Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 40 of 167
Found at i:12199479 original size:147 final size:147
Alignment explanation
Indices: 12199213--12199561 Score: 612
Period size: 147 Copynumber: 2.4 Consensus size: 147
12199203 TGTGATCCTG
** * * * * *
12199213 AGCTCAACTCATTTCTCGCAATATGAATTGA-CTCTGTAAAACTAGACA-TTAAAAACAGAAATT
1 AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTTAAAAACAGAAATT
12199276 GAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAAAGTAGATTTTGAAAATAC
65 GAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAAAGTAGATTTTGAAAATAC
12199341 CTCGACATGTGAACCCAA
130 CTCGACATGTGAACCCAA
12199359 AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAACAGAAATTG
1 AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAACAGAAATTG
12199424 AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAAAGTAGATTTTGAAAATACC
66 AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAAAGTAGATTTTGAAAATACC
12199489 TCGACATGTGAACCCAA
131 TCGACATGTGAACCCAA
12199506 AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAA
1 AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAA
12199562 TACCTCAGCG
Statistics
Matches: 194, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
146 32 0.16
147 162 0.84
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.24
Consensus pattern (147 bp):
AGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAACAGAAATTG
AAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAAAGTAGATTTTGAAAATACC
TCGACATGTGAACCCAA
Found at i:12199640 original size:14 final size:14
Alignment explanation
Indices: 12199621--12199648 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12199611 TTTTTTTTAC
12199621 GAACAGAAATTGAA
1 GAACAGAAATTGAA
12199635 GAACAGAAATTGAA
1 GAACAGAAATTGAA
12199649 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:12199694 original size:91 final size:88
Alignment explanation
Indices: 12199540--12199724 Score: 239
Period size: 89 Copynumber: 2.1 Consensus size: 88
12199530 GAGTTGATTT
* *
12199540 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATG
* * *
12199605 AGTTGATTTTTTTTACGAACAGAAA
66 AGTT-A-ATTTTTGACAAACAGAAA
* * *
12199630 TTGAAGAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTAGCAAT
12199693 ATGAGTTAATTTTTGACAAACAGAAA
63 ATGAGTTAATTTTTGACAAACAGAAA
12199719 TTGAAA
1 TTGAAA
12199725 TTACCTCAGC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
89 34 0.41
90 14 0.17
91 33 0.40
92 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (88 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTAATTTTTGACAAACAGAAA
Found at i:12199761 original size:73 final size:73
Alignment explanation
Indices: 12199636--12200089 Score: 827
Period size: 73 Copynumber: 6.2 Consensus size: 73
12199626 GAAATTGAAG
** **
12199636 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAATTACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
12199701 ATTTTTGACA
64 ATTTTTGACA
12199711 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
12199776 TTTTGACA
66 TTTTGACA
12199784 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
12199849 TTTTGACA
66 TTTTGACA
12199857 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
12199922 TTTTGACA
66 TTTTGACA
12199930 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
12199995 TTTTGACA
66 TTTTGACA
**
12200003 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
12200068 TTTTGAAA
66 TTTTGACA
12200076 AACAGAAATTGAAA
1 AACAGAAATTGAAA
12200090 ACTAGAAATT
Statistics
Matches: 372, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
73 350 0.94
75 22 0.06
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (73 bp):
AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACA
Found at i:12199841 original size:146 final size:146
Alignment explanation
Indices: 12199636--12200672 Score: 1177
Period size: 146 Copynumber: 6.9 Consensus size: 146
12199626 GAAATTGAAG
* **
12199636 AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
12199701 ATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
64 ATTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
12199766 ATGAGTTAATTTTTGACA
129 ATGAGTTAATTTTTGACA
*
12199784 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
12199849 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
12199914 GAGTTAATTTTTGACA
131 GAGTTAATTTTTGACA
*
12199930 AACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
*
12199995 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
**
12200060 GAGTCGATTTTTGAAAAACAGAAATTGAA
131 GAGTTAATTTTTG----AC---------A
* * * *
12200089 AACTAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCT
1 AAC-AGAAATTGAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
** * * *
12200154 AATTTTTGATGAACATAAATT-AAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
63 AATTTTTGACAAACAGAAATTGAAAA-TACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCA
*
12200218 ATATGAGTTGATTTTTGACA
127 ATATGAGTTAATTTTTGACA
* * ** *
12200238 AACAAAAATTGAAATTACCTCAGC--GTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-
* * *
12200301 TTTTTTTGAAACATAAATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
64 -ATTTTTG--AC---------AAACA-G-AAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAAC
* *
12200366 TCACCTCTCGCAATATGAGTTGAA--ATT-AAA
115 TCACCTCTCGCAATATGAGTT-AATTTTTGACA
* *
12200396 ACACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
* * * *
12200461 A--ATT-AAAACACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
64 ATTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
* *
12200523 TATGAGTTGAA--ATT-AAA
128 TATGAGTT-AATTTTTGACA
* *
12200540 ACACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A
* * * * *
12200605 A--ATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAA
64 ATTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAA
12200667 TATGAG
128 TATGAG
12200673 CTGATTTTGA
Statistics
Matches: 803, Mismatches: 47, Indels: 82
0.86 0.05 0.09
Matches are distributed among these distances:
144 223 0.28
145 3 0.00
146 265 0.33
147 6 0.01
148 41 0.05
149 5 0.01
150 2 0.00
154 1 0.00
157 2 0.00
158 8 0.01
159 28 0.03
160 75 0.09
161 44 0.05
162 100 0.12
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (146 bp):
AACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTAATTTTTGACA
Found at i:12200089 original size:14 final size:15
Alignment explanation
Indices: 12200070--12200104 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
12200060 GAGTCGATTT
12200070 TTGAAAAAC-AGAAA
1 TTGAAAAACTAGAAA
12200084 TTG-AAAACTAGAAA
1 TTGAAAAACTAGAAA
12200098 TTGAAAA
1 TTGAAAA
12200105 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 11 0.58
15 3 0.16
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (15 bp):
TTGAAAAACTAGAAA
Found at i:12200159 original size:89 final size:86
Alignment explanation
Indices: 12199997--12200179 Score: 235
Period size: 89 Copynumber: 2.1 Consensus size: 86
12199987 GAGTTAATTT
* *
12199997 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
*
12200062 GTCGATTTTTGAAAAACAGAAA
65 GTCAATTTTTGAAAAACAGAAA
* *
12200084 TTGAAAACTAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAC-AGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** *
12200149 GAG-CTAATTTTTGATGAACATAAA
63 GAGTC-AATTTTTGAAAAACAGAAA
12200173 TT-AAAAC
1 TTGAAAAC
12200180 CACCTCAGCG
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
86 4 0.05
87 28 0.33
88 6 0.07
89 46 0.55
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (86 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAG
TCAATTTTTGAAAAACAGAAA
Found at i:12200202 original size:162 final size:159
Alignment explanation
Indices: 12199924--12200251 Score: 485
Period size: 162 Copynumber: 2.0 Consensus size: 159
12199914 GAGTTAATTT
* *
12199924 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGA
* * **
12199989 GTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
