Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 305 of 332
Found at i:100651928 original size:14 final size:14
Alignment explanation
Indices: 100651909--100651971 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
100651899 GAGTTGATTT
* *
100651909 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
100651923 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
100651938 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
*
100651952 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
100651965 TTGAAAA
1 TTGAAAA
100651972 GACCTCAGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 11 0.26
14 19 0.45
15 12 0.29
ACGTcount: A:0.62, C:0.05, G:0.13, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:100651944 original size:13 final size:13
Alignment explanation
Indices: 100651928--100651971 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
100651918 ATAAATTGAA
100651928 AAAACAGAAATTG
1 AAAACAGAAATTG
*
100651941 AAAAGCAGAAATTA
1 AAAA-CAGAAATTG
*
100651955 AAAACAGAATTTG
1 AAAACAGAAATTG
100651968 AAAA
1 AAAA
100651972 GACCTCAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 15 0.56
14 12 0.44
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.16
Consensus pattern (13 bp):
AAAACAGAAATTG
Found at i:100652122 original size:77 final size:74
Alignment explanation
Indices: 100651954--100652203 Score: 288
Period size: 75 Copynumber: 3.3 Consensus size: 74
100651944 AGCAGAAATT
* * * * *
100651954 AAAAACAGAATTTGAAAAGACCTCAGTGTGTGGCCTGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAAG-CCTCAGCGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAG
100652019 TTGATTTTTG
65 TTGATTTTTG
* * *
100652029 AAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAG
1 AAAAACAGAAATTGAAAA-GCCTCAGCGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAG
100652094 TTGATTCTTTTG
65 TTGA-T-TTTTG
* ** * * *
100652106 AAAAGCAGAAATTGAAAATAG-CTCAGCACGTGAGCAAAGGCTCAACTCACTTCTCGCAATATGA
1 AAAAACAGAAATTG-AAA-AGCCTCAGCGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGA
*
100652170 GTTGATTTTTA
64 GTTGATTTTTG
*
100652181 AAAAACAGAAATT-AAAAGGCTCA
1 AAAAACAGAAATTGAAAAGCCTCA
100652204 ACTCACCTCT
Statistics
Matches: 153, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
72 2 0.01
73 7 0.05
75 76 0.50
76 3 0.02
77 60 0.39
78 4 0.03
79 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (74 bp):
AAAAACAGAAATTGAAAAGCCTCAGCGTGTGACCAGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTG
Found at i:100652247 original size:54 final size:54
Alignment explanation
Indices: 100652141--100652251 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
100652131 GCACGTGAGC
* *
100652141 AAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAAAAATTA
* * **
100652195 AAAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAAAAGTAAAAATTA
1 AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAAAAATTA
100652249 AAA
1 AAA
100652252 ACATAGTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (54 bp):
AAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAAAAATTA
Found at i:100652371 original size:14 final size:14
Alignment explanation
Indices: 100652335--100652385 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
100652325 AGTTGATATT
* *
100652335 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
100652349 TTGAAAAAAACAGAAA
1 TTG--AAAAACAGAAA
*
100652365 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
100652379 TT-AAAAA
1 TTGAAAAA
100652386 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
16 12 0.39
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:100652400 original size:106 final size:105
Alignment explanation
Indices: 100652197--100652459 Score: 320
Period size: 106 Copynumber: 2.5 Consensus size: 105
100652187 AGAAATTAAA
* * * **
100652197 AGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTTGAAAAGTAAAAATT---AAAAACATAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAAATTGAAAAAAACAGAAA
* * * *
100652259 TTGAAAGACAGAATTTGAAAATACCTCGGCATGTGA-CTCG
66 TTGAAAGACAGAAATTAAAAAGACCTCAGCATGTGAGC-CG
* *
100652299 AGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTTGAAAAATATAAATTGAAAAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAATAAAAATTGAAAAAAACAGAA
100652364 ATTGAAA-AGCAGAAATTAAAAAGACCTCAGCATGTGAGCCG
65 ATTGAAAGA-CAGAAATTAAAAAGACCTCAGCATGTGAGCCG
* * * * *
100652405 AGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAAATTGAAA
100652460 TTACCTCAGC
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
102 31 0.22
103 16 0.12
105 20 0.14
106 70 0.51
107 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (105 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAAATTGAAAAAAACAGAAA
TTGAAAGACAGAAATTAAAAAGACCTCAGCATGTGAGCCG
Found at i:100652498 original size:73 final size:75
Alignment explanation
Indices: 100652365--100652609 Score: 325
Period size: 76 Copynumber: 3.3 Consensus size: 75
100652355 AAAACAGAAA
* * ** *
100652365 TTGA-AAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATA
1 TTGACAAA-CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
100652429 TGAGTT-A-ATTT
63 TGAGTTGATTTTT
* *
100652440 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
100652505 GTTGATTTTT
66 GTTGATTTTT
* * *
100652515 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
100652580 AGTTGATTTTT
65 AGTTGATTTTT
*
100652591 TTTACAAACAGAAATTGAA
1 TTGACAAACAGAAATTGAA
100652610 GAACAGAAAT
Statistics
Matches: 150, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
73 34 0.23
74 1 0.01
75 43 0.29
76 72 0.48
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (75 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:100652616 original size:14 final size:14
Alignment explanation
Indices: 100652597--100652623 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
100652587 TTTTTTTACA
100652597 AACAGAAATTGAAG
1 AACAGAAATTGAAG
100652611 AACAGAAATTGAA
1 AACAGAAATTGAA
100652624 AAGACCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AACAGAAATTGAAG
Found at i:100652669 original size:91 final size:87
Alignment explanation
Indices: 100652515--100652698 Score: 237
Period size: 91 Copynumber: 2.1 Consensus size: 87
100652505 GTTGATTTTT
* *
100652515 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
100652580 AGTTGATTTTTTTTACAAACAGAAA
66 AGTT-A-ATTTTTGAC-AACAGAAA
* * *
100652605 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGTAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
100652668 ATGAGTTAATTTTTGACAACAGAAA
63 ATGAGTTAATTTTTGACAACAGAAA
100652693 TTGAAA
1 TTGAAA
100652699 TTACCTCAGC
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
88 13 0.16
89 21 0.25
90 14 0.17
91 33 0.40
92 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTTTTGACAACAGAAA
Found at i:100652740 original size:71 final size:73
Alignment explanation
Indices: 100652611--100652754 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 73
100652601 GAAATTGAAG
*
100652611 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGTAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
100652676 ATTTTTGAC
65 ATTTTTGAC
** * * *
100652685 AACAGAAATTGAAATTACCTCAGC-GTG-TCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
1 AACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
100652748 TTTTTGA
66 TTTTTGA
100652755 AAATATAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 39 0.61
72 3 0.05
74 22 0.34
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (73 bp):
AACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTGAC
Found at i:100652827 original size:173 final size:176
Alignment explanation
Indices: 100652596--100652934 Score: 462
Period size: 174 Copynumber: 1.9 Consensus size: 176
100652586 TTTTTTTTAC
* * *
100652596 AAACAGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTC
1 AAACAGAAATTGAAGAACAAAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCA-CTC
** * *
100652661 TCGTAATATGAG-TT-AATTTTTGAC-AACAGAAATT-G-AAATTACCTCAGCGTGT-CCGAGGC
65 TCACAATATGAGTTTGAATTTTTGACAAACAGAAATTGGAAAAATA-CTCAGCGTGTACCAAGGC
*
100652720 TCAACTCACCTTTCGCAATATGAGTTGA-TTTTTGAAAATATAATTGAAA
129 TCAACTCACCTCTCGC-A-ATGAGTTGATTTTTTGAAAATATAATTGAAA
100652769 AAACAGAAATTTGAA-AAGCAAAAATTAAAAAGACCTCAGCAT-TGAGCCGAGACTCAACTCACT
1 AAACAGAAA-TTGAAGAA-CAAAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACT
* *
100652832 CTCACAATATGAGTTTGATTTTTTGACAAACAGAAATTGGAAAAATACTCAGCGTGTAAGCAAGG
64 CTCACAATATGAGTTTGAATTTTTGACAAACAGAAATTGGAAAAATACTCAGCGTGT-ACCAAGG
100652897 CTCAACTCACCTCTCGCAATGAGTTGATTTTTTGAAAA
128 CTCAACTCACCTCTCGCAATGAGTTGATTTTTTGAAAA
100652935 ATAGCATGTG
Statistics
Matches: 146, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
172 13 0.09
173 31 0.21
174 36 0.25
175 10 0.07
176 20 0.14
177 16 0.11
178 20 0.14
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (176 bp):
AAACAGAAATTGAAGAACAAAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACTCT
CACAATATGAGTTTGAATTTTTGACAAACAGAAATTGGAAAAATACTCAGCGTGTACCAAGGCTC
AACTCACCTCTCGCAATGAGTTGATTTTTTGAAAATATAATTGAAA
Found at i:100653303 original size:80 final size:82
Alignment explanation
Indices: 100653217--100653367 Score: 168
Period size: 72 Copynumber: 2.0 Consensus size: 82
100653207 ACATAAAGAA
* *
100653217 AAAAAAGAAATTAAAATAGAATTGAAA-ACCTCGACGTGTCC-GAGACTCAACTCACCTCTCGCA
1 AAAAAAGAAATTAAAACAGAATTGAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCA
100653280 ATATGAGTTGATTTTTT
66 ATATGAGTTGATTTTTT
*
100653297 AAAAAAG-------AA-A-AATTGAAATACCTC-AGCGTGTCC-GAGGCTCAACTCACCTCTCAC
1 AAAAAAGAAATTAAAACAGAATTGAAATACCTCGA-CGTGTCCTGAGGCTCAACTCACCTCTCGC
100653351 -ATATGAGTTGATTTTTT
65 AATATGAGTTGATTTTTT
100653368 TGAAAAATAG
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
71 26 0.39
72 32 0.48
73 2 0.03
80 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (82 bp):
AAAAAAGAAATTAAAACAGAATTGAAATACCTCGACGTGTCCTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTT
