18
Alignment explanation
Indices: 41902266--41902318 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
41902256 TGATAGTATT
41902266 TTATTAATTTAATATTAGA
1 TTATTAATTTAATATTA-A
41902285 GTTATT-ATCTTAATATTAA
1 -TTATTAAT-TTAATATTAA
*
41902304 AT-TTAATTTAATATT
1 TTATTAATTTAATATT
41902319 TATCTTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 10 0.33
18 3 0.10
19 3 0.10
20 14 0.47
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TTATTAATTTAATATTAA
Found at i:41909383 original size:20 final size:20
Alignment explanation
Indices: 41909358--41909402 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
41909348 CTTCATTTAC
41909358 CTTATTATCAAACTTAATA-T
1 CTTATTA-CAAACTTAATAGT
* *
41909378 CTTATTACATACTTACTAGT
1 CTTATTACAAACTTAATAGT
41909398 CTTAT
1 CTTAT
41909403 CATTTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.33, C:0.18, G:0.02, T:0.47
Consensus pattern (20 bp):
CTTATTACAAACTTAATAGT
Found at i:41912226 original size:14 final size:15
Alignment explanation
Indices: 41912195--41912242 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
41912185 ATTTGAATAA
41912195 AAATAAAAACATTTATTT
1 AAATAAAAACA---ATTT
41912213 AAATAAAAAC-ATTT
1 AAATAAAAACAATTT
*
41912227 GAATAAAAACAATTT
1 AAATAAAAACAATTT
41912242 A
1 A
41912243 CAAAGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.48
15 4 0.15
18 10 0.37
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (15 bp):
AAATAAAAACAATTT
Found at i:41912233 original size:18 final size:18
Alignment explanation
Indices: 41912183--41912233 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
41912173 AAAACAATTT
41912183 ACATTTGAATAAAAATAAAA
1 ACATTTGAAT--AAATAAAA
*
41912203 ACATTT-ATTTAAATAAAA
1 ACATTTGA-ATAAATAAAA
41912221 ACATTTGAATAAA
1 ACATTTGAATAAA
41912234 AACAATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 18 0.67
19 2 0.07
20 7 0.26
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (18 bp):
ACATTTGAATAAATAAAA
Found at i:41915649 original size:17 final size:17
Alignment explanation
Indices: 41915627--41915660 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
41915617 TTAATCAAGG
41915627 AATTAAGAGATCAAAGA
1 AATTAAGAGATCAAAGA
41915644 AATTAAGAGATCAAAGA
1 AATTAAGAGATCAAAGA
41915661 TCGAGGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (17 bp):
AATTAAGAGATCAAAGA
Found at i:41918185 original size:19 final size:19
Alignment explanation
Indices: 41918161--41918199 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
41918151 CCAAAAGGAC
*
41918161 TTTTTATTTTTATTTGTAA
1 TTTTTAATTTTATTTGTAA
41918180 TTTTTAATTTTATTTGTAA
1 TTTTTAATTTTATTTGTAA
41918199 T
1 T
41918200 CAGAAGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTTTAATTTTATTTGTAA
Found at i:41925909 original size:9 final size:9
Alignment explanation
Indices: 41925898--41925982 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
41925888 TTTGGTTAAA
*
41925898 AATTAACCA
1 AATTAACCG
41925907 AATTAACCG
1 AATTAACCG
*
41925916 AATTAACTG
1 AATTAACCG
*
41925925 AATTACCCG
1 AATTAACCG
41925934 AATTAACCG
1 AATTAACCG
*
41925943 AATTACCCG
1 AATTAACCG
41925952 AATTAACCG
1 AATTAACCG
*
41925961 AATTAACTG
1 AATTAACCG
*
41925970 AATTAACCA
1 AATTAACCG
41925979 AATT
1 AATT
41925983 GAATCACTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:41934128 original size:22 final size:22
Alignment explanation
Indices: 41934094--41934136 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
41934084 TTTTCACTCA
41934094 AATTATTAATAT-ATCAAATTTT
1 AATTATTAATATAAT-AAATTTT
**
41934116 AATTATTTTTATAATAAATTT
1 AATTATTAATATAATAAATTT
41934137 ACATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATTAATATAATAAATTTT
Found at i:41938961 original size:20 final size:20
Alignment explanation
Indices: 41938936--41938979 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