65 GCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCG
*
12200054 CAATATGAGTCGATTTTTGAAAAACAGAAA
130 CAATATGAGTCGATTTTTGAAAAACAAAAA
* *
12200084 TTGAAAACTAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAC-AGAAATTGAAAATACCTCAGCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATAT
** * *
12200149 GAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
63 GAGCTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCT
* *
12200214 CGCAATATGAGTTGATTTTTGACAAACAAAAA
128 CGCAATATGAGTCGATTTTTGAAAAACAAAAA
12200246 TTGAAA
1 TTGAAA
12200252 TTACCTCAGC
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
159 4 0.03
160 28 0.19
162 118 0.79
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (159 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAG
CTAATTTTTGACAAACAGAAATTAAAACCACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
AATATGAGTCGATTTTTGAAAAACAAAAA
Found at i:12200219 original size:73 final size:71
Alignment explanation
Indices: 12200124--12200323 Score: 256
Period size: 73 Copynumber: 2.8 Consensus size: 71
12200114 GTGTGAGCCA
* * *
12200124 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
12200189 GTGTCCTG
66 --GTCCTG
** * * **
12200197 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
*
12200262 GTCTTG
66 GTCCTG
* **
12200268 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATG-AACATAAATTAAAA
12200324 AAATGAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
71 41 0.38
72 12 0.11
73 56 0.51
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATGAACATAAATTAAAACCACCTCAGC
GTCCTG
Found at i:12200297 original size:71 final size:72
Alignment explanation
Indices: 12200124--12200680 Score: 271
Period size: 72 Copynumber: 7.5 Consensus size: 72
12200114 GTGTGAGCCA
* * * ** *
12200124 AGGCTCAACTCACCTCTTGCAATATGAGCTAATTTTTGATGAACATAAATTAAAACCACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCAGC
12200189 GTGTCCTG
66 G-GTCCTG
* **
12200197 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCAGC
*
12200262 -GTCTTG
66 GGTCCTG
* *** * ** ****
12200268 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAATGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTAAAACCA-CCTCA
***
12200333 TTGAAAATACCTCAG
64 --G-CGGT-CCT--G
* * * * * * * * *
12200348 CGTGTCCTGAGGCTCAACTCAC-C--TCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGA
1 AG-G--CTCA-ACTCACCTCTCGCAATAT-G-AGT-TGA-TT---TTTGACAA-ACAAAAATT-A
*
12200409 AAA-TACCTCAGCGTGTCCTG
53 AAACCACCTCAGCG-GTCCTG
** * *
12200429 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAA-TACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAAAAATT-AAAACCACCTCA
12200491 GCGTGTCCTG
64 GCG-GTCCTG
** * *
12200501 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAA-TACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAAAAATT-AAAACCACCTCA
12200563 GCGTGTCCTG
64 GCG-GTCCTG
** * *
12200573 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAA-TACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAAAAATT-AAAACCACCTCA
* *
12200635 GCGTGCCCCG
64 GCG-GTCCTG
* *
12200645 AGGCTCAACTCACCTCTTGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
12200681 GAAAAAGTAG
Statistics
Matches: 398, Mismatches: 60, Indels: 52
0.78 0.12 0.10
Matches are distributed among these distances:
71 36 0.09
72 230 0.58
73 58 0.15
75 1 0.00
77 12 0.03
78 8 0.02
79 1 0.00
80 5 0.01
81 5 0.01
82 1 0.00
83 9 0.02
84 14 0.04
86 3 0.01
87 11 0.03
88 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (72 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTAAAACCACCTCAGC
GGTCCTG
Found at i:12200336 original size:235 final size:230
Alignment explanation
Indices: 12199860--12201631 Score: 1075
Period size: 235 Copynumber: 7.7 Consensus size: 230
12199850 TTTGACAAAC
*
12199860 AGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
1 AGAAATTGAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* * * *
12199925 TGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
65 TGAAAAACAAAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
12199990 TTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGC
129 TTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAACTCACCTCTCGC
* * *
12200055 AATATGAGTCGATTTTTGAAAAACAGAAATTGAAAACT
193 AATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAT
* * *
12200093 AGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATATGAGCTAATT
1 AGAAATTGAAAATACCTCAGCGTGT---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
** * *
12200158 TTTGATGAACATAAATTAAAACCACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
63 TTTGAAAAACAAAAATTAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* *
12200223 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGCTCAACTCACTTCTCG
127 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCG
*** *
12200287 CAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAA-
192 CAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAAAT
12200326 ATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA-
1 A-G-AAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-AAT
*
12200390 -ATT-AAAACACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
62 TTTTGAAAA-ACAAAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
** * *
12200453 TGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCT
125 TGAGTTGATTTTTGACAA-ACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAACTCACCT
* *
12200516 CTCGCAATATGA---G----TT--------GAAATTAAAACAC
188 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAT
* *
12200544 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA--A
1 AGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTT
* * *
12200607 TT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATG
64 TTGAAAA-ACAAAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* * * ** *
12200671 AGCTGA-TTTTG----A-AAAAGTAGAAATTA----AAAGGT--T-----T-AACCCACCTCTCG
127 AGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCG
* *
12200718 CAATATGAGTTGATTCTTGACAAACAGAAA-T------T
192 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAT
* *
12200750 -GAAA-T-----TACCTCATCGTGTCCTAAGGCTCAACTCACCTCTCGCAATAT--G--AA---T
1 AGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTT
* * * * *
12200801 TG--------AAA--AAAATACCACAGTGTGTAATCTGAAGCTCAACTCACCTTTCGCAATATGA
65 TGAAAAACAAAAATTAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
12200856 GTTGATTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCAC
128 GTTGA---TTTTTGACAAACAAAAATTGAAATTACCTCAGC--G-G-TCCTGAGGCTCAACTCAC
* *** * *
12200920 CTCTCGCAATATAAGTTGATTTTTTTTGAAACATAAATTTAAAAAAAAAAC
186 CTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAA-TT----AAAAAAT
* * *
12200971 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-A--AT
12201036 TTTTGAAACATAAATTTAAAAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
62 TTTTG-----------------AAAAACAAAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAA
*
12201101 CTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAACATAAATTTAAAAAAAAAACAAAAATTGA
109 CTCACCTCTCGCAATATGAGTTGA---TTTTTG--AC---------------AAACAAAAATTGA
* * ***
12201166 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTGAAAC
154 AATTACCTCAGCG-GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAC
* *
12201231 ATAAATTTAAAAAAAAAAC
217 AGAAA-TT----AAAAAAT
* *
12201250 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATT
* * * *
12201315 TTTTAAAAACAGAAATTGAAAATACCTGAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAAT
63 TTTGAAAAACAAAAATT-AAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAAT
* * * * *
12201379 ATAAGTTGATTTTTTTTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
124 ATGAGTTGA-----TTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAACT
** * *
12201443 CATTTCTCGCAATATAAGTTGAATTTTG-AAAACAGAAA-T------T
183 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAT
** *
12201483 -GAAA-T-----TACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTT-A---A
* * * * * *
12201541 TTTTTTAACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATA
61 TTTTTGAAAAACAAAAATT-AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
*
12201606 TGAGTTGA-TTTTGAAAAACAAAAATT
125 TGAGTTGATTTTTGACAAACAAAAATT
12201632 AAAAGGCTTA
Statistics
Matches: 1275, Mismatches: 121, Indels: 298
0.75 0.07 0.18
Matches are distributed among these distances:
182 14 0.01
184 30 0.02
185 3 0.00
188 4 0.00
192 1 0.00
193 12 0.01
194 2 0.00
197 2 0.00
198 20 0.02
199 42 0.03
200 1 0.00
201 1 0.00
204 2 0.00
205 5 0.00
206 2 0.00
207 3 0.00
208 24 0.02
209 12 0.01
211 12 0.01
212 2 0.00
213 4 0.00
216 129 0.10
217 10 0.01
218 1 0.00
220 6 0.00
221 10 0.01
222 3 0.00
223 1 0.00
225 4 0.00
226 81 0.06
228 71 0.06
230 5 0.00
231 27 0.02
232 63 0.05
233 123 0.10
234 25 0.02
235 149 0.12
238 3 0.00
243 1 0.00
245 8 0.01
246 4 0.00
247 60 0.05
261 25 0.02
263 40 0.03
264 42 0.03
265 9 0.01
266 16 0.01
278 9 0.01
279 128 0.10
281 24 0.02
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (230 bp):
AGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
GAAAAACAAAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTGATTTTTGAAAAACAGAAATTAAAAAAT
Found at i:12200433 original size:72 final size:72
Alignment explanation
Indices: 12200329--12200672 Score: 661
Period size: 72 Copynumber: 4.8 Consensus size: 72
12200319 TAAAAAAATG
12200329 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
12200394 AAACACA
66 AAACACA
12200401 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
12200466 AAACACA
66 AAACACA
12200473 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
12200538 AAACACA
66 AAACACA
12200545 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
12200610 AAACACA
66 AAACACA
* * *
12200617 AAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAG
1 AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
12200673 CTGATTTTGA
Statistics
Matches: 269, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 269 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (72 bp):
AAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTA
AAACACA
Found at i:12201029 original size:93 final size:93
Alignment explanation
Indices: 12200870--12201336 Score: 837
Period size: 93 Copynumber: 5.0 Consensus size: 93
12200860 ATTTTTTTTT
* *
12200870 AAAAACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAA
1 AAAAACAAAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATAA
12200934 GTTGATTTTTTTTGAAACATAAATTTAAAAA
63 GTTGATTTTTTTTGAAACATAAATTTAAAAA
12200965 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
12201030 GATTTTTTTTGAAACATAAATTTAAAAA
66 GATTTTTTTTGAAACATAAATTTAAAAA
12201058 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
12201123 GATTTTTTTTGAAACATAAATTTAAAAA
66 GATTTTTTTTGAAACATAAATTTAAAAA
12201151 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
12201216 GATTTTTTTTGAAACATAAATTTAAAAA
66 GATTTTTTTTGAAACATAAATTTAAAAA
*
12201244 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
* * *
12201309 GATTTTTTTTAAAAACAGAAATTGAAAA
66 GATTTTTTTT-GAAACATAAATTTAAAA
12201337 TACCTGAGCA
Statistics
Matches: 364, Mismatches: 6, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
92 2 0.01
93 322 0.88
94 14 0.04
95 26 0.07
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (93 bp):
AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
GATTTTTTTTGAAACATAAATTTAAAAA
Found at i:12201371 original size:77 final size:75
Alignment explanation
Indices: 12201244--12201617 Score: 486
Period size: 77 Copynumber: 4.9 Consensus size: 75
12201234 AATTTAAAAA
*
12201244 AAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
12201309 GATTTTTTTT
66 GATTTTTTTT
* * *
12201319 AAAAACAGAAATTGAAAATACCTGAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATATAA
1 AAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGA
12201383 GTTGATTTTTTTTTT
63 GTTGA--TTTTTTTT
* * * ** *
12201398 GAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
12201463 GA---ATTTT
66 GATTTTTTTT
* * **
12201470 GAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
12201535 GATTTTTTTTTT
66 GA--TTTTTTTT
* * * *
12201547 AACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
12201612 GATTTT
66 GATTTT
12201618 GAAAAACAAA
Statistics
Matches: 265, Mismatches: 23, Indels: 22
0.85 0.07 0.07
Matches are distributed among these distances:
72 67 0.25
75 29 0.11
76 1 0.00
77 134 0.51
78 2 0.01
79 32 0.12
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.32
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTT
Found at i:12201577 original size:149 final size:150
Alignment explanation
Indices: 12201245--12201635 Score: 522
Period size: 149 Copynumber: 2.6 Consensus size: 150
12201235 ATTTAAAAAA
*
12201245 AAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
12201310 ATTTTTTTTAAAAACAGAAATTGAAAATACCTGAGCATGTGAACCGAGGCTCAACTCACCTCTCG
66 A---ATTTTGAAAACAGAAATTGAAAATACCTCAGCA-GTGAACCGAGGCTCAACTCACCTCTCG
12201375 CAATATAAGTTGATTTTTTTTTTG
127 CAATATAAGTTGATTTTTTTTTTG
* * ** *
12201399 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATAAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * **
12201464 AATTTTGAAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCATTTCTCGCAA
66 AATTTTGAAAACAGAAATTGAAAATACCTCAGCAGTGAACC-GAGGCTCAACTCACCTCTCGCAA
*
12201527 TATGAGTTGATTTTTTTTTT-
130 TATAAGTTGATTTTTTTTTTG
* * *
12201547 AACAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTT
1 AA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
12201612 G-ATTTTGAAAAACAAAAATT-AAAA
65 GAATTTTG-AAAACAGAAATTGAAAA
12201636 GGCTTAACTC
Statistics
Matches: 210, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
148 13 0.06
149 109 0.52
151 28 0.13
154 60 0.29
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (150 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAAATACCTCAGCAGTGAACCGAGGCTCAACTCACCTCTCGCAAT
ATAAGTTGATTTTTTTTTTG
Found at i:12201783 original size:71 final size:70
Alignment explanation
Indices: 12201635--12201810 Score: 205
Period size: 71 Copynumber: 2.5 Consensus size: 70
12201625 AAAAATTAAA
* * * * * **
12201635 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
12201699 CCCCG
66 CCCCG
*
12201704 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTTAAAAATACCTCAACG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAA-CTAAAAATACCTCAACG
* **
12201768 TGTCTTG
64 TGCCCCG
12201775 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
12201811 CCTTGGAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
69 26 0.28
70 10 0.11
71 56 0.61
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:12211598 original size:43 final size:43
Alignment explanation
Indices: 12211474--12211603 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
12211464 ATGCCGCTAT
* * **
12211474 AGAACATGACATGTAGCGGCGCTTTTATCACAAACGCCACTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* ** *
12211517 AGAACATGACATTTCGCAACACTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
* *
12211560 AGAACATGACCTTTAGTGGCGCTTTTATCACAAACACCGTTAA
1 AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
12211603 A
1 A
12211604 AGTACCGTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
AGAACATGACATTTAGCGGCGCTTTTATCACAAACACCGTTAA
Found at i:12214863 original size:150 final size:150
Alignment explanation
Indices: 12214638--12214938 Score: 593
Period size: 150 Copynumber: 2.0 Consensus size: 150
12214628 GGTATGTGGC
12214638 AAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACATTGCCATTGATGAAGAGAAACCA
1 AAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACATTGCCATTGATGAAGAGAAACCA
12214703 GATGATGTACAGGAGAAAGATTGGAAGGCGATCAATCGGTTGGCATGTGGCACAATTCGATCATG
66 GATGATGTACAGGAGAAAGATTGGAAGGCGATCAATCGGTTGGCATGTGGCACAATTCGATCATG