Found at i:100653367 original size:72 final size:72
Alignment explanation
Indices: 100653236--100653510 Score: 395
Period size: 71 Copynumber: 3.9 Consensus size: 72
100653226 ATTAAAATAG
* *
100653236 AATTGAAA-ACCTC-GACGTGTCC-GAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTA
1 AATTGAAATACCTCAG-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
100653298 AAAAAGAAA
65 AAAAA-AAA
*
100653307 AATTGAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCAC-ATATGAGTTGATTTTTTTG
1 AATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
* *
100653370 AAAAATAG
65 AAAAAAAA
100653378 AATTGAAATA-CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGA
1 AATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
* *
100653440 CAAACAA
66 AAAAAAA
100653447 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
100653511 TTTGAAAAAC
Statistics
Matches: 186, Mismatches: 9, Indels: 16
0.88 0.04 0.08
Matches are distributed among these distances:
69 18 0.10
70 14 0.08
71 96 0.52
72 53 0.28
73 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (72 bp):
AATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
AAAAAAA
Found at i:100653531 original size:14 final size:14
Alignment explanation
Indices: 100653512--100653544 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
100653502 TGATTTTTTT
100653512 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
100653526 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
100653539 TTGAAA
1 TTGAAA
100653545 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:100653666 original size:80 final size:83
Alignment explanation
Indices: 100653441--100653771 Score: 448
Period size: 80 Copynumber: 4.0 Consensus size: 83
100653431 TGATTTTGAC
*
100653441 AAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAA-TACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
100653505 TTTTTTTTTGAAAAACAGAAATTG
65 ----TTTTTCAAAAATAGAAA-TG
100653529 AAAACAGAAATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGA
1 -AAACAGAAATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
100653593 -TTTTCAAAAATA-AAATG
65 TTTTTCAAAAATAGAAATG
*
100653610 AAA-AGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTG-AAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
100653674 TTTTTCAAAACAT--AATTG
65 TTTTTCAAAA-ATAGAAATG
100653692 AAACAGAAATTGAAA-ACCTC-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AAACAGAAATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
100653754 TTTTGAAAAAGTAGAAAT
66 TTTTCAAAAA-TAGAAAT
100653772 TAAAAGGTTC
Statistics
Matches: 226, Mismatches: 7, Indels: 26
0.87 0.03 0.10
Matches are distributed among these distances:
78 1 0.00
79 17 0.08
80 92 0.41
81 13 0.06
82 22 0.10
83 20 0.09
88 3 0.01
89 49 0.22
90 9 0.04
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (83 bp):
AAACAGAAATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTCAAAAATAGAAATG
Found at i:100653670 original size:169 final size:161
Alignment explanation
Indices: 100653378--100653777 Score: 518
Period size: 160 Copynumber: 2.5 Consensus size: 161
100653368 TGAAAAATAG
*
100653378 AATTGAAATA-CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT----
1 AATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAA
* * * * *
100653437 -TGACA-AACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
66 ATAAAATAAAAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
100653499 AGTTGATTTTTTTTTGAAAAACAGAAATTGAAAACAGA
131 AGTTGA----TTTTT-AAAAACA-AAATTG-AAACAGA
100653537 AATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG-TGATTTTCAAA
1 AATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAA
*
100653601 AATAAAATGAAAAGAAATTGAAAATACCTCGGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
65 AATAAAAT-AAAAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
* *
100653666 TGAGTTGATTTTTCAAAACATAATTGAAACAGA
129 TGAGTTGATTTTTAAAAACAAAATTGAAACAGA
100653699 AATTGAAA-ACCTC-GCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
1 AATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-AAA
100653762 AAGTAGAAATTAAAAG
65 AA-TA-AAA-TAAAAG
100653778 GTTCAACCCC
Statistics
Matches: 216, Mismatches: 10, Indels: 26
0.86 0.04 0.10
Matches are distributed among these distances:
159 13 0.06
160 82 0.38
161 17 0.08
162 17 0.08
163 13 0.06
164 7 0.03
165 5 0.02
166 3 0.01
168 3 0.01
169 56 0.26
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (161 bp):
AATTGAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAA
ATAAAATAAAAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTAAAAACAAAATTGAAACAGA
Found at i:100653926 original size:68 final size:68
Alignment explanation
Indices: 100653787--100653956 Score: 229
Period size: 68 Copynumber: 2.5 Consensus size: 68
100653777 GGTTCAACCC
* *
100653787 CCTCTCGCAATATAGAGTTGATTCTTGAAAACAAAATTGAATACCTCAGCGTGTCCTGAGGCTCA
1 CCTCTCGCAATAT-GAGTTGA-TATTAAAAACAAAATTGAATACCTCAGCGTGTCCTGAGGCTCA
100653852 ACTCA
64 ACTCA
100653857 CCTCTCGCAATATGAGTTGA-ATTAAAACACAAAATTGAAAATACCTCAGCGTG-CC-GAGGCTC
1 CCTCTCGCAATATGAGTTGATATTAAAA-ACAAAATTG--AATACCTCAGCGTGTCCTGAGGCTC
100653919 AACTCA
63 AACTCA
* *
100653925 CCTCTAGCAATATGAGTTGATTTTGAAAAACA
1 CCTCTCGCAATATGAGTTGATATT-AAAAACA
100653957 TAAAAATTAA
Statistics
Matches: 91, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
67 5 0.05
68 41 0.45
69 14 0.15
70 31 0.34
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (68 bp):
CCTCTCGCAATATGAGTTGATATTAAAAACAAAATTGAATACCTCAGCGTGTCCTGAGGCTCAAC
TCA
Found at i:100654118 original size:70 final size:75
Alignment explanation
Indices: 100654004--100654210 Score: 223
Period size: 70 Copynumber: 2.8 Consensus size: 75
100653994 AGTCAAAAAC
* ** * *
100654004 TAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCA-CTCTAGCAATATGAGTTGATTTT-G-AA-
1 TAAAAATACCTCAACGTGTACTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTAGAAAT
*
100654065 AACAAC-AAT
66 AAAAACAAAT
100654074 TAAAAATACCTCAAAC-TGT-CTTGAGGCTCAACTCATCT-TCGCAATAATGAGTTGATTTTAGG
1 TAAAAATACCTC-AACGTGTAC-TGAGGCTCAACTCATCTCTCGCAAT-ATGAGTTGATTTTA-G
100654136 AAATTGAAAAACAAAT
62 AAA-T-AAAAACAAAT
* *
100654152 TGAAAATACCTCGACGTGTGACTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
1 TAAAAATACCTCAACGTGT-ACTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTT
100654211 CCTTGAAAAG
Statistics
Matches: 115, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
69 1 0.01
70 33 0.29
71 17 0.15
73 1 0.01
74 2 0.02
77 7 0.06
78 17 0.15
79 29 0.25
80 8 0.07
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (75 bp):
TAAAAATACCTCAACGTGTACTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTAGAAAT
AAAAACAAAT
Found at i:100662574 original size:16 final size:15
Alignment explanation
Indices: 100662553--100662600 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
100662543 GATGTGAATA
100662553 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
100662569 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
100662584 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
100662600 A
1 A
100662601 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:100662576 original size:24 final size:24
Alignment explanation
Indices: 100662549--100662604 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
100662539 TAATGATGTG
*
100662549 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
100662573 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
100662597 AATAATAA
1 AATAATAA
100662605 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:100662583 original size:8 final size:8
Alignment explanation
Indices: 100662549--100662600 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
100662539 TAATGATGTG
*
100662549 AATAATAA
1 AATATTAA
100662557 AATATATAA
1 AATAT-TAA
100662566 AATA-TAA
1 AATATTAA
100662573 AATATTAA
1 AATATTAA
*
100662581 AATATCAA
1 AATATTAA
*
100662589 AATATTAG
1 AATATTAA
100662597 AATA
1 AATA
100662601 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:100662780 original size:25 final size:25
Alignment explanation
Indices: 100662752--100662800 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
100662742 CGTGATAATA
**
100662752 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
100662777 TTAAAAATACATACATAATATAGT
1 TTAAAAATACATACATAATATAGT
100662801 TAAGATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:100662844 original size:28 final size:27
Alignment explanation
Indices: 100662805--100662864 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
100662795 TATAGTTAAG
*
100662805 ATATATACATAAGATAACATGTAAAAAT
1 ATATATAAATAAGATAACAT-TAAAAAT
* * *
100662833 ATATATAAATAATATAATATTAAAGAT
1 ATATATAAATAAGATAACATTAAAAAT
100662860 ATATA
1 ATATA
100662865 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.39
28 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (27 bp):
ATATATAAATAAGATAACATTAAAAAT
Found at i:100662869 original size:25 final size:25
Alignment explanation
Indices: 100662746--100662962 Score: 120
Period size: 23 Copynumber: 9.0 Consensus size: 25
100662736 TAAATACGTG
* *
100662746 ATAATATTAAAAATATGTACATAAT
1 ATAATATTAAAGATATATACATAAT
* * * *
100662771 ATAGTGTTAAAAATACATACATAAT
1 ATAATATTAAAGATATATACATAAT
* *
100662796 AT-A-GTT-AAGATATATACATAAG
1 ATAATATTAAAGATATATACATAAT
* * *
100662818 ATAACATGTAAAAATATATATAAATAAT
1 ATAATAT-T--AAAGATATATACATAAT
*
100662846 ATAATATTAAAGATATATACATAAA
1 ATAATATTAAAGATATATACATAAT
* * *
100662871 ATAGTA-T-AATATATATACGTAAT
1 ATAATATTAAAGATATATACATAAT
* *
100662894 ATAGA-ATTTAA-A-ATATACCTAAT
1 ATA-ATATTAAAGATATATACATAAT
*
100662917 AT-AT-TAAAAGA-ATAT-CTATAAT
1 ATAATATTAAAGATATATAC-ATAAT
*
100662939 ATAATATT-AAGAAATATA-ATAAT
1 ATAATATTAAAGATATATACATAAT
100662962 A
1 A
100662963 ACAAAAAAGG
Statistics
Matches: 150, Mismatches: 26, Indels: 34
0.71 0.12 0.16
Matches are distributed among these distances:
21 5 0.03
22 26 0.17