41938926 ACACACGCTT
*
41938936 TCTCCCTCCTTCTCTCTCTC
1 TCTCCCTCCCTCTCTCTCTC
* *
41938956 TCTCCCTCCCTCTTTCTTTC
1 TCTCCCTCCCTCTCTCTCTC
41938976 TCTC
1 TCTC
41938980 TCTTATCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (20 bp):
TCTCCCTCCCTCTCTCTCTC
Found at i:41938964 original size:24 final size:24
Alignment explanation
Indices: 41938937--41938982 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
41938927 CACACGCTTT
41938937 CTCCCTCCTTCTCTCTCTCTCTCC
1 CTCCCTCCTTCTCTCTCTCTCTCC
* *
41938961 CTCCCTCTTTCTTTCTCTCTCT
1 CTCCCTCCTTCTCTCTCTCTCT
41938983 TATCTCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (24 bp):
CTCCCTCCTTCTCTCTCTCTCTCC
Found at i:41962339 original size:42 final size:42
Alignment explanation
Indices: 41962293--41962383 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
41962283 GGAAGTTCGT
* * *
41962293 AAGAGCTGAATGGAAACTAATAAGGGTTAAACAGAAGCACAA
1 AAGAGCTGAACGAAAACTAATAAGAGTTAAACAGAAGCACAA
* * * *
41962335 AAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGA
1 AAGAGCTGAACGAAAACTAATAAGAGTTAAACAGAAGCACAA
41962377 AAGAGCT
1 AAGAGCT
41962384 AAAAAGAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.47, C:0.14, G:0.23, T:0.15
Consensus pattern (42 bp):
AAGAGCTGAACGAAAACTAATAAGAGTTAAACAGAAGCACAA
Found at i:41964258 original size:25 final size:24
Alignment explanation
Indices: 41964196--41964266 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
41964186 GGATAGCCAT
* **
41964196 ATATCAGGAAGTTCA-AGTGAGCC
1 ATATCAGGAAGCTCACAAAGAGCC
41964219 ATATCAGGAAGCTCACAAAGAGCC
1 ATATCAGGAAGCTCACAAAGAGCC
* *
41964243 TATATCGGGATA-CTCATAAAGAGC
1 -ATATCAGGA-AGCTCACAAAGAGC
41964267 TGCAGTATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 14 0.35
24 6 0.15
25 19 0.47
26 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (24 bp):
ATATCAGGAAGCTCACAAAGAGCC
Found at i:41964605 original size:19 final size:19
Alignment explanation
Indices: 41964581--41964619 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
41964571 TTCAAACATA
41964581 TTAATATACATAATTTAGT
1 TTAATATACATAATTTAGT
41964600 TTAATATACATAATTTAGT
1 TTAATATACATAATTTAGT
41964619 T
1 T
41964620 ACACGAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATATACATAATTTAGT
Found at i:41973078 original size:20 final size:21
Alignment explanation
Indices: 41973033--41973095 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
41973023 ATTGGGTGGA
** * *
41973033 TCAGCTCTTACAAGTTTCTAT
1 TCAGCTCTTATGAGCTTCTGT
*
41973054 TCAGCTCTTA-GAGCTTTTGT
1 TCAGCTCTTATGAGCTTCTGT
41973074 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
41973095 T
1 T
41973096 GACGAAGTAC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:41974729 original size:22 final size:23
Alignment explanation
Indices: 41974688--41974734 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
41974678 ATTGCTAAAA
*
41974688 TATAATATCTCATAATAATATCC
1 TATAATATCCCATAATAATATCC
41974711 TATAATATCCCA-AATAATATCC
1 TATAATATCCCATAATAATATCC
41974733 TA
1 TA
41974735 ACAGGGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (23 bp):
TATAATATCCCATAATAATATCC
Found at i:41984878 original size:11 final size:11
Alignment explanation
Indices: 41984862--41984890 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
41984852 TATTCGAATT
41984862 TCGAGTTCGAA
1 TCGAGTTCGAA
41984873 TCGAGTTCGAA
1 TCGAGTTCGAA
41984884 TCGAGTT
1 TCGAGTT
41984891 GAGTTTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (11 bp):
TCGAGTTCGAA
Found at i:41985189 original size:31 final size:30
Alignment explanation
Indices: 41985130--41985189 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
41985120 CAACCTTTTA
*
41985130 TTTTCCCCCAAAATTTTTACTCTCTCCCAC
1 TTTTCCCCCAAAATTTTTACTCACTCCCAC
* * *
41985160 TTTTTCCCTAAAATTTTTATTCACTTCCCA
1 TTTTCCCCCAAAATTTTTACTCAC-TCCCA