*
12214768 CCTTTCTCGAGAGCAGAGGT
131 CCTTTCTCGAGAACAGAGGT
12214788 AAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACATTGCCATTGATGAAGAGAAACCA
1 AAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACATTGCCATTGATGAAGAGAAACCA
12214853 GATGATGTACAGGAGAAAGATTGGAAGGCGATCAATCGGTTGGCATGTGGCACAATTCGATCATG
66 GATGATGTACAGGAGAAAGATTGGAAGGCGATCAATCGGTTGGCATGTGGCACAATTCGATCATG
12214918 CCTTTCTCGAGAACAGAGGT
131 CCTTTCTCGAGAACAGAGGT
12214938 A
1 A
12214939 TGCTTTTTCA
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (150 bp):
AAAGTGAGGTTCTAGATGCCCTTTTTCAGCAGGGTCTAGACATTGCCATTGATGAAGAGAAACCA
GATGATGTACAGGAGAAAGATTGGAAGGCGATCAATCGGTTGGCATGTGGCACAATTCGATCATG
CCTTTCTCGAGAACAGAGGT
Found at i:12216873 original size:21 final size:21
Alignment explanation
Indices: 12216847--12216887 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
12216837 AGACGAGCAA
* *
12216847 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
12216868 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
12216888 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:12225380 original size:22 final size:22
Alignment explanation
Indices: 12225349--12225393 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
12225339 AAGAGGGTCC
*
12225349 AGCAAGTTTTGAGATCTGAAGG
1 AGCAAATTTTGAGATCTGAAGG
12225371 AGCAAATTTTGAGATCTGAAGG
1 AGCAAATTTTGAGATCTGAAGG
12225393 A
1 A
12225394 CAATGGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.27
Consensus pattern (22 bp):
AGCAAATTTTGAGATCTGAAGG
Found at i:12228327 original size:24 final size:24
Alignment explanation
Indices: 12228299--12228354 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
12228289 TTTTTTTATA
*
12228299 TTAAAATTATTGGTAAAAATA-TTT
1 TTAAAATTATT-ATAAAAATATTTT
**
12228323 TTAAAAAGATTATAAAAATATTTT
1 TTAAAATTATTATAAAAATATTTT
12228347 TTAAAATT
1 TTAAAATT
12228355 TTTTAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (24 bp):
TTAAAATTATTATAAAAATATTTT
Found at i:12231926 original size:22 final size:21
Alignment explanation
Indices: 12231889--12231932 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
12231879 TCAAAAATGA
*
12231889 TAAAAATTTAATTTAATCTAT
1 TAAAAATTTAATTTAATATAT
12231910 TAAAAA-TTAATAATTAATATAT
1 TAAAAATTTAAT--TTAATATAT
12231932 T
1 T
12231933 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 6 0.30
22 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAATTTAATTTAATATAT
Found at i:12231974 original size:22 final size:22
Alignment explanation
Indices: 12231925--12231975 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12231915 ATTAATAATT
*
12231925 AATATATTTTTAAAATAACGAA
1 AATATATTTTTAAAATAACAAA
* * **
12231947 ATTATATTTTTACAATAGTAAA
1 AATATATTTTTAAAATAACAAA
12231969 AATATAT
1 AATATAT
12231976 AATTTAATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (22 bp):
AATATATTTTTAAAATAACAAA
Found at i:12233774 original size:23 final size:23
Alignment explanation
Indices: 12233723--12233774 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
12233713 GTGCGTTTTC
* **
12233723 TATTGTTTTTAATATTGTTTCGC
1 TATTGTTTTTAATATTATTTCAA
* *
12233746 TGTTGTTTTTAATATTATTTTAA
1 TATTGTTTTTAATATTATTTCAA
12233769 TATTGT
1 TATTGT
12233775 AGATCTTATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (23 bp):
TATTGTTTTTAATATTATTTCAA
Found at i:12237554 original size:21 final size:21
Alignment explanation
Indices: 12237511--12237576 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 21
12237501 GTATGGATAG
*
12237511 ATTTTTTATATTAATATT-TATA
1 ATTTTTTA-ATTAAT-TTAAATA
12237533 ATTTTTTAATTAATTTAAATAAA
1 ATTTTTTAATTAATTTAAAT--A
12237556 ATTTGTTT-ATT-ATTTAAATA
1 ATTT-TTTAATTAATTTAAATA
12237576 A
1 A
12237577 AAGATAGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
20 4 0.10
21 8 0.21
22 16 0.41
23 8 0.21
24 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTTAATTAATTTAAATA
Found at i:12237573 original size:22 final size:23
Alignment explanation
Indices: 12237532--12237578 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
12237522 TAATATTTAT
12237532 AATTTTTTAATTAATTTAAATAA
1 AATTTTTTAATTAATTTAAATAA
12237555 AATTTGTTT-ATT-ATTTAAATAA
1 AATTT-TTTAATTAATTTAAATAA
12237577 AA
1 AA
12237579 GATAGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTTTTAATTAATTTAAATAA
Found at i:12248893 original size:14 final size:14
Alignment explanation
Indices: 12248874--12248902 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12248864 TAGAAACAAC
12248874 TCCCTTTTCCAGTT
1 TCCCTTTTCCAGTT
12248888 TCCCTTTTCCAGTT
1 TCCCTTTTCCAGTT
12248902 T
1 T
12248903 ATATAAATCG
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:0.07, C:0.34, G:0.07, T:0.52
Consensus pattern (14 bp):
TCCCTTTTCCAGTT
Found at i:12256178 original size:14 final size:15
Alignment explanation
Indices: 12256154--12256182 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12256144 TCGGCCACAT
12256154 GCTATTATTTTTTAA
1 GCTATTATTTTTTAA
12256169 GCTA-TATTTTTTAA
1 GCTATTATTTTTTAA
12256183 AATTTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (15 bp):
GCTATTATTTTTTAA
Found at i:12256540 original size:19 final size:19
Alignment explanation
Indices: 12256511--12256553 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
12256501 CATAAAATTC
12256511 TAAAA-ATGAAAATTTCTAA
1 TAAAATATGAAAATTT-TAA
12256530 -AAAATATGAAAATTTTAA
1 TAAAATATGAAAATTTTAA
12256548 TAAAAT
1 TAAAAT
12256554 TTAAAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAATATGAAAATTTTAA
Found at i:12256560 original size:19 final size:19
Alignment explanation
Indices: 12256519--12256560 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12256509 TCTAAAAATG
*
12256519 AAAATTTCTAAAAAATATG
1 AAAATTTCTAAAAAATATA
*
12256538 AAAATTT-TAATAAAATTTA
1 AAAATTTCTAA-AAAATATA
12256557 AAAA
1 AAAA
12256561 AGTATTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTTCTAAAAAATATA
Found at i:12257621 original size:7 final size:7
Alignment explanation
Indices: 12257611--12257635 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12257601 AAAAAAAATA
12257611 AAATATT
1 AAATATT
12257618 AAATATT
1 AAATATT
12257625 AAATATT
1 AAATATT
12257632 AAAT
1 AAAT
12257636 TCATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:12263797 original size:4 final size:4
Alignment explanation
Indices: 12263790--12263814 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12263780 AATATTATGT
12263790 ATGC ATGC ATGC ATGC ATGC ATGC A
1 ATGC ATGC ATGC ATGC ATGC ATGC A
12263815 AATAGTATTG
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:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (4 bp):
ATGC
Found at i:12264763 original size:24 final size:25
Alignment explanation
Indices: 12264730--12264798 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 25
12264720 CAATACTTAA
*
12264730 TTAAATTTTAAAAATATTAAT-TTT
1 TTAATTTTTAAAAATATTAATATTT
* * *
12264754 TTATTTTTTAATAATGTTAATGATTT
1 TTAATTTTTAAAAATATTAAT-ATTT
12264780 TTAATTTTTAAAATATATT
1 TTAATTTTTAAAA-ATATT
12264799 TTTAAAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 17 0.49
26 14 0.40
27 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (25 bp):
TTAATTTTTAAAAATATTAATATTT
Found at i:12267869 original size:45 final size:45
Alignment explanation
Indices: 12267805--12267899 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
12267795 TTGTTGACAC
* * *
12267805 CTACACTACCAAGTTTCAAACACTATTGATGTGATTTACATGTAT
1 CTACACGACCAAGGTTCAAACACTATTGATGTAATTTACATGTAT
12267850 CTACACGACCAAGGTTCAAACACTATTGATGTAATTTACATGTAT
1 CTACACGACCAAGGTTCAAACACTATTGATGTAATTTACATGTAT
*
12267895 GTACA
1 CTACA
12267900 AATAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (45 bp):
CTACACGACCAAGGTTCAAACACTATTGATGTAATTTACATGTAT
Found at i:12268294 original size:18 final size:17
Alignment explanation
Indices: 12268260--12268298 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
12268250 AATTTTATCA
* *