23 45 0.30
24 9 0.06
25 45 0.30
27 1 0.01
28 19 0.13
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (25 bp):
ATAATATTAAAGATATATACATAAT
Found at i:100662907 original size:75 final size:75
Alignment explanation
Indices: 100662752--100662910 Score: 180
Period size: 75 Copynumber: 2.1 Consensus size: 75
100662742 CGTGATAATA
* * * * *
100662752 TTAAAA-ATATGTACATAATATAGTGTTAAAAATACATACATAATATAGTTAAGATATATACATA
1 TTAAAATATATATAAATAATATAATATTAAAAATACATACATAAAATAGTTAAGATATATACATA
100662816 AGATAACATG
66 AGATAACATG
* * * * *
100662826 TAAAAATATATATAAATAATATAATATTAAAGATATATACATAAAATAGTATAATATATATACGT
1 TTAAAATATATATAAATAATATAATATTAAAAATACATACATAAAATAGT-TAAGATATATACAT
*
100662891 AATATAGA-AT-
65 AAGATA-ACATG
100662901 TTAAAATATA
1 TTAAAATATA
100662911 CCTAATATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
74 5 0.07
75 45 0.64
76 19 0.27
77 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (75 bp):
TTAAAATATATATAAATAATATAATATTAAAAATACATACATAAAATAGTTAAGATATATACATA
AGATAACATG
Found at i:100663486 original size:30 final size:30
Alignment explanation
Indices: 100663450--100663564 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
100663440 TAGGTACAAG
* *
100663450 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
100663480 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
100663510 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
100663540 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
100663565 TGAGAAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:100663843 original size:39 final size:38
Alignment explanation
Indices: 100663754--100663852 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 38
100663744 TACAACAGAA
*
100663754 ATTAAAGTGAATAAGATTTATTCCTGATTCACTAGAAAT
1 ATTAAAGTGAATAGGATTT-TTCCTGATTCACTAGAAAT
*
100663793 ATATAAAGTGAATAGGATTTTTCCTGATTCACTATGGTAA-
1 AT-TAAAGTGAATAGGATTTTTCCTGATTCACTA--GAAAT
* *
100663833 CTTAAGGTGAATAGGATTTT
1 ATTAAAGTGAATAGGATTTT
100663853 CCCTAAAATG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
39 33 0.62
40 17 0.32
41 3 0.06
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.37
Consensus pattern (38 bp):
ATTAAAGTGAATAGGATTTTTCCTGATTCACTAGAAAT
Found at i:100665519 original size:42 final size:42
Alignment explanation
Indices: 100665456--100665565 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 42
100665446 CATAATTCAA
* * * *
100665456 CTATGATCTTATACATCTTCACATAAT-GATGTCATAGCCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAGCCCAG
100665498 CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
100665540 CTATGGTCTTACACGA-A-TCACATATC
1 CTATGGTCTTACAC-ATATTCACATATC
100665566 TCACTGATGC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 11 0.18
42 50 0.81
43 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAGCCCAG
Found at i:100665663 original size:48 final size:47
Alignment explanation
Indices: 100665524--100665717 Score: 185
Period size: 48 Copynumber: 4.0 Consensus size: 47
100665514 ATTCACATAT
* * * *
100665524 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACAC
* * * ** *
100665570 TGATGCCATATCCGAGATATGGTCTTATACAGTTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTATAC-GGAAGCACATATCACAC
*
100665618 CGATGCCATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTC
1 CGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACAT-ATCACA-----C
*
100665671 CGATGCCATAGCCCA-ACTATGGTCTTATACGGAAATCACATATCACA
1 CGATGCCATAGCCCAGA-TATGGTCTTATACGG-AAGCACATATCACA
100665718 TGTTGCCATG
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
46 25 0.21
47 7 0.06
48 45 0.37
52 1 0.01
53 36 0.30
54 7 0.06
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
CGATGCCATAGCCCAGATATGGTCTTATACGGAAGCACATATCACAC
Found at i:100665695 original size:53 final size:53
Alignment explanation
Indices: 100665556--100665718 Score: 160
Period size: 53 Copynumber: 3.1 Consensus size: 53
100665546 TCTTACACGA
* * * * ** *
100665556 ATCACATATCTCACTGATGCCATATCCGAGATATGGTCTTATACAGTTAGCATAT
1 ATCACATCTCTC-C-GATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT
*
100665611 ATCACA-----CCGATGCCATATCCCAGATATGGTCTTATACGG-AAGCACAT
1 ATCACATCTCTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT
*
100665658 AATCACATCTCTCCGATGCCATAGCCCA-ACTATGGTCTTATACGGAAATCACAT
1 -ATCACATCTCTCCGATGCCATAGCCCAGA-TATGGTCTTATACGGAAAGCACAT
100665712 ATCACAT
1 ATCACAT
100665719 GTTGCCATGG
Statistics
Matches: 94, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
47 6 0.06
48 35 0.37
49 1 0.01
50 1 0.01
52 1 0.01
53 37 0.39
54 7 0.07
55 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (53 bp):
ATCACATCTCTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAAGCACAT
Found at i:100665714 original size:101 final size:101
Alignment explanation
Indices: 100665555--100665856 Score: 263
Period size: 103 Copynumber: 3.0 Consensus size: 101
100665545 GTCTTACACG
* * * * ** * *
100665555 AATCACATATCTCACTGATGCCATATCCGAGA-TATGGTCTTATACAGTTAGCATATATCACACC
1 AATCACATCTCTC-C-GATGCCATAGCCCA-ACTATGGTCTTATACGGAAATCACATATCACA-C
* *
100665619 GATGCCAT-ATCCCAGA-TATGGTCTTATACG-GAA-GCACAT
62 GATGCCATGAT-CCA-ACCATGGTCTTATACGTCAATG-ACAT
* *
100665658 AATCACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGTTG
1 AATCACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACACGATG
* * * * *
100665723 CCATGGTCCAACCATGGTCTTTTCCGTCAATTTGTCTT
66 CCATGATCCAACCATGGTCTTATACGTCAA--TGACAT
** * * *
100665761 AGCCACATCTCTCCGATGCCATAGCCTAACTATGGTCTTATACGGAAATCACATATCACATGTTG
1 AATCACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACACGATG
* * *
100665826 CCATGGTCCAACCATGGTCTTTTTCGTCAAT
66 CCATGATCCAACCATGGTCTTATACGTCAAT
100665857 TCGTCTTAGC
Statistics
Matches: 171, Mismatches: 21, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
99 1 0.01
100 22 0.13
101 41 0.24
102 1 0.01
103 105 0.61
104 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (101 bp):
AATCACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACACGATG
CCATGATCCAACCATGGTCTTATACGTCAATGACAT
Found at i:100665734 original size:47 final size:47
Alignment explanation
Indices: 100665674--100665846 Score: 125
Period size: 47 Copynumber: 3.5 Consensus size: 47
100665664 ATCTCTCCGA
* *
100665674 TGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGT
1 TGCCATAGTCCAACCATGGTCTTATACGGAAATCACATATCACATGT
* * * * * * * *
100665721 TGCCATGGTCCAACCATGGTCTTTTCCGTCAATTTGTCTTAGCCACATCTC-TCCGA
1 TGCCATAGTCCAACCATGGTCTTATACG-GAA---ATC--A--CATATCACAT--GT
*
100665777 TGCCATAG-CCTAACTATGGTCTTATACGGAAATCACATATCACATGT
1 TGCCATAGTCC-AACCATGGTCTTATACGGAAATCACATATCACATGT
*
100665824 TGCCATGGTCCAACCATGGTCTT
1 TGCCATAGTCCAACCATGGTCTT
100665847 TTTCGTCAAT
Statistics
Matches: 92, Mismatches: 21, Indels: 26
0.66 0.15 0.19
Matches are distributed among these distances:
47 42 0.46
48 10 0.11
49 1 0.01
50 1 0.01
51 2 0.02
52 2 0.02
53 1 0.01
54 1 0.01
55 10 0.11
56 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (47 bp):
TGCCATAGTCCAACCATGGTCTTATACGGAAATCACATATCACATGT
Found at i:100665781 original size:103 final size:103
Alignment explanation
Indices: 100665661--100665869 Score: 391
Period size: 103 Copynumber: 2.0 Consensus size: 103
100665651 AGCACATAAT
100665661 CACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGTTGCCA
1 CACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGTTGCCA
*
100665726 TGGTCCAACCATGGTCTTTTCCGTCAATTTGTCTTAGC
66 TGGTCCAACCATGGTCTTTTCCGTCAATTCGTCTTAGC
*
100665764 CACATCTCTCCGATGCCATAGCCTAACTATGGTCTTATACGGAAATCACATATCACATGTTGCCA
1 CACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGTTGCCA
*
100665829 TGGTCCAACCATGGTCTTTTTCGTCAATTCGTCTTAGC
66 TGGTCCAACCATGGTCTTTTCCGTCAATTCGTCTTAGC
100665867 CAC
1 CAC
100665870 TGAACGAAAG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (103 bp):
CACATCTCTCCGATGCCATAGCCCAACTATGGTCTTATACGGAAATCACATATCACATGTTGCCA
TGGTCCAACCATGGTCTTTTCCGTCAATTCGTCTTAGC
Found at i:100667435 original size:10 final size:10
Alignment explanation
Indices: 100667420--100667451 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
100667410 TAGCTGATGA
100667420 AAATGAAGAG
1 AAATGAAGAG
100667430 AAATGAAGAG
1 AAATGAAGAG
*
100667440 AATTGAAGAG
1 AAATGAAGAG
100667450 AA
1 AA
100667452 TTCTAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.12
Consensus pattern (10 bp):
AAATGAAGAG
Found at i:100668085 original size:73 final size:73
Alignment explanation
Indices: 100667997--100668135 Score: 208
Period size: 73 Copynumber: 1.9 Consensus size: 73
100667987 GGAATAACTT
* * * *
100667997 TTTATTGGTTTGTGTAAATCATGACAGGTGTTAGACTATCGAGACT-TACTTGAAAATATAAATT
1 TTTATTGGTTGGTGTAAACCATGACACGTGTTAGACTATCAAGA-TATACTTGAAAATATAAATT
100668061 AGATTCCTC
65 AGATTCCTC
**
100668070 TTTATTGGTTGGTGTAAACCATGACACGTGTTAGGTTATCAAGATATACTTGAAAATATAAATTA
1 TTTATTGGTTGGTGTAAACCATGACACGTGTTAGACTATCAAGATATACTTGAAAATATAAATTA
100668135 G
66 G
100668136 TTGATAGTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 1 0.02
73 58 0.98
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (73 bp):
TTTATTGGTTGGTGTAAACCATGACACGTGTTAGACTATCAAGATATACTTGAAAATATAAATTA
GATTCCTC
Found at i:100673084 original size:105 final size:105
Alignment explanation
Indices: 100672911--100673222 Score: 376
Period size: 105 Copynumber: 3.0 Consensus size: 105
100672901 ACCCAAAAAT
* * * ** *
100672911 AATACATGCAGATACACAAATATGCAAAACAAAGTGTATAAAAGCTATAAGTCTATTTTATTAT-
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATATAAAA-CTATGAGTCTACATCATTATA
100672975 ACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAGTCCA
65 ACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAGTCCA
* * * *
100673016 AATACATGGAGATACACAATTATGCAAAGCAAAGTATACAAAACTATGAGCCTACATCATTATAA
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATATAAAACTATGAGTCTACATCATTATAA
* * * * ** *
100673081 CCTTGGAAAAAAGATCCATGCAATCGCCACAAAGAATCCA