41985190 TTCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (30 bp):
TTTTCCCCCAAAATTTTTACTCACTCCCAC
Found at i:41989032 original size:31 final size:31
Alignment explanation
Indices: 41988997--41989058 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
41988987 AATTAATTAG
41988997 TATTAAAT-GTTTTAACTTAAATCATTATATA
1 TATTAAATAGTTTTAA-TTAAATCATTATATA
* **
41989028 TATTAAATATTTTTAATTAAATTTTTATATA
1 TATTAAATAGTTTTAATTAAATCATTATATA
41989059 ATTTATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 21 0.78
32 6 0.22
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (31 bp):
TATTAAATAGTTTTAATTAAATCATTATATA
Found at i:41989070 original size:29 final size:32
Alignment explanation
Indices: 41988997--41989071 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 32
41988987 AATTAATTAG
*
41988997 TATTAAAT-GTTTTAACTTAAATCATTATATA
1 TATTAAATAATTTTAACTTAAATCATTATATA
* **
41989028 TATTAAATATTTTTAA-TTAAATTTTTATATA
1 TATTAAATAATTTTAACTTAAATCATTATATA
*
41989059 -ATT-TATAATTTTA
1 TATTAAATAATTTTA
41989072 GTTTGCATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 8 0.21
30 3 0.08
31 21 0.55
32 6 0.16
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (32 bp):
TATTAAATAATTTTAACTTAAATCATTATATA
Found at i:41989240 original size:18 final size:18
Alignment explanation
Indices: 41989208--41989248 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
41989198 TTTAAAAATT
*
41989208 TAATTTTAAATAATTAAA
1 TAATATTAAATAATTAAA
41989226 -AATATTAATATAATTAAA
1 TAATATTAA-ATAATTAAA
41989244 TAATA
1 TAATA
41989249 CTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATATTAAATAATTAAA
Found at i:41989265 original size:26 final size:27
Alignment explanation
Indices: 41989236--41989286 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
41989226 AATATTAATA
41989236 TAATTAAATAATACTTA-TATTTTTGG
1 TAATTAAATAATACTTATTATTTTTGG
*
41989262 TAATTAAATAATATTTATTATTTTT
1 TAATTAAATAATACTTATTATTTTT
41989287 ATGAAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
TAATTAAATAATACTTATTATTTTTGG
Found at i:41989431 original size:21 final size:21
Alignment explanation
Indices: 41989407--41989448 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
41989397 TTTTTAAATT
41989407 TAAA-ATAAATATTAAAATTAA
1 TAAATATAAAT-TTAAAATTAA
* *
41989428 TAAATTTAAATTTAGAATTAA
1 TAAATATAAATTTAAAATTAA
41989449 AGAAAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TAAATATAAATTTAAAATTAA
Found at i:41989538 original size:18 final size:17
Alignment explanation
Indices: 41989485--41989538 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 17
41989475 TGACGGATTT
*
41989485 TTATTAAAATTAAAATA
1 TTATTAAAATTAAATTA
41989502 TTATTTAAAATTGAAATTA
1 TTA-TTAAAATT-AAATTA
41989521 TTATTAAAATTAATATTA
1 TTATTAAAATTAA-ATTA
41989539 AAATATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 5 0.15
18 20 0.61
19 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TTATTAAAATTAAATTA
Found at i:41992288 original size:22 final size:22
Alignment explanation
Indices: 41992262--41992320 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
41992252 ATAAATTATA
*
41992262 ATGTATATAAAAATATATAAGT
1 ATGTATATAAAAATATATAAAT
*
41992284 ATGTATA-AATATATATATAAAT
1 ATGTATATAA-AAATATATAAAT
*
41992306 AAGT-TATAAAAATAT
1 ATGTATATAAAAATAT
41992321 GTACGTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
ATGTATATAAAAATATATAAAT
Found at i:41992293 original size:18 final size:19
Alignment explanation
Indices: 41992249--41992298 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
41992239 TATCGTTATG
41992249 TATATAAAT-TATAATGTA
1 TATATAAATATATAATGTA
*
41992267 TATAAAAATATATAA-GTA
1 TATATAAATATATAATGTA
*
41992285 TGTATAAATATATA
1 TATATAAATATATA
41992299 TATAAATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATATAAATATATAATGTA
Done.