12268260 ATATTTTTTTATGATAT
1 ATATTTTTTCATCATAT
12268277 ATATCTTTTTCATCATAT
1 ATAT-TTTTTCATCATAT
12268295 ATAT
1 ATAT
12268299 GGTTCTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (17 bp):
ATATTTTTTCATCATAT
Found at i:12270315 original size:14 final size:15
Alignment explanation
Indices: 12270286--12270323 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
12270276 GAGATGCTAG
12270286 ATAAAATAA-A-TAA
1 ATAAAATAATATTAA
12270299 AT-AAATAATATTAA
1 ATAAAATAATATTAA
12270313 ATAAAATAATA
1 ATAAAATAATA
12270324 CGTATTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 3 0.14
14 5 0.23
15 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAATAATATTAA
Found at i:12270596 original size:23 final size:22
Alignment explanation
Indices: 12270570--12270613 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12270560 TTTTTGTGAG
*
12270570 ATTAATGAGAAATTTCAAAAAAA
1 ATTAATGA-AAAGTTCAAAAAAA
*
12270593 ATTAATTAAAAGTTCAAAAAA
1 ATTAATGAAAAGTTCAAAAAA
12270614 TTTCCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (22 bp):
ATTAATGAAAAGTTCAAAAAAA
Found at i:12273724 original size:18 final size:17
Alignment explanation
Indices: 12273694--12273727 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12273684 TGAAAGCAAG
*
12273694 AAAAAGAATAAGGAAAA
1 AAAAAGAAAAAGGAAAA
12273711 AAAAGAGAAAAAGGAAA
1 AAAA-AGAAAAAGGAAA
12273728 GTACCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAGGAAAA
Found at i:12274395 original size:9 final size:8
Alignment explanation
Indices: 12274376--12274409 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
12274366 CGCCAACCCC
12274376 AAAAAAGA
1 AAAAAAGA
12274384 AAAAAAGA
1 AAAAAAGA
12274392 AAAAAA-A
1 AAAAAAGA
*
12274399 AAAGAAGA
1 AAAAAAGA
12274407 AAA
1 AAA
12274410 CTCTAAGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:12274396 original size:15 final size:15
Alignment explanation
Indices: 12274376--12274409 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12274366 CGCCAACCCC
12274376 AAAAAAGAAAAA-AAG
1 AAAAAA-AAAAAGAAG
12274391 AAAAAAAAAAAGAAG
1 AAAAAAAAAAAGAAG
12274406 AAAA
1 AAAA
12274410 CTCTAAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAG
Found at i:12277974 original size:24 final size:24
Alignment explanation
Indices: 12277946--12277993 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12277936 TTTAGTTTAT
*
12277946 AATATATATTA-AATAATAATTAAA
1 AATATAT-TTATAATAATAAATAAA
*
12277970 AATATATTTATGATAATAAATAAA
1 AATATATTTATAATAATAAATAAA
12277994 TATTTACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATATATTTATAATAATAAATAAA
Found at i:12277989 original size:20 final size:21
Alignment explanation
Indices: 12277961--12277999 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
12277951 ATATTAAATA
12277961 ATAATTAAA-AATATATTTATG
1 ATAATTAAATAA-ATATTTATG
12277982 ATAA-TAAATAAATATTTA
1 ATAATTAAATAAATATTTA
12278000 CTATAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
ATAATTAAATAAATATTTATG
Found at i:12279013 original size:18 final size:17
Alignment explanation
Indices: 12278990--12279032 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
12278980 TCAAGAGTTT
12278990 TATTAATAGTA-TAGATAA
1 TATTAATA-TATTA-ATAA
12279008 TATTAATATATTAATAA
1 TATTAATATATTAATAA
12279025 TATATAAT
1 TAT-TAAT
12279033 TATGTATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
TATTAATATATTAATAA
Found at i:12280407 original size:154 final size:154
Alignment explanation
Indices: 12280127--12281128 Score: 1734
Period size: 154 Copynumber: 6.5 Consensus size: 154
12280117 AAAAATATAG
*
12280127 AGGGCCCAACCAGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
*** * * *
12280192 TGGACCTTATTGAGAGGCAATTTTACTTTGGCTACTACATGTATAAACTATGGAAGTTTTGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
12280257 GACTTGGCAAAATTAAGTAAAAGC
131 GACTTGGCAAAATTAAGTAAAAGC
*
12280281 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATTTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
* *
12280346 TGGACCCCGTTGAGAAGCAATTTTACTTTGGCTACTACATGTATAAACTATGGAAGTTTTGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
12280411 GACTTGGCAAAATTAAGTAAAAGC
131 GACTTGGCAAAATTAAGTAAAAGC
*
12280435 AGGGCCTAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
12280500 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
12280565 GACTTGGCAAAATTAAGTAAAAGC
131 GACTTGGCAAAATTAAGTAAAAGC
12280589 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
* * * * *
12280654 TGGACCCCATTCAAAAACAATTCTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
12280719 GACTTGGCAAAATTAAGTAAAAGC
131 GACTTGGCAAAATTAAGTAAAAGC
12280743 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
12280808 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
12280873 GACTTGGCAAAATTAAGTAAAAGC
131 GACTTGGCAAAATTAAGTAAAAGC
12280897 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
** ** * * *
12280962 TGGACCCCACTGAGAAGCAATGATACTTTGGTTACTACATGTATAAACGATGGAAATTTTGGACG
66 TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
* * **
12281027 GACTTGGCAAAAATAGGTAAAATT
131 GACTTGGCAAAATTAAGTAAAAGC
*
12281051 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTAGCACTGAGCTA
1 AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
* *
12281116 TAGACCCTGTTGA
66 TGGACCCCGTTGA
12281129 ATTTTTAATA
Statistics
Matches: 811, Mismatches: 37, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 811 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (154 bp):
AGGGCCCAACCGGGTTCGAACCGGTGACCTCTTGATCTGCAGTCAAATGCTCTACCACTGAGCTA
TGGACCCCGTTGAGAAGCAATTTTACTTTGGTTACTACATGTATAAACTATGGAAGTTTAGGACG
GACTTGGCAAAATTAAGTAAAAGC
Found at i:12289305 original size:53 final size:53
Alignment explanation
Indices: 12289220--12289326 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
12289210 GTTCTCAGAT
12289220 CTGAAATTAGTAAAGAATTCTGTCGACACAGAATTAATTTGGATGTCCAGAAA
1 CTGAAATTAGTAAAGAATTCTGTCGACACAGAATTAATTTGGATGTCCAGAAA
* *
12289273 CTGAAATTAGTGAAGAATTCTGTCGACTCAGAATTAATTTGGATGTCCAGAAA
1 CTGAAATTAGTAAAGAATTCTGTCGACACAGAATTAATTTGGATGTCCAGAAA
12289326 C
1 C
12289327 CACTTAGAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (53 bp):
CTGAAATTAGTAAAGAATTCTGTCGACACAGAATTAATTTGGATGTCCAGAAA
Found at i:12297131 original size:13 final size:13
Alignment explanation
Indices: 12297113--12297139 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12297103 CTTGAAGTAT
12297113 AAACAATTTTTAA
1 AAACAATTTTTAA
12297126 AAACAATTTTTAA
1 AAACAATTTTTAA
12297139 A
1 A
12297140 CAAAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
AAACAATTTTTAA
Found at i:12297308 original size:25 final size:26
Alignment explanation
Indices: 12297280--12297328 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
12297270 GTATGATTAT
*
12297280 TTGGTTTGAACAATA-TGTAGTATCA
1 TTGGTATGAACAATATTGTAGTATCA
12297305 TTGGTATGAACAATATTGTAGTAT
1 TTGGTATGAACAATATTGTAGTAT
12297329 TATGTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (26 bp):
TTGGTATGAACAATATTGTAGTATCA
Found at i:12300107 original size:11 final size:12
Alignment explanation
Indices: 12300091--12300120 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
12300081 AGTTTTGAAG
12300091 AAAGAAAAA-AA
1 AAAGAAAAAGAA
12300102 AAAGAAAAAGAA
1 AAAGAAAAAGAA
12300114 AAAGAAA
1 AAAGAAA
12300121 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAA
Found at i:12300109 original size:6 final size:6
Alignment explanation
Indices: 12300091--12300120 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
12300081 AGTTTTGAAG
12300091 AAAGAA AAA-AA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
12300121 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:12302585 original size:29 final size:28
Alignment explanation
Indices: 12302552--12302612 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
12302542 AAAAACCCAT
12302552 TTTTTAAAAAAATTACCGAAATGGGCCA
1 TTTTTAAAAAAATTACCGAAATGGGCCA
* ** *