66 CCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAGTCCA
* * *
100673121 AATTCATGGAGATACACAAATATGCAAAACAAAGGATATAAAACTATTGAGTCTGCA-CTATTAT
1 AATACATGGAGATACACAAATATGCAAAACAAAGTATATAAAACTA-TGAGTCTACATC-ATTAT
* **
100673185 AACCTTGGGGAAAAGAGCCCTGCAGCCACCACAATTAG
64 AACCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAG
100673223 GGGAGAAGAA
Statistics
Matches: 170, Mismatches: 34, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
104 15 0.09
105 114 0.67
106 41 0.24
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (105 bp):
AATACATGGAGATACACAAATATGCAAAACAAAGTATATAAAACTATGAGTCTACATCATTATAA
CCTTGGGAAAAAGAGCCCTGCAATCACCACAATTAGTCCA
Found at i:100674674 original size:12 final size:12
Alignment explanation
Indices: 100674657--100674681 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100674647 TTATTTTTTT
100674657 ATTAAAATATTA
1 ATTAAAATATTA
100674669 ATTAAAATATTA
1 ATTAAAATATTA
100674681 A
1 A
100674682 ATTTTAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTAAAATATTA
Found at i:100675821 original size:15 final size:15
Alignment explanation
Indices: 100675801--100675831 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100675791 AGCAATAACT
*
100675801 ATGGTTGCACGTTAG
1 ATGGTTGCACATTAG
100675816 ATGGTTGCACATTAG
1 ATGGTTGCACATTAG
100675831 A
1 A
100675832 AGGCACCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (15 bp):
ATGGTTGCACATTAG
Found at i:100677206 original size:48 final size:48
Alignment explanation
Indices: 100677127--100677220 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
100677117 AGGGAATTCT
* *
100677127 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
100677175 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
100677221 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:100679720 original size:48 final size:48
Alignment explanation
Indices: 100679641--100679734 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
100679631 AGGGAATTCT
* *
100679641 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
100679689 GTTGAATCCATTATTGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCATTATTGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
100679735 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCATTATTGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:100683822 original size:4 final size:4
Alignment explanation
Indices: 100683813--100683837 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
100683803 GGATTGCTTG
100683813 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
100683838 CCAGTCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:100696934 original size:127 final size:127
Alignment explanation
Indices: 100696708--100696954 Score: 413
Period size: 127 Copynumber: 1.9 Consensus size: 127
100696698 TAAAAGGGAT
*
100696708 GAAACTTAAAAGGGAAATCTGATTATTTAGACAAACGAAAGAACGAAACCCAACACATTAGGGCA
1 GAAACTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGAACGAAACCCAACACATTAGGGCA
* * * *
100696773 CGATCTCTTGAATTTCTAAGCATCAAACATCGCCTTTGTTTCATGGTTTAGAAAATGAGGAC
66 CGATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAATGAGGAC
* * * *
100696835 GAAACTTTAAAGGGAAGTTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGGGCA
1 GAAACTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGAACGAAACCCAACACATTAGGGCA
100696900 CGATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAA
66 CGATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAA
100696955 CGCGGACAAA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
127 111 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (127 bp):
GAAACTTAAAAGGGAAATCTGATTATTTAAACAAACGAAAGAACGAAACCCAACACATTAGGGCA
CGATCCCTCGAATTTCTAAACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAATGAGGAC
Found at i:100697049 original size:128 final size:126
Alignment explanation
Indices: 100696727--100697057 Score: 364
Period size: 127 Copynumber: 2.6 Consensus size: 126
100696717 AAGGGAAATC
* * *
100696727 TGATTATTTAGACAAACGAAAGAA-CGAAACCCAACACATTAGGGCACGATCTCTTGAATTTCTA
1 TGATCATTTAAACAAACGAAA-AATCGAAACCCAACACATTAGGGCACGATCTCTCGAATTTCTA
* * * * *
100696791 AGCATCAAACATCGCCTTTGTTTCATGGTTTAGAAAATGAGGACGAAACTTTAAAGGGAAGTT
65 AACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAACGAGGACGAAAATTTAAA-GAAAGTT
* * *
100696854 TGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGGGCACGATCCCTCGAATTTCTAA
1 TGATCATTTAAACAAACGAAAAATCGAAACCCAACACATTAGGGCACGATCTCTCGAATTTCTAA
*
100696919 ACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAACGCGGAC-AAAATTCTAAA-AAAGGTGCT
66 ACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAACGAGGACGAAAATT-TAAAGAAA-GT--T
* *** * * * * * *
100696982 T-AGTCGTTTGGTCAAACGAAAAATCGAAACACAGCACATTAGAGCACGATTTCGCGAATTTCCA
1 TGA-TCATTTAAACAAACGAAAAATCGAAACCCAACACATTAGGGCACGATCTCTCGAATTTCTA
*
100697046 AACATGAAACAT
65 AACATCAAACAT
100697058 TACCTTGTTC
Statistics
Matches: 174, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
125 2 0.01
126 8 0.05
127 103 0.59
128 61 0.35
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (126 bp):
TGATCATTTAAACAAACGAAAAATCGAAACCCAACACATTAGGGCACGATCTCTCGAATTTCTAA
ACATCAAACATCGCCTTTGTTTCAAGGTTTAGAAAACGAGGACGAAAATTTAAAGAAAGTT
Found at i:100699222 original size:29 final size:29
Alignment explanation
Indices: 100699182--100699256 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
100699172 AAAATATATT
*
100699182 TAAAACAA-ATATTAAAACAAGAAACAAA
1 TAAAAAAATATATTAAAACAAGAAACAAA
* *
100699210 TAAAAAAATATATTAAAACAATACACAAA
1 TAAAAAAATATATTAAAACAAGAAACAAA
* *
100699239 TTAAAAAATATAATAAAA
1 TAAAAAAATATATTAAAA
100699257 ATTGATTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 7 0.17
29 34 0.83
ACGTcount: A:0.71, C:0.08, G:0.01, T:0.20
Consensus pattern (29 bp):
TAAAAAAATATATTAAAACAAGAAACAAA
Found at i:100711815 original size:21 final size:21
Alignment explanation
Indices: 100711789--100711829 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100711779 AGACAAGCGA
* *
100711789 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
100711810 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
100711830 TTGAACAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:100716100 original size:24 final size:23
Alignment explanation
Indices: 100716042--100716102 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
100716032 CGATACGTAT
*
100716042 ATATATAACTTTAAAAATTATAAA
1 ATATATAA-TTTAATAATTATAAA
* *
100716066 A-ATATATTTTAATAATATGTAAA
1 ATATATAATTTAATAAT-TATAAA
100716089 ATATATAATTTAAT
1 ATATATAATTTAAT
100716103 TCTCGATCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 8 0.26
23 11 0.35
24 12 0.39
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATATAATTTAATAATTATAAA
Found at i:100724741 original size:13 final size:13
Alignment explanation
Indices: 100724719--100724752 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
100724709 TGATAGTTTG
100724719 GTATGAATTTATAT
1 GTATG-ATTTATAT
*
100724733 GTATGATTTGTAT
1 GTATGATTTATAT
100724746 GTATGAT
1 GTATGAT
100724753 GTGCTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
GTATGATTTATAT
Found at i:100725204 original size:16 final size:17
Alignment explanation
Indices: 100725180--100725213 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
100725170 TGTTTTCACA
100725180 TGGCCAAGTCA-AATTG
1 TGGCCAAGTCAGAATTG
*
100725196 TGGCTAAGTCAGAATTG
1 TGGCCAAGTCAGAATTG
100725213 T
1 T
100725214 CTACAGGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (17 bp):
TGGCCAAGTCAGAATTG
Found at i:100726201 original size:16 final size:16
Alignment explanation
Indices: 100726180--100726210 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100726170 GGAAGGAAAG
100726180 ATGAAGAATTCTCATA
1 ATGAAGAATTCTCATA
100726196 ATGAAGAATTCTCAT
1 ATGAAGAATTCTCAT
100726211 CATCTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
ATGAAGAATTCTCATA
Found at i:100728373 original size:46 final size:46
Alignment explanation
Indices: 100728302--100728625 Score: 479
Period size: 46 Copynumber: 7.0 Consensus size: 46
100728292 GTGTGCTTTT
*
100728302 TGACATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACA
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* ** *
100728348 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
100728394 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
100728440 TGACATGAAATGAATAAGACCATGGTTGAAAGATACGATAGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
100728486 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGACAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
**
100728532 TGACATGAAATGAACGAGACCATGGTTGAAAGATACCATGGCAACA
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
100728578 TGACA-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGACATGAAA-TGAATAAGACCATGGTTGAAAGATACCATGGCAACA
100728624 TG
1 TG
100728626 TCTAAGATAA
Statistics
Matches: 251, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 247 0.98
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:100728766 original size:26 final size:26
Alignment explanation
Indices: 100728709--100728758 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
100728699 TCAAATGATG
* *
100728709 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAGTGGTTATACAA
100728735 AATGGTTGTATGAAGT-GTT-TACAA
1 AATGGTTGTATGAAGTGGTTATACAA
100728759 GAATTGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (26 bp):
AATGGTTGTATGAAGTGGTTATACAA
Found at i:100734510 original size:3 final size:3
Alignment explanation
Indices: 100734502--100734526 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100734492 ATTTATTTAT
100734502 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
100734527 ACTTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:100734648 original size:20 final size:20
Alignment explanation
Indices: 100734623--100734686 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
100734613 TTTTATTTGT
100734623 ATTAATTAGAATATTTTATA