12302580 GTTTTTTAATTATTTACCGAAATGGGCCA
1 -TTTTTAAAAAAATTACCGAAATGGGCCA
12302609 TTTT
1 TTTT
12302613 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (28 bp):
TTTTTAAAAAAATTACCGAAATGGGCCA
Found at i:12303123 original size:124 final size:124
Alignment explanation
Indices: 12302855--12303109 Score: 413
Period size: 124 Copynumber: 2.1 Consensus size: 124
12302845 AAATAGTGGG
** * * * *
12302855 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTAAAATCGCGCCCTCGTGGACGCGATT
12302920 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
12302979 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTAAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTAAAATCGCGCCCTCGTGGACGCGATT
* * *
12303044 TCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACG-TTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
12303103 AAATCGC
1 AAATCGC
12303110 GCCCTCGTGG
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
124 92 0.76
125 29 0.24
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTAAAATCGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
Found at i:12306429 original size:51 final size:48
Alignment explanation
Indices: 12306327--12307477 Score: 1216
Period size: 51 Copynumber: 22.2 Consensus size: 48
12306317 GGTTTTTACA
* * *
12306327 TTAATTAAATTAGGTTAGAGTCAGGGTTTTTAATTAAATTAGGTTATGGTTT
1 TTAATTAAATTAGGTTAG-GT---TGTTTTTAATTAAATTATGTTAGGGTTT
*
12306379 TTAATTAAATTAGGTTAGGGTT-TTTAATTAAATTAAATTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTA-GGTTGTTT--TT-AATTAAATTATGTTAGGGTTT
* * * *
12306430 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAACTAAACTAGGTTAAGGTTT
1 TTAATTAAATTAGGTTA-GGTT---GTTTTTAATTAAATTATGTTAGGGTTT
*
12306482 TTAATTAAATTAGGTTAGAGTTAGGGATTTTAATTAAATTATGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAG-GTT---GTTTTTAATTAAATTA---T---GTTAGGGTTT
* *
12306540 TTAATTAAATTATGTTAGGGTT-TTTAATTAAATTAAATTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTA-GGTTGTTT--TT-AATTAAATTATGTTAGGGTTT
12306591 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306642 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306693 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306744 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306795 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306846 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306897 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306948 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12306999 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12307050 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
12307101 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
** *
12307152 TTAATTAAATTAAATTAGGTTAGGGGTTTTAATTAAATTAGGTTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTA---T--GTTAGGGTTT
* * *
12307208 TTAATTAAATTATGTTAGGGTT-TTTAATTAAATTAAATTAGGTTAGGGGTT
1 TTAATTAAATTAGGTTA-GGTTGTTT--TT-AATTAAATTATGTTAGGGTTT
12307259 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTATGTTAGGGTTT
**
12307310 TTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTT---GTTTTTAATTAAATTA---T--GTTAGGGTTT
*
12307366 TTAATTAAATTATGTTAGG--GTTTTTAATTAAATTAGGTTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGTTGTTTTTAATTAAATTA---T--GTTAGGGTTT
* * * *
12307417 TTAATTAAGTTAAGTTAGAGTT-TTTAATTATATTAAGTTAGGTTAGGGTTT
1 TTAATTAAATTAGGTTAG-GTTGTTT--TTA-ATTAAATTATGTTAGGGTTT
*
12307468 TTAATCAAAT
1 TTAATTAAAT
12307478 AATGTCAAAA
Statistics
Matches: 1016, Mismatches: 36, Indels: 95
0.89 0.03 0.08
Matches are distributed among these distances:
48 3 0.00
50 10 0.01
51 784 0.77
52 78 0.08
53 8 0.01
54 10 0.01
55 8 0.01
56 72 0.07
57 14 0.01
58 28 0.03
59 1 0.00
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (48 bp):
TTAATTAAATTAGGTTAGGTTGTTTTTAATTAAATTATGTTAGGGTTT
Found at i:12306624 original size:79 final size:77
Alignment explanation
Indices: 12306327--12307482 Score: 1356
Period size: 79 Copynumber: 14.9 Consensus size: 77
12306317 GGTTTTTACA
* *
12306327 TTAATTAAATTAGGTTAGAGTCAGGGTTTTTAATTAAATTAG---GTTATGGTTTTTAATTAAAT
1 TTAATTAAATTAGGTTAG-GTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAAT
*
12306389 TAGGTTAGGGTTT
65 TATGTTAGGGTTT
** *
12306402 TTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAACTAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA-GTTA--GTTAGGGTTTTTAATTAA
* * *
12306467 ACTAGGTTAAGGTTT
63 ATTATGTTAGGGTTT
*
12306482 TTAATTAAATTAGGTTAGAGTTAGGGATTTTAATTAAATTATGTTAGGGTTAGGGTTTTTAATTA
1 TTAATTAAATTAGGTTAG-GTTAGGGTTTTTAATTAAATTA-GTTA--GTTAGGGTTTTTAATTA
12306547 AATTATGTTAGGGTTT
62 AATTATGTTAGGGTTT
**
12306563 TTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA-GTTA-GTTAGGGTTTTTAATTAAA
12306628 TTATGTTAGGGTTT
64 TTATGTTAGGGTTT
12306642 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
12306704 AGGTTAGGTTAGGGTTT
66 A---T--GTTAGGGTTT
12306721 TTAATTAAATTA---T--GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA-GTTA-GTTAGGGTTTTTAATTAAA
12306781 TTATGTTAGGGTTT
64 TTATGTTAGGGTTT
12306795 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
12306857 AGGTTAGGTTAGGGTTT
66 A---T--GTTAGGGTTT
12306874 TTAATTAAATTA---T--GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA-GTTA-GTTAGGGTTTTTAATTAAA
12306934 TTATGTTAGGGTTT
64 TTATGTTAGGGTTT
12306948 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
12307010 AGGTTAGGTTAGGGTTT
66 A---T--GTTAGGGTTT
12307027 TTAATTAAATTA---T--GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA-GTTA-GTTAGGGTTTTTAATTAAA
12307087 TTATGTTAGGGTTT
64 TTATGTTAGGGTTT
12307101 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
*
12307163 AAATTAGGTTAGGGGTT
66 --A-T--GTTAGGGTTT
12307180 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
*
12307242 AAATTAGGTTAGGGGTT
66 --A-T--GTTAGGGTTT
12307259 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
12307321 AAATTAGGTTAGGGTTT
66 --A-T--GTTAGGGTTT
12307338 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA--T-GTTAGGGTTTTTAATTAAATT
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
12307400 AGGTTAGGTTAGGGTTT
66 A---T--GTTAGGGTTT
* * * *
12307417 TTAATT--A--A-GTTAAGTTAGAGTTTTTAATTATATTAAGTTAGGTTAGGGTTTTTAATCAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATT-AGTTA-GTTAGGGTTTTTAATTAAA
*
12307477 TAATGT
64 TTATGT
12307483 CAAAATAACT
Statistics
Matches: 989, Mismatches: 28, Indels: 129
0.86 0.02 0.11
Matches are distributed among these distances:
74 265 0.27
75 19 0.02
76 12 0.01
77 13 0.01
79 538 0.54
80 70 0.07
81 72 0.07
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (77 bp):
TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTAGTTAGTTAGGGTTTTTAATTAAATT
ATGTTAGGGTTT
Found at i:12306654 original size:18 final size:21
Alignment explanation
Indices: 12306530--12307407 Score: 316
Period size: 28 Copynumber: 34.3 Consensus size: 21
12306520 TTATGTTAGG
12306530 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
12306552 TGTTAGGGTTTTTAATTAAATTAAATTA
1 -GTTAGGG--TTT--TT-AATTAAA-TA
12306580 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306608 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306631 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306659 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306682 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306710 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306733 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306761 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306784 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306812 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306835 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306863 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306886 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306914 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306937 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12306965 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12306988 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307016 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307039 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307067 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307090 TGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307118 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307141 TGTTAGGGTTTTTAATTAAATTAAATTA
1 -GTTAGGG--TTT--TT-AATTAAA-TA
*
12307169 GGTTAGGGGTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307197 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307220 TGTTAGGGTTTTTAATTAAATTAAATTA
1 -GTTAGGG--TTT--TT-AATTAAA-TA
*
12307248 GGTTAGGGGTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307276 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307299 TGTTAGGGTTTTTAATTAAATTAAATTA
1 -GTTAGGG--TTT--TT-AATTAAA-TA
12307327 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GTTAGGGTTTTTAATT-AA--A---TA
12307355 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307378 TGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
12307401 GGTTAGG
1 -GTTAGG
12307408 TTAGGGTTTT
Statistics
Matches: 732, Mismatches: 33, Indels: 180
0.77 0.03 0.19
Matches are distributed among these distances:
23 274 0.37
24 36 0.05
25 26 0.04
26 24 0.03
27 36 0.05
28 336 0.46
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:12306676 original size:102 final size:102
Alignment explanation
Indices: 12306327--12307434 Score: 1593
Period size: 102 Copynumber: 10.7 Consensus size: 102
12306317 GGTTTTTACA
* * *
12306327 TTAATTAAATTAGGTTAGAGTCAGGGTTTTTAATTAAATTAGGTTATGGTTTTTAATTAAATTAG
1 TTAATTAAATTAGGTTAG-GTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAG
*
12306392 GTTAGGGTT----TTTAATTAAATTAAATTAGGTTAGGGTTT
65 GTTA-GGTTAGGGTTT--TT-AATTAAATTATGTTAGGGTTT
* * * *
12306430 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAACTAAACTAGGTTAAGGTTTTTAATTAAATTAG
1 TTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAG
*
12306495 GTTAGAGTTAGGGATTTTAATTAAATTATGTTAGGGTTAGGGT
65 GTTAG-GTTAGGGTTTTTAATTAAATTATGTTAGGGTT----T
** *
12306538 TT--TT-AATTAAATTATGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATT--A-T--GTTAGGGTTTTTAATTAAA
12306600 TTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
61 TTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
12306642 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12306707 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
12306744 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12306809 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
12306846 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12306911 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
12306948 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12307013 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
12307050 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12307115 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
** *
12307152 TTAATTAAATTAAATTAGGTTAGGGGTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA---T--GTTAGGGTTTTTAATTAAA
*
12307217 TTA---T--GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGGTT
61 TTAGGTTAGGTTAGGGTTTTTAATTAAATT--A-T--GTTAGGGTTT
**
12307259 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAAA
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
12307324 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTT
66 TTAGGTTAGGGTTTTTAATTAAATTA---T--GTTAGGGTTT
*
12307366 TTAATTAAATTA---T--GTTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAG
1 TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTA---T--GTTAGGGTTTTTAATTAAA
*
12307426 TTAAGTTAG
61 TTAGGTTAG
12307435 AGTTTTTAAT
Statistics
Matches: 938, Mismatches: 27, Indels: 76
0.90 0.03 0.07
Matches are distributed among these distances:
102 572 0.61
103 66 0.07
104 47 0.05
105 16 0.02
106 5 0.01
107 171 0.18
108 34 0.04
109 27 0.03
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (102 bp):
TTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTTTTAATTAAATTAGG
TTAGGTTAGGGTTTTTAATTAAATTATGTTAGGGTTT
Found at i:12309844 original size:3 final size:3
Alignment explanation
Indices: 12309836--12309868 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
12309826 ATGTAAAATT
*
12309836 AGA AGA AGA AGA AGA AGA AGA AGA AGA GGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
12309869 TATGAAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12313516 original size:60 final size:59
Alignment explanation
Indices: 12313443--12313559 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 59
12313433 TGGGTGACCA
* * *
12313443 ATTTATAATTTTTCATAGTT-GAGTGACCAAAAA-AAGAAATTAACTATTAATTGAGTGATT
1 ATTTATAACTTTTCATAATTAGA-TGACCAAAAATAA-AAATT-ACTAATAATTGAGTGATT
* * *
12313503 ATTTGTAACTTTTCATAATTAGATGATCAAAAATAAAAATTACTAATAATTGGGTGA
1 ATTTATAACTTTTCATAATTAGATGACCAAAAATAAAAATTACTAATAATTGAGTGA
12313560 CTACTAGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
59 14 0.29
60 31 0.63
61 4 0.08
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (59 bp):
ATTTATAACTTTTCATAATTAGATGACCAAAAATAAAAATTACTAATAATTGAGTGATT
Found at i:12314535 original size:82 final size:82
Alignment explanation
Indices: 12314377--12314535 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
12314367 AAAATAGTGG
* * * * *
12314377 GTTTAAAAAATTGGTTTGACAAAATCCCGTGTGTTGGTCAGATGGTCAGGGTATTTATCGTCCCA
1 GTTTAAAAAATAGGTTTGACAAAACCCCGTGTGTTAGTCAGATGGTCAGGGTATTCATCATCCCA
* *
12314442 GGTGTGGCTTGAAGTAA
66 GGCGTGACTTGAAGTAA
* * ** *
12314459 GTTTGAAAAATAGGTTTGACAGAACCCCGTGTGTTAGTTTGATGGTCAGGGTATTCA-CTATCTC
1 GTTTAAAAAATAGGTTTGACAAAACCCCGTGTGTTAGTCAGATGGTCAGGGTATTCATC-ATCCC
12314523 AGGCGTGACTTGA
65 AGGCGTGACTTGA
12314536 GTTTGAGTCG
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 1 0.02
82 63 0.98
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (82 bp):
GTTTAAAAAATAGGTTTGACAAAACCCCGTGTGTTAGTCAGATGGTCAGGGTATTCATCATCCCA
GGCGTGACTTGAAGTAA
Found at i:12314761 original size:24 final size:24
Alignment explanation
Indices: 12314734--12314782 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
12314724 TATATAACAT
12314734 TATAATGTAAACATTATTCTGTTA
1 TATAATGTAAACATTATTCTGTTA
*
12314758 TATAATGTAAACATTATTCTTTTA
1 TATAATGTAAACATTATTCTGTTA
12314782 T
1 T
12314783 GTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (24 bp):
TATAATGTAAACATTATTCTGTTA
Found at i:12323848 original size:13 final size:13
Alignment explanation
Indices: 12323813--12323856 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
12323803 ACTTTTCTAG
12323813 AAAAATCATCAAT
1 AAAAATCATCAAT
12323826 AAAAGTAATCATCAAT
1 -AAA--AATCATCAAT
*
12323842 AAAAATCATCCAT
1 AAAAATCATCAAT
12323855 AA
1 AA
12323857 TTAGCTCCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 11 0.41
14 3 0.11
15 3 0.11
16 10 0.37
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (13 bp):
AAAAATCATCAAT
Found at i:12329389 original size:44 final size:44
Alignment explanation
Indices: 12329328--12329417 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
12329318 TTCTAAACTC
12329328 AAAAAATAATATTATTTG-TTTCAAAAT-AAAAATAAAACAATTA
1 AAAAAATAATATTATTTGCTTT-AAAATAAAAAATAAAACAATTA
*
12329371 AAAAATATAATCTTATTTGCTTTAAAATAAAAAATAAAACAATTA
1 AAAAA-ATAATATTATTTGCTTTAAAATAAAAAATAAAACAATTA
12329416 AA
1 AA
12329418 TTAAATTCGG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 5 0.12
44 17 0.40
45 21 0.49
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (44 bp):
AAAAAATAATATTATTTGCTTTAAAATAAAAAATAAAACAATTA
Found at i:12330072 original size:15 final size:14
Alignment explanation
Indices: 12330043--12330069 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12330033 AACCATAACA
12330043 AATTTATAAAAAAT
1 AATTTATAAAAAAT
12330057 AATTTATAAAAAA