1 ATTAATTAGAATATTTTATA
* **
100734643 ATTAATT--ATTA-AGTA-A
1 ATTAATTAGAATATTTTATA
*
100734659 GTTAATTAGAATATTTTATA
1 ATTAATTAGAATATTTTATA
100734679 ATTAATTA
1 ATTAATTA
100734687 TTAAGTAAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
16 7 0.22
17 2 0.06
18 6 0.19
19 2 0.06
20 15 0.47
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (20 bp):
ATTAATTAGAATATTTTATA
Found at i:100734664 original size:36 final size:36
Alignment explanation
Indices: 100734624--100734696 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
100734614 TTTATTTGTA
100734624 TTAATTAGAATATTTTATAATTAATTATTAAGTAAG
1 TTAATTAGAATATTTTATAATTAATTATTAAGTAAG
100734660 TTAATTAGAATATTTTATAATTAATTATTAAGTAAG
1 TTAATTAGAATATTTTATAATTAATTATTAAGTAAG
100734696 T
1 T
100734697 AAATGAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (36 bp):
TTAATTAGAATATTTTATAATTAATTATTAAGTAAG
Found at i:100741636 original size:27 final size:26
Alignment explanation
Indices: 100741599--100741710 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
100741589 AGCATGGCTG
* *
100741599 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
100741625 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
100741653 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
100741680 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
100741707 CCAG
1 CCAG
100741711 GACGGTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:100741691 original size:54 final size:54
Alignment explanation
Indices: 100741599--100741710 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
100741589 AGCATGGCTG
* * *
100741599 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
100741653 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
100741707 CCAG
1 CCAG
100741711 GACGGTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:100749147 original size:27 final size:26
Alignment explanation
Indices: 100749112--100749223 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
100749102 AGCATGGCTG
* *
100749112 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
100749138 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
100749166 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
100749193 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
100749220 CCAG
1 CCAG
100749224 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:100749204 original size:54 final size:54
Alignment explanation
Indices: 100749112--100749223 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
100749102 AGCATGGCTG
* *
100749112 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
100749166 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
100749220 CCAG
1 CCAG
100749224 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:100749367 original size:25 final size:24
Alignment explanation
Indices: 100749322--100749372 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
100749312 TCAGACAAAA
* *
100749322 TTAACCCTAGGGTATATTGGTCAT
1 TTAAACCTAGGGTATATTGGTAAT
100749346 TTAAACCTAGGGGTATCA-TGGTAAT
1 TTAAACCTA-GGGTAT-ATTGGTAAT
100749371 TT
1 TT
100749373 CCCATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 14 0.61
26 1 0.04
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (24 bp):
TTAAACCTAGGGTATATTGGTAAT
Found at i:100752321 original size:44 final size:45
Alignment explanation
Indices: 100752249--100752356 Score: 128
Period size: 44 Copynumber: 2.4 Consensus size: 45
100752239 TGTCTTTGAC
** * * *
100752249 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTATAAT
* * *
100752293 ATGTACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA-TTATAAT
100752339 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
100752357 TTTCTGTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 31 0.58
46 22 0.42
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTATAAT
Found at i:100761894 original size:25 final size:25
Alignment explanation
Indices: 100761866--100761914 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
100761856 TTAGCGTCAA
*
100761866 TGAGTGATAGCTCTGAGCTTATGTT
1 TGAGTGATAGCTCCGAGCTTATGTT
100761891 TGAGTGATAGCTCCGAGCTTATGT
1 TGAGTGATAGCTCCGAGCTTATGT
100761915 CCGAGTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (25 bp):
TGAGTGATAGCTCCGAGCTTATGTT
Found at i:100761920 original size:25 final size:25
Alignment explanation
Indices: 100761867--100761921 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
100761857 TAGCGTCAAT
* **
100761867 GAGTGATAGCTCTGAGCTTATGTTT
1 GAGTGATAGCTCCGAGCTTATGTCC
100761892 GAGTGATAGCTCCGAGCTTATGTCC
1 GAGTGATAGCTCCGAGCTTATGTCC
100761917 GAGTG
1 GAGTG
100761922 GATGCTAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (25 bp):
GAGTGATAGCTCCGAGCTTATGTCC
Found at i:100763149 original size:11 final size:11
Alignment explanation
Indices: 100763117--100763155 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
100763107 AGATGAAAGT
*
100763117 GAAGAAAATGA
1 GAAGAAAATGG
100763128 GAAGAAAATGG
1 GAAGAAAATGG
*
100763139 GAGGAAAATGG
1 GAAGAAAATGG
100763150 TGAAGA
1 -GAAGA
100763156 TTAGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.10
Consensus pattern (11 bp):
GAAGAAAATGG
Found at i:100763583 original size:10 final size:10
Alignment explanation
Indices: 100763568--100763592 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
100763558 CCATAATTTA
100763568 TGATACAAAT
1 TGATACAAAT
100763578 TGATACAAAT
1 TGATACAAAT
100763588 TGATA
1 TGATA
100763593 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:100763624 original size:26 final size:26
Alignment explanation
Indices: 100763588--100763669 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
100763578 TGATACAAAT
100763588 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
100763614 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100763640 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
100763666 TGAT
1 TGAT
100763670 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:100770937 original size:30 final size:30
Alignment explanation
Indices: 100770881--100770961 Score: 74
Period size: 30 Copynumber: 2.6 Consensus size: 30
100770871 ATCAATAAAA
* *
100770881 ATTATAAAATATAGAAAATATTTAAAATTT
1 ATTAGAAAATATAAAAAATATTTAAAATTT
* **
100770911 ATTAGAAAATA-AAAAAATGTTCTAAAAACT
1 ATTAGAAAATATAAAAAATATT-TAAAATTT
*
100770941 ATTTAAAAAAATATAAAAAAT
1 A-TT-AGAAAATATAAAAAAT
100770962 TATTCCTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 8 0.20
30 17 0.41
31 2 0.05
32 7 0.17
33 7 0.17
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (30 bp):
ATTAGAAAATATAAAAAATATTTAAAATTT
Found at i:100774313 original size:12 final size:12
Alignment explanation
Indices: 100774296--100774320 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100774286 CTTTTGTTTT
100774296 TATTATTATAAC
1 TATTATTATAAC
100774308 TATTATTATAAC
1 TATTATTATAAC
100774320 T
1 T
100774321 TAATATATAA
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:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TATTATTATAAC
Found at i:100777235 original size:14 final size:14
Alignment explanation
Indices: 100777216--100777244 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100777206 GTCAACTTTT
100777216 AGTTAGTATTTAGC
1 AGTTAGTATTTAGC
100777230 AGTTAGTATTTAGC
1 AGTTAGTATTTAGC
100777244 A
1 A
100777245 AATGTATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (14 bp):
AGTTAGTATTTAGC
Found at i:100780186 original size:14 final size:15
Alignment explanation
Indices: 100780160--100780191 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
100780150 ATATATATAT
100780160 ATAAAATGGAATCCA
1 ATAAAATGGAATCCA
100780175 ATAAAA-GGAATCCA
1 ATAAAATGGAATCCA
100780189 ATA
1 ATA
100780192 CTTAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (15 bp):
ATAAAATGGAATCCA
Found at i:100792674 original size:48 final size:48
Alignment explanation
Indices: 100792594--100792913 Score: 263
Period size: 48 Copynumber: 6.9 Consensus size: 48
100792584 GGGTTATCTT
* * *
100792594 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
* *
100792642 TGATCCCATGTAAAACCATATTTGAGATATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
100792690 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
* *** * * * ** *
100792738 AGA-CATTGTGTAAGATCATA-----GCTA-GGCTATCGGGTTCGATCTG
1 TGATC-CCATGTAAGACCATATTTGGGATATGGC-ATTGGCATCGATATG
*
100792781 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
* *** * * * ** *
100792829 AGA-CATTGTGTAAGATCATA-----GCTA-GGCTATCGGGTTCGATCTG
1 TGATC-CCATGTAAGACCATATTTGGGATATGGC-ATTGGCATCGATATG
*
100792872 TGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATC
100792914 TTACTATGTT
Statistics
Matches: 208, Mismatches: 46, Indels: 36
0.72 0.16 0.12
Matches are distributed among these distances:
42 6 0.03
43 54 0.26
44 2 0.01
47 2 0.01
48 138 0.66
49 6 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATG
Found at i:100792794 original size:43 final size:43
Alignment explanation
Indices: 100792746--100792891 Score: 125
Period size: 43 Copynumber: 3.3 Consensus size: 43
100792736 TGAGACATTG
*
100792746 TGTAAGATCATAGCTAGGCTATCGGGTTCGATCTGTGATCCCA
1 TGTAAGACCATAGCTAGGCTATCGGGTTCGATCTGTGATCCCA
* * * * * * **
100792789 TGTAAGACCATATCTGGGATAT-GGCATTGGCATCGATATGA-GACA
1 TGTAAGACCATAGCTAGGCTATCGG-GTTCG-ATC--TGTGATCCCA
*
100792834 TTGTGTAAGATCATAGCTAGGCTATCGGGTTCGATCTGTGATCCCA
1 ---TGTAAGACCATAGCTAGGCTATCGGGTTCGATCTGTGATCCCA
100792880 TGTAAGACCATA
1 TGTAAGACCATA
100792892 TCTGGGATAT
Statistics
Matches: 75, Mismatches: 19, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
42 2 0.03
43 32 0.43
44 3 0.04
45 6 0.08
46 6 0.08
47 3 0.04
48 21 0.28
49 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATAGCTAGGCTATCGGGTTCGATCTGTGATCCCA
Found at i:100792807 original size:91 final size:91
Alignment explanation
Indices: 100792682--100792913 Score: 446
Period size: 91 Copynumber: 2.5 Consensus size: 91
100792672 GGCATTGGCA
* *
100792682 TCGATATGTGATCCCATGTAAGACCATATTTGGGATATGGCATTGGCATCGATATGAGACATTGT
1 TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGACATTGT
100792747 GTAAGATCATAGCTAGGCTATCGGGT
66 GTAAGATCATAGCTAGGCTATCGGGT
100792773 TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGACATTGT
1 TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGACATTGT
100792838 GTAAGATCATAGCTAGGCTATCGGGT
66 GTAAGATCATAGCTAGGCTATCGGGT
100792864 TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
100792914 TTACTATGTT
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 139 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (91 bp):
TCGATCTGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGACATTGT
GTAAGATCATAGCTAGGCTATCGGGT
Found at i:100794988 original size:72 final size:72
Alignment explanation
Indices: 100794871--100795011 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
100794861 CGCTAAATCC
* *
100794871 ACAACCATCACATCCTTTGGATTAGTCACCGACTCTTTAAAATGGACCTTCTTAGTACTCGAATC
1 ACAACCATCACATCCTTTAGATTAGTCACCGACTCCTTAAAATGGACCTTCTTAGTACTCGAATC
100794936 AGCAGGA
66 AGCAGGA
*
100794943 ACAACCATCACATCCTTTAGATTAGTCACCGACTCCTTAAAATGGACCTTTTTAGTACTCGAATC
1 ACAACCATCACATCCTTTAGATTAGTCACCGACTCCTTAAAATGGACCTTCTTAGTACTCGAATC
100795008 AGCA
66 AGCA
100795012 AGAGGGTTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.28
Consensus pattern (72 bp):
ACAACCATCACATCCTTTAGATTAGTCACCGACTCCTTAAAATGGACCTTCTTAGTACTCGAATC
AGCAGGA
Found at i:100795547 original size:3 final size:3
Alignment explanation
Indices: 100795539--100795564 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
100795529 ATAACAAAGA
100795539 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
100795565 AAGAAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:100796194 original size:3 final size:3
Alignment explanation
Indices: 100796179--100796260 Score: 98
Period size: 3 Copynumber: 28.3 Consensus size: 3
100796169 CCTTTATTTC
* *
100796179 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* * *
100796226 TCT TCT TTT TCT CCT T-T TCT TCT TTT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
100796261 AAACCATAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
2 6 0.09
3 60 0.91
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:100803940 original size:58 final size:59
Alignment explanation
Indices: 100803836--100803949 Score: 185
Period size: 59 Copynumber: 1.9 Consensus size: 59
100803826 TTTTAAAAAA
* *
100803836 CTAACTTGGACAAAAAAAAGTTCAAGCCCTAATGTGAGAACAGTTGCCAAATTCATGGC
1 CTAACTTGGACAAAAAAAAGTTCAAACCCTAATGTGAGAAAAGTTGCCAAATTCATGGC
* *
100803895 CTAACTTGGACAAAAAAAAGTTCAAACCCT-ATGTGTGAAAAGTTGCCAAGTTCAT
1 CTAACTTGGACAAAAAAAAGTTCAAACCCTAATGTGAGAAAAGTTGCCAAATTCAT
100803950 TTAATTTCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 22 0.43
59 29 0.57
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (59 bp):
CTAACTTGGACAAAAAAAAGTTCAAACCCTAATGTGAGAAAAGTTGCCAAATTCATGGC
Found at i:100808039 original size:15 final size:15
Alignment explanation
Indices: 100808016--100808047 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100808006 TTATTTAAGT
100808016 TATAAATAAATATTA
1 TATAAATAAATATTA
*
100808031 TATATATAAATATTA
1 TATAAATAAATATTA
100808046 TA
1 TA
100808048 ATTATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAAATAAATATTA
Found at i:100808608 original size:6 final size:6
Alignment explanation
Indices: 100808577--100808620 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
100808567 AGAAGCAGGG
* * *
100808577 AAGAAA AAGAGA AAGAAA AAGGAA AAGAAA AATAAA AGAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A-AGAAA A
100808621 CTAGGGATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:100812550 original size:21 final size:21
Alignment explanation
Indices: 100812507--100812554 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
100812497 TTCGTATTTG
*
100812507 AGGCACCTCGTGTGTCGCATC
1 AGGCACCTCGTGTGTAGCATC
**
100812528 AGGCACCTCGTGTGTAGTTTC
1 AGGCACCTCGTGTGTAGCATC
100812549 AGGCAC
1 AGGCAC
100812555 TTATGTGTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (21 bp):
AGGCACCTCGTGTGTAGCATC
Found at i:100812621 original size:8 final size:8
Alignment explanation
Indices: 100812608--100812647 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
100812598 CAATGTGCTT
100812608 TGAATCCG
1 TGAATCCG
100812616 TGAATCCG
1 TGAATCCG
*
100812624 TGAATCTG
1 TGAATCCG
100812632 TGAATCCG
1 TGAATCCG
100812640 TGAATCCG
1 TGAATCCG
100812648 CCAAAGTCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (8 bp):
TGAATCCG
Found at i:100816079 original size:48 final size:48
Alignment explanation
Indices: 100815988--100816082 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
100815978 TCGTATGGGG
*
100815988 TGGCTTAGGTCGTGTTAGAGTCTGCTAAATAGACATAGCCGTGTGGTA
1 TGGCTTAGGTCGTGTTAGAGTCTGCTAAATAGACACAGCCGTGTGGTA
* * * *
100816036 TGGCTTAGGTCGTGTTATAGTCTGTTAAATAGACACGGGCGTGTGGT
1 TGGCTTAGGTCGTGTTAGAGTCTGCTAAATAGACACAGCCGTGTGGT
100816083 CTACCCGTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.33
Consensus pattern (48 bp):
TGGCTTAGGTCGTGTTAGAGTCTGCTAAATAGACACAGCCGTGTGGTA
Found at i:100829446 original size:18 final size:18
Alignment explanation
Indices: 100829423--100829479 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
100829413 ATTAATTGTT
100829423 AAAATTTAAATATTATTC
1 AAAATTTAAATATTATTC
*
100829441 AAAATTTGTAATA-TA--C
1 AAAATTT-AAATATTATTC
100829457 -AAATTTAAATATTAGTT-
1 AAAATTTAAATATTA-TTC
100829474 AAAATT
1 AAAATT
100829480 GTAATAACTG
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
14 4 0.13
15 8 0.26
16 1 0.03
18 14 0.45
19 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (18 bp):
AAAATTTAAATATTATTC
Found at i:100829495 original size:32 final size:33
Alignment explanation
Indices: 100829424--100829485 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
100829414 TTAATTGTTA
100829424 AAATTTAAATATTATTCAAAATTTGTAATATAC
1 AAATTTAAATATTATTCAAAATTTGTAATATAC
100829457 AAATTTAAATATTAGTT-AAAA-TTGTAATA
1 AAATTTAAATATTA-TTCAAAATTTGTAATA
100829486 ACTGAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 8 0.29
33 18 0.64
34 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (33 bp):
AAATTTAAATATTATTCAAAATTTGTAATATAC
Found at i:100831939 original size:19 final size:20
Alignment explanation
Indices: 100831908--100831945 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
100831898 TCATATTTCG
*
100831908 ATAATATAAAATATTTTAAT
1 ATAATATAAAATAATTTAAT
100831928 ATAATA-AAAATAATTTAA
1 ATAATATAAAATAATTTAA
100831946 ATTCAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAATATAAAATAATTTAAT
Found at i:100836538 original size:28 final size:26
Alignment explanation
Indices: 100836464--100836538 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 26
100836454 ATGTATGAGG
100836464 ATAAATATTATATAAAAAATTTTAAAC
1 ATAAA-ATTATATAAAAAATTTTAAAC
* *
100836491 ATAGAATTACATGGAAAAAATTTTAAA-
1 ATAAAATTATAT--AAAAAATTTTAAAC
100836518 ATAATAAATTATATAATAAAA
1 AT-A-AAATTATATAA-AAAA
100836539 CAATTCAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 6 0.15
27 8 0.21
28 18 0.46
29 7 0.18
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (26 bp):
ATAAAATTATATAAAAAATTTTAAAC
Found at i:100837475 original size:16 final size:16
Alignment explanation
Indices: 100837454--100837496 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
100837444 TGTAGCCGAA
100837454 AAAATAAAAATAAAAT
1 AAAATAAAAATAAAAT
* *
100837470 AAAATAAAAAGAAAGT
1 AAAATAAAAATAAAAT
*
100837486 AAAATACAAAT
1 AAAATAAAAAT
100837497 TTCATTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:100838246 original size:45 final size:45
Alignment explanation
Indices: 100838178--100838476 Score: 208
Period size: 45 Copynumber: 6.8 Consensus size: 45
100838168 GGCTAGTGGC
* * * *
100838178 TTCAATCTGCGCTATTACCACCTCATGGAGATAAGATTTTCCATA
1 TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * * * * *
100838223 TTCGATCTGTTCCATTACTACCTCATGGAGATAAGA-TCTACAAA
1 TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * * ** *
100838267 CTTCAATCTGCTCTACTGC-AACTCATGGAGATAAGATTCGCCATC
1 -TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * *
100838312 TTCAATCTGCTCCATTGCTACCTCATGGAGATAA-AATTTACAAA
1 TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * *
100838356 CTTAAATCTGCT-C----C-A-CTCATGGAGATAAGATTTGCCATC
1 -TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * * * *
100838395 TTCGATCTGCTCTATTGCTACCTCATGGAGATAAGA-TCTACAAA
1 TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
* * *
100838439 CTTTAGTCTACTTCC-TTGCTACCTCATGGAGATAAGAT
1 -TTCAATCTGC-TCCATTGCTACCTCATGGAGATAAGAT
100838477 CTACAAACTT
Statistics
Matches: 193, Mismatches: 46, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
38 22 0.11
39 6 0.03
40 1 0.01
43 1 0.01
44 46 0.24
45 115 0.60
46 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (45 bp):
TTCAATCTGCTCCATTGCTACCTCATGGAGATAAGATTTTCCATA
Found at i:100838304 original size:89 final size:88
Alignment explanation
Indices: 100838199--100838476 Score: 352
Period size: 83 Copynumber: 3.2 Consensus size: 88
100838189 CTATTACCAC
* * * *
100838199 CTCATGGAGATAAGATTTTCCATATTCGATCTGTTCCATTACTACCTCATGGAGATAAGATCTAC
1 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
*
100838264 AAACTTCAATCTGCTCTACTGCAA
66 AAACTTAAATCTGCTCT-CTGCAA
* * * *
100838288 CTCATGGAGATAAGATTCGCCATCTTCAATCTGCTCCATTGCTACCTCATGGAGATAAAATTTAC
1 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
100838353 AAACTTAAATCTG--CTC--C-A
66 AAACTTAAATCTGCTCTCTGCAA
*
100838371 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCTATTGCTACCTCATGGAGATAAGATCTAC
1 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
* * * *
100838436 AAACTTTAGTCTACT-TCCTTGCTAC
66 AAACTTAAATCTGCTCT-C-TGC-AA
100838461 CTCATGGAGATAAGAT
1 CTCATGGAGATAAGAT
100838477 CTACAAACTT
Statistics
Matches: 163, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
83 71 0.44
84 2 0.01
85 1 0.01
86 1 0.01
87 2 0.01
88 1 0.01
89 69 0.42
90 16 0.10
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (88 bp):
CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTAC
AAACTTAAATCTGCTCTCTGCAA
Found at i:100838463 original size:128 final size:127
Alignment explanation
Indices: 100838244--100838486 Score: 310
Period size: 128 Copynumber: 1.9 Consensus size: 127
100838234 CCATTACTAC
* *
100838244 CTCATGGAGATAAGATCTACAAACTTCAATCTGCTCTACTGCAACTCATGGAGATAAGATTCGCC
1 CTCATGGAGATAAGATCTACAAACTTCAATCTGCTCTACTGCAACTCATGGAGATAAGATTCACA
* * *
100838309 ATCTTCAATCTGCTCCATTGCTACCTCATGGAGATAAAATTTACAAACTTAAATCTGCTCCA
66 AACTTCAATCTACTCCATTGCTACCTCATGGAGATAAAATCTACAAACTTAAATCTGCTCCA
* * * * * * *
100838371 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCTATTGCTACCTCATGGAGATAAGA-TCTA
1 CTCATGGAGATAAGATCTACAAACTTCAATCTGCTCTACTGC-AACTCATGGAGATAAGATTC-A
* * *
100838435 CAAACTTTAGTCTACTTCC-TTGCTACCTCATGGAGATAAGATCTACAAACTT
64 CAAACTTCAATCTAC-TCCATTGCTACCTCATGGAGATAAAATCTACAAACTT
100838487 TAGTCTACTT
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
127 38 0.39
128 57 0.58
129 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (127 bp):
CTCATGGAGATAAGATCTACAAACTTCAATCTGCTCTACTGCAACTCATGGAGATAAGATTCACA
AACTTCAATCTACTCCATTGCTACCTCATGGAGATAAAATCTACAAACTTAAATCTGCTCCA
Found at i:100838477 original size:45 final size:45
Alignment explanation
Indices: 100838409--100838563 Score: 226
Period size: 45 Copynumber: 3.5 Consensus size: 45
100838399 ATCTGCTCTA
100838409 TTGCTACCTCATGGAGATAAGATCTACAAACTTTAGTCTACTTCC
1 TTGCTACCTCATGGAGATAAGATCTACAAACTTTAGTCTACTTCC
100838454 TTGCTACCTCATGGAGATAAGATCTACAAACTTTAGTCTACTTCC
1 TTGCTACCTCATGGAGATAAGATCTACAAACTTTAGTCTACTTCC
* * *
100838499 TTGCTACCTTA-GGAAGATAAGA-CTACAATCTTTAGTCTGC-TCC
1 TTGCTACCTCATGG-AGATAAGATCTACAAACTTTAGTCTACTTCC
* *
100838542 TTTTCTACCTCAGGGAGATAAG
1 -TTGCTACCTCATGGAGATAAG
100838564 GCTGGTGGCT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
43 3 0.03
44 34 0.33
45 65 0.64
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (45 bp):
TTGCTACCTCATGGAGATAAGATCTACAAACTTTAGTCTACTTCC
Found at i:100838540 original size:172 final size:172
Alignment explanation
Indices: 100838199--100838541 Score: 408
Period size: 172 Copynumber: 2.0 Consensus size: 172
100838189 CTATTACCAC
* *
100838199 CTCATGGAGATAAGATTTTCCATATTCGATCTGTTCCATTACTACCTCATGGAGATAAGATCTAC
1 CTCATGGAGATAAGATTTGCCATATTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCTAC
* * * * *
100838264 AAACTTCAATCTGCTCTACTGCAACTCATGGAGATAAGATTCGCCATCTTCAATCTGCTCCATTG
66 AAACTTCAATCTACTCTACTGCAACTCATGGAGATAAGATTCACAAACTTCAATCTACTCCATTG
*
100838329 CTACCTCATGGAGATAAAATTTACAAACTTAAATCTGCTCCA
131 CTACCTCATGGAGATAAAATCTACAAACTTAAATCTGCTCCA
* * *
100838371 CTCATGGAGATAAGATTTGCCATCTTCGATCTGCTCTATTGCTACCTCATGGAGATAAGATCTAC
1 CTCATGGAGATAAGATTTGCCATATTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCTAC
* * * * * *
100838436 AAACTTTAGTCTACT-TCCTTGCTACCTCATGGAGATAAGA-TCTACAAACTTTAGTCTACTTCC
66 AAACTTCAATCTACTCTAC-TGC-AACTCATGGAGATAAGATTC-ACAAACTTCAATCTAC-TCC
* * * * *
100838499 -TTGCTACCTTA-GGAAGATAAGA-CTACAATCTTTAGTCTGCTCC
127 ATTGCTACCTCATGG-AGATAAAATCTACAAACTTAAATCTGCTCC
100838542 TTTTCTACCT
Statistics
Matches: 144, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
171 2 0.01
172 96 0.67
173 43 0.30
174 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.32
Consensus pattern (172 bp):
CTCATGGAGATAAGATTTGCCATATTCGATCTGCTCCATTACTACCTCATGGAGATAAGATCTAC
AAACTTCAATCTACTCTACTGCAACTCATGGAGATAAGATTCACAAACTTCAATCTACTCCATTG
CTACCTCATGGAGATAAAATCTACAAACTTAAATCTGCTCCA
Found at i:100839120 original size:178 final size:178
Alignment explanation
Indices: 100838576--100839276 Score: 811
Period size: 178 Copynumber: 3.9 Consensus size: 178
100838566 TGGTGGCTAA
* * * *
100838576 AATCTGCTCCCCTACTACCTCGGAA-AA-ATAAGAATACAATTTTCAACCTGCTCTCTTACTATC
1 AATCTGCTTCCTTACTACCTC--AAGAAGATAAGACTACAATTTTCAACCTGCTCTCTTACTACC
* * *
100838639 TTAGGGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGAGAAGATAAGATTCGCCA
64 TCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGGGAAGATAAGATTCGCCA
* * * * * * *
100838704 -ACTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCTACAAACTTT
129 TA-TTCGATCTACTCCACTGCTATCTCAGGGAGATAAGATCTTCAATCTTC
* * * * * *
100838753 AGTCTGCTTCTTTCCTACCTCAGGAAGATAAGACTACAATTTTCAACCTGCTCTCTTGCTATCTC
1 AATCTGCTTCCTTACTACCTCAAGAAGATAAGACTACAATTTTCAACCTGCTCTCTTACTACCTC
*** * ** * *
100838818 AGAGAGATAAATATGGTAACCAAAATCTGC-TCCCTGCTACCTCGGGAAGATAAGATTCGCCATT
66 AGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGGGAAGATAAGATTCGCCATA
** * * *
100838882 TTTTATCTA-TCCCATTGCTATATCAGGGAGATAAGATCTTCAATATTC
131 TTCGATCTACT-CCACTGCTATCTCAGGGAGATAAGATCTTCAATCTTC
* * * * * * *
100838930 AGTTTGCTTCCTTACTACCTCAAGAAGATAAGATTACAATCTTCAACCTGCTCTCTTGCCACCTT
1 AATCTGCTTCCTTACTACCTCAAGAAGATAAGACTACAATTTTCAACCTGCTCTCTTACTACCTC
* *
100838995 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATA
66 AGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGGGAAGATAAGATTCGCCATA
* *
100839060 TTCGATCTACTCTACTGCTATCTCAAGGAGATAAGATCTTCAATCTTC
131 TTCGATCTACTCCACTGCTATCTCAGGGAGATAAGATCTTCAATCTTC
* *** *
100839108 AATCTGCTTCCTTGCTACCTTTGGAAGATAAGACTACAATATTCAACCTGCTCTCTTACTACCTC
1 AATCTGCTTCCTTACTACCTCAAGAAGATAAGACTACAATTTTCAACCTGCTCTCTTACTACCTC
* ** * *
100839173 AGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCTTGCTATATCGGGAAGATAAGATTTGCCATC
66 AGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGGGAAGATAAGATTCGCCATA
* * *
100839238 TTCGATCTACTCCATTGCTACCTCATGGAGATAAGATCT
131 TTCGATCTACTCCACTGCTATCTCAGGGAGATAAGATCT
100839277 GTGAATTCAC
Statistics
Matches: 440, Mismatches: 77, Indels: 13
0.83 0.15 0.02
Matches are distributed among these distances:
175 2 0.00
176 45 0.10
177 174 0.40
178 218 0.50
179 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (178 bp):
AATCTGCTTCCTTACTACCTCAAGAAGATAAGACTACAATTTTCAACCTGCTCTCTTACTACCTC
AGAGAGATAAGGCTAGTGGCTAAAATCTGCTTCCCTGCTACCTCGGGAAGATAAGATTCGCCATA
TTCGATCTACTCCACTGCTATCTCAGGGAGATAAGATCTTCAATCTTC
Found at i:100840208 original size:24 final size:23
Alignment explanation
Indices: 100840169--100840213 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
100840159 ATACAATACC
*
100840169 AATTAACAAACTAATAATTAACA
1 AATTAACAAACCAATAATTAACA
100840192 AATTAACAAAACCAATAATTAA
1 AATTAAC-AAACCAATAATTAA
100840214 GTATAACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (23 bp):
AATTAACAAACCAATAATTAACA
Found at i:100842397 original size:14 final size:14
Alignment explanation
Indices: 100842378--100842407 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
100842368 TAATGAACTG
100842378 TTTATTTATTTGGT
1 TTTATTTATTTGGT
100842392 TTTATTTATTTGGT
1 TTTATTTATTTGGT
100842406 TT
1 TT
100842408 ATGTTTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:100843553 original size:15 final size:15
Alignment explanation
Indices: 100843506--100843553 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
100843496 GAGCCGCCCT
*
100843506 TTGTGCGTTTTTACC
1 TTGTGCGTTTTCACC
*
100843521 TTATGCGTTTTCACC
1 TTGTGCGTTTTCACC
100843536 TTGTGCGTTTTCACC
1 TTGTGCGTTTTCACC
100843551 TTG
1 TTG
100843554 GCCTCTCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.08, C:0.23, G:0.19, T:0.50
Consensus pattern (15 bp):
TTGTGCGTTTTCACC
Found at i:100850487 original size:35 final size:36
Alignment explanation
Indices: 100850448--100850520 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
100850438 AACCATGAAC
100850448 TAAATGAATAAATCACC-TTTTTTTCTTTCTGAGTA
1 TAAATGAATAAATCACCTTTTTTTTCTTTCTGAGTA
100850483 TAAATGAATAAATCACCTTTTTTTTCTTTCTGAGTA
1 TAAATGAATAAATCACCTTTTTTTTCTTTCTGAGTA
100850519 TA
1 TA
100850521 TTTCTTCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 17 0.46
36 20 0.54
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.47
Consensus pattern (36 bp):
TAAATGAATAAATCACCTTTTTTTTCTTTCTGAGTA
Found at i:100852345 original size:44 final size:44
Alignment explanation
Indices: 100852280--100852371 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
100852270 TGTTTAGGGA
* *
100852280 TACTTCGATCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGATCTTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
* **
100852324 TACTTCGA-CTTTGAGTTGATGAGGCACCATGTGTGTCGTACTGC
1 TACTTCGATC-TTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
100852368 TACT
1 TACT
100852372 GTTACATCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (44 bp):
TACTTCGATCTTGAGTCGATGAGGCACCATAAGTGTCGTACTGC
Found at i:100862631 original size:31 final size:31
Alignment explanation
Indices: 100862531--100862634 Score: 136
Period size: 31 Copynumber: 3.4 Consensus size: 31
100862521 TCATGCTCAG
*
100862531 TTGCTTTATGTAATAATGTCTGTAGTACTGT
1 TTGCTTTATGTGATAATGTCTGTAGTACTGT
* * **
100862562 CTGTTTTATGTGATAATGTCTGTAGTACTAC
1 TTGCTTTATGTGATAATGTCTGTAGTACTGT
* *
100862593 TTGCTTTATGTGATAATGTCTATAGTATTGT
1 TTGCTTTATGTGATAATGTCTGTAGTACTGT
*
100862624 TTACTTTATGT
1 TTGCTTTATGT
100862635 ATTAATATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (31 bp):
TTGCTTTATGTGATAATGTCTGTAGTACTGT
Found at i:100865067 original size:17 final size:16
Alignment explanation
Indices: 100865036--100865074 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
100865026 AAATCTATAA
100865036 AAATATTAATTTTTAAT
1 AAAT-TTAATTTTTAAT
*
100865053 TAATTTAATTTTTTAAT
1 AAATTTAA-TTTTTAAT
100865070 AAATT
1 AAATT
100865075 ATCAAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
AAATTTAATTTTTAAT
Found at i:100865322 original size:23 final size:23
Alignment explanation
Indices: 100865282--100865372 Score: 94
Period size: 23 Copynumber: 4.0 Consensus size: 23
100865272 ATGGGAGGAC
* *
100865282 AGTGGCACTTCGGTGCAATTGAA
1 AGTGACACTTCGGCGCAATTGAA
* * *
100865305 TGTGACACTTTGGCGCAAATGAA
1 AGTGACACTTCGGCGCAATTGAA
* *
100865328 AGTGATACTTCGGCGC-AGTGAA
1 AGTGACACTTCGGCGCAATTGAA
* *
100865350 AGTGACACTTCAGTGCAATTGAA
1 AGTGACACTTCGGCGCAATTGAA
100865373 TGTGGCATTT
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
22 18 0.33
23 36 0.67
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (23 bp):
AGTGACACTTCGGCGCAATTGAA
Found at i:100867772 original size:20 final size:20
Alignment explanation
Indices: 100867747--100867792 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
100867737 CTTTTTGGGG
100867747 AAAATGAAATAAATATAAGA
1 AAAATGAAATAAATATAAGA
* *
100867767 AAAATGAAATAAATGTAAGG
1 AAAATGAAATAAATATAAGA
100867787 AAAATG
1 AAAATG
100867793 GATTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
AAAATGAAATAAATATAAGA
Found at i:100867964 original size:10 final size:10
Alignment explanation
Indices: 100867937--100867975 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
100867927 TTAAATTCTA
100867937 AAAGATAAAT
1 AAAGATAAAT
*
100867947 ACAA-ATAATT
1 A-AAGATAAAT
100867957 AAAGATAAAT
1 AAAGATAAAT
100867967 AAAGATAAA
1 AAAGATAAA
100867976 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:100868714 original size:25 final size:24
Alignment explanation
Indices: 100868672--100868721 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
100868662 AGTTGTAAAG
100868672 AGAAAATTCTCTAAAGATATTATTTT
1 AGAAAATTCTCTAAAGAT-TT-TTTT
*
100868698 AGAAAATT-TCTAGAGATTTTTTT
1 AGAAAATTCTCTAAAGATTTTTTT
100868721 A
1 A
100868722 TTTACAACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 8 0.35
26 8 0.35
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (24 bp):
AGAAAATTCTCTAAAGATTTTTTT
Found at i:100875507 original size:28 final size:28
Alignment explanation
Indices: 100875467--100875545 Score: 122
Period size: 28 Copynumber: 2.8 Consensus size: 28
100875457 GCAATCAAAT
*
100875467 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
100875495 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
*
100875523 ATGACACTTAGTGTACGAAATAT
1 ATGGCACTTAGTGTACGAAATAT
100875546 CAAATTTAGT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:100875556 original size:21 final size:21
Alignment explanation
Indices: 100875530--100875571 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100875520 AGAATGACAC
100875530 TTAGTGTACGAAATATCAAAT
1 TTAGTGTACGAAATATCAAAT
100875551 TTAGTGTACGAAATATCAAAT
1 TTAGTGTACGAAATATCAAAT
100875572 GACTCAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
TTAGTGTACGAAATATCAAAT
Found at i:100879684 original size:26 final size:26
Alignment explanation
Indices: 100879596--100879682 Score: 147
Period size: 26 Copynumber: 3.3 Consensus size: 26
100879586 TGAAATGCCC
100879596 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100879622 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100879648 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
100879674 ATCATGGAA
1 ATCATGGAA
100879683 TACCTAACCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 58 1.00
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100886690 original size:26 final size:26
Alignment explanation
Indices: 100886659--100886766 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
100886649 TGAAATGCCC
100886659 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
100886685 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100886711 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
100886737 ATCATGGAATATTTCCCT-AACCAATT
1 ATCATGGAACATTTACCTAAACC-ATT
100886763 ATCA
1 ATCA
100886767 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100886736 original size:52 final size:52
Alignment explanation
Indices: 100886659--100886766 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
100886649 TGAAATGCCC
*
100886659 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
* * * *
100886711 ATCATGGAATATTTACCTAATCCATTATCATGGAATATTTCCCTAACCAATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
100886763 ATCA
1 ATCA
100886767 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
Found at i:100892906 original size:14 final size:14
Alignment explanation
Indices: 100892867--100892906 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
100892857 TCAAAACTCT
* *
100892867 AAAACTAAAAAATC
1 AAAACTTAAAATTC
*
100892881 AAAACTTGAAATTC
1 AAAACTTAAAATTC
100892895 AAAACTTAAAAT
1 AAAACTTAAAAT
100892907 CTTAAATCCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAACTTAAAATTC
Found at i:100893080 original size:28 final size:28
Alignment explanation
Indices: 100892998--100893084 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 28
100892988 TTTTGTTTTG
*
100892998 TTTCAAGTTTTTATTTTTTTATTTTAATT-
1 TTTCAAGTTTTTA--ATTTTATTTTAATTC
* *
100893027 TCT-AA-TTTTTACTTTTAATTAATTTAATTC
1 TTTCAAGTTTTTAATTTT-A-T--TTTAATTC
100893057 TTTCAAGTTTTTAATTTTATTTTAATTC
1 TTTCAAGTTTTTAATTTTATTTTAATTC
100893085 ATATTTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
25 4 0.09
26 1 0.02
27 7 0.15
28 10 0.21
29 9 0.19
30 3 0.06
31 3 0.06
32 10 0.21
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTCAAGTTTTTAATTTTATTTTAATTC
Found at i:100893754 original size:23 final size:23
Alignment explanation
Indices: 100893722--100893775 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
100893712 ATTAACATAA
* *
100893722 TAATATATATAAATATATATTTTT
1 TAAT-TATATAAATACATATTTAT
*
100893746 TAATTATATAATTACATATTTAT
1 TAATTATATAAATACATATTTAT
*
100893769 TATTTAT
1 TAATTAT
100893776 TTATATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATTATATAAATACATATTTAT
Found at i:100894935 original size:31 final size:31
Alignment explanation
Indices: 100894900--100894958 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
100894890 AAATAGTTTC
100894900 TAAATTAC-TCAAAAATTTTCATTTAAGTCAT
1 TAAATT-CTTCAAAAATTTTCATTTAAGTCAT
* * *
100894931 TAAATTCTTCGAAAGTTTTTATTTAAGT
1 TAAATTCTTCAAAAATTTTCATTTAAGT
100894959 TACTATGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 23 0.96
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAATTCTTCAAAAATTTTCATTTAAGTCAT
Found at i:100895821 original size:7 final size:8
Alignment explanation
Indices: 100895802--100895843 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
100895792 AAACAGCTCT
100895802 TAAAAATA
1 TAAAAATA
100895810 TAAAAATA
1 TAAAAATA
100895818 -AAAAATA
1 TAAAAATA
100895825 TAAAAATA
1 TAAAAATA
100895833 -AAAAATA
1 TAAAAATA
100895840 TAAA
1 TAAA
100895844 TCCTTTTCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.44
8 18 0.56
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
TAAAAATA
Found at i:100895823 original size:15 final size:15
Alignment explanation
Indices: 100895803--100895843 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
100895793 AACAGCTCTT
100895803 AAAAATATAAAAATA
1 AAAAATATAAAAATA
100895818 AAAAATATAAAAATA
1 AAAAATATAAAAATA
100895833 AAAAATATAAA
1 AAAAATATAAA
100895844 TCCTTTTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAAATATAAAAATA
Found at i:100903947 original size:19 final size:19
Alignment explanation
Indices: 100903906--100903947 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
100903896 CTGAAATTCT
* *
100903906 CTTCTTCTTTTTCCTTCTT
1 CTTCTTCTTTTTCCTACTA
100903925 CTTCTTCGTTTTT-CTACTA
1 CTTCTTC-TTTTTCCTACTA
100903944 CTTC
1 CTTC
100903948 GATTAGTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.05, C:0.31, G:0.02, T:0.62
Consensus pattern (19 bp):
CTTCTTCTTTTTCCTACTA
Found at i:100905037 original size:38 final size:39
Alignment explanation
Indices: 100904946--100905037 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 39
100904936 CGGTACCAGT
* *
100904946 TGGTGTGTAGGGTTGGATGGGTTGATTAAATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCA-ACA
* **
100904986 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAACA
*
100905024 TGGTGTGTTGGGTT
1 TGGTGTGTAGGGTT
100905038 AGACAGAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 15 0.33
40 31 0.67
ACGTcount: A:0.14, C:0.13, G:0.37, T:0.36
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTAAATCCCCAACA
Found at i:100907185 original size:17 final size:17
Alignment explanation
Indices: 100907163--100907208 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
100907153 CTATATAAAT
100907163 TTATTTTTTAAAATTAA
1 TTATTTTTTAAAATTAA
*
100907180 TTA--TTTTAAAATTTA
1 TTATTTTTTAAAATTAA
*
100907195 TTATATATTTAAAA
1 TTAT-TTTTTAAAA
100907209 GATACTCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 14 0.58
17 3 0.12
18 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTTTTTAAAATTAA
Found at i:100907188 original size:15 final size:15
Alignment explanation
Indices: 100907159--100907198 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
100907149 AATTCTATAT
100907159 AAATTTATT-TTTTA
1 AAATTTATTATTTTA
*
100907173 AAATTAATTATTTTA
1 AAATTTATTATTTTA
100907188 AAATTTATTAT
1 AAATTTATTAT
100907199 ATATTTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATTTATTATTTTA
Found at i:100907802 original size:23 final size:23
Alignment explanation
Indices: 100907761--100907811 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
100907751 ATGATTTCGT
* *
100907761 GTGTCACCTCGTTGAGACGTCT-A
1 GTGTCACATCGTCGAGACGT-TGA
*
100907784 GTGTCACATCGTCGGGACGTTGA
1 GTGTCACATCGTCGAGACGTTGA
100907807 GTGTC
1 GTGTC
100907812 TCGTCGACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.16, C:0.24, G:0.31, T:0.29
Consensus pattern (23 bp):
GTGTCACATCGTCGAGACGTTGA
Found at i:100909169 original size:22 final size:22
Alignment explanation
Indices: 100909127--100909171 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
100909117 AATTATTTTT
*
100909127 AAAATTTTTTAAAATTATAAAA
1 AAAATTTTTTAAAAGTATAAAA
*
100909149 AAAATTATTTTTAAAGT-TAAAA
1 AAAATT-TTTTAAAAGTATAAAA
100909171 A
1 A
100909172 TCATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AAAATTTTTTAAAAGTATAAAA
Done.