1 AATTTATAAAAAA
12330070 ATATTAGAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTATAAAAAAT
Found at i:12330081 original size:35 final size:34
Alignment explanation
Indices: 12329997--12330081 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
12329987 TTAAAACCAT
* *
12329997 AAAATTTTATGAAATTTATAAAAACAATTTATTAA
1 AAAATATTA-GAAATTTATAAAAACAATTTATAAA
** * * *
12330032 AAACCATAACAAATTTATAAAAAATAATTTATAAA
1 AAAATATTAGAAATTTAT-AAAAACAATTTATAAA
12330067 AAAATATTAGAAATT
1 AAAATATTAGAAATT
12330082 AATTAAAGCA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
34 8 0.21
35 30 0.79
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (34 bp):
AAAATATTAGAAATTTATAAAAACAATTTATAAA
Found at i:12330438 original size:12 final size:11
Alignment explanation
Indices: 12330420--12330444 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12330410 GTGTACTTAT
12330420 TTTAAAAATAA
1 TTTAAAAATAA
12330431 TTTAAAAATAA
1 TTTAAAAATAA
12330442 TTT
1 TTT
12330445 TTATTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTTAAAAATAA
Found at i:12335680 original size:29 final size:31
Alignment explanation
Indices: 12335635--12335696 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
12335625 CCATATTTTA
12335635 TTAATTTTCAGTGATTATT-AGATTTTATGC
1 TTAATTTTCAGTGATTATTGAGATTTTATGC
* * *
12335665 TTAATTTT-AGTTATTATTGCGTTTTTATGC
1 TTAATTTTCAGTGATTATTGAGATTTTATGC
12335695 TT
1 TT
12335697 TTTGGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (31 bp):
TTAATTTTCAGTGATTATTGAGATTTTATGC
Found at i:12342410 original size:16 final size:15
Alignment explanation
Indices: 12342381--12342414 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
12342371 TTAAAAGTAA
12342381 AATAATATAACATAC
1 AATAATATAACATAC
*
12342396 AATAACTATATCATAC
1 AATAA-TATAACATAC
12342412 AAT
1 AAT
12342415 TATTCAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATATAACATAC
Found at i:12345343 original size:9 final size:9
Alignment explanation
Indices: 12345324--12345353 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
12345314 TTAAATTAAA
12345324 AATTAAAATT
1 AATT-AAATT
12345334 AATTAAATT
1 AATTAAATT
12345343 AATTAAATT
1 AATTAAATT
12345352 AA
1 AA
12345354 AAGTAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:12345355 original size:24 final size:22
Alignment explanation
Indices: 12345314--12345364 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
12345304 ATTCATTATG
*
12345314 TTAAATTAAAAATTAAAATTAA
1 TTAAATTAAAAATTAAAAGTAA
12345336 TTAAATTAATTAAATTAAAAGTAA
1 TTAAATTAA--AAATTAAAAGTAA
12345360 TTAAA
1 TTAAA
12345365 CATTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 9 0.35
24 17 0.65
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAATTAAAAATTAAAAGTAA
Found at i:12345374 original size:24 final size:25
Alignment explanation
Indices: 12345317--12345375 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
12345307 CATTATGTTA
* *
12345317 AATTAAAAATTAAAATTAATTAAATT
1 AATT-AAAATTAAAAGTAATTAAATC
12345343 AATT-AAATTAAAAGTAATTAAA-C
1 AATTAAAATTAAAAGTAATTAAATC
*
12345366 ATTTAAAATT
1 AATTAAAATT
12345376 TCATACATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 3 0.10
24 22 0.76
26 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AATTAAAATTAAAAGTAATTAAATC
Found at i:12355798 original size:18 final size:19
Alignment explanation
Indices: 12355759--12355804 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
12355749 TATAATTTTT
12355759 TTTATAAATTAAATACACTA
1 TTTA-AAATTAAATACACTA
12355779 -TTAAAATCTAAATACA-TA
1 TTTAAAAT-TAAATACACTA
12355797 TTTAAAAT
1 TTTAAAAT
12355805 ATAATTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAAAATTAAATACACTA
Found at i:12368821 original size:45 final size:46
Alignment explanation
Indices: 12368757--12368872 Score: 168
Period size: 45 Copynumber: 2.6 Consensus size: 46
12368747 TTTGAGTACT
*
12368757 TCTGATCAAGTGACAAAGTGATAAGTGATAG-CTTAGCTACATTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGTCTTAGCTACACTTA
* *
12368802 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGTCTTAGCTACACTTA
12368848 TCTGATC-AG-GA-ACAAGTGATAAGTG
1 TCTGATCAAGTGACA-AAGTGATAAGTG
12368873 GTGACAAAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
43 1 0.02
44 14 0.21
45 32 0.48
46 19 0.29
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.30
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGTCTTAGCTACACTTA
Found at i:12368882 original size:62 final size:64
Alignment explanation
Indices: 12368811--12368938 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 64
12368801 ATCTGATCAA
* *
12368811 GTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATC-AG-GA-ACAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAAGTGACA-AAGTGATAAGTG
12368873 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTG
12368937 GT
1 GT
12368939 AGCCTAGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
62 42 0.69
63 2 0.03
64 16 0.26
65 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.28
Consensus pattern (64 bp):
GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTG
Found at i:12368938 original size:46 final size:45
Alignment explanation
Indices: 12368873--12368979 Score: 164
Period size: 46 Copynumber: 2.4 Consensus size: 45
12368863 GTGATAAGTG
*
12368873 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAA
1 GTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAGCAA
*
12368919 GTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAGCAA
*
12368964 G-GA-GAAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
12368980 ATCATACGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
44 2 0.03
45 21 0.36
46 23 0.40
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (45 bp):
GTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGAGCAA
Found at i:12368960 original size:107 final size:107
Alignment explanation
Indices: 12368766--12368979 Score: 342
Period size: 107 Copynumber: 2.0 Consensus size: 107
12368756 TTCTGATCAA
* *
12368766 GTGACAAAGTGATAAGTGATAGCTTAGCTACATTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 GTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTGGT
**
12368831 AGTTTTAGCTACACTTATCTGATC-AGGAACAAGTGATAAGTG
66 AGTCCTAGCTACACTTATCTGATCAAGG-ACAAGTGATAAGTG
*
12368873 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTGG
1 GTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTGG
*
12368938 TAG-CCTAGCTACACTTATCTGATCAAGGAGAAGTGATAAGTG
65 TAGTCCTAGCTACACTTATCTGATCAAGGACAAGTGATAAGTG
12368980 ATCATACGTA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
107 54 0.55
108 45 0.45
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (107 bp):
GTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGAGCAAGTGACAAAGTGATAAGTGGT
AGTCCTAGCTACACTTATCTGATCAAGGACAAGTGATAAGTG
Found at i:12370924 original size:46 final size:46
Alignment explanation
Indices: 12370819--12371024 Score: 337
Period size: 46 Copynumber: 4.5 Consensus size: 46
12370809 CTTACATATG
* *
12370819 ATCACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
12370862 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
* *
12370908 ATCACTTATCACTTTGTTACTTGATCAGATAAGTGTAGTTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
12370954 ACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
*
12371000 ACCACTTATCACTTTGTCACTTGAT
1 ATCACTTATCACTTTGTCACTTGAT
12371025 TAGAAGTACT
Statistics
Matches: 153, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 20 0.13
46 116 0.76
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
ATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCT
Found at i:12379152 original size:31 final size:30
Alignment explanation
Indices: 12379063--12379155 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
12379053 TCTGGGTATA
* *
12379063 AAATTAAACATTAAAGCCAAACTTAGGTACC
1 AAATTAAACATTAAA-ACAAACTTAAGTACC
* *
12379094 ATATTAGAA-A--AAGA-AAAC-TAAGATACC
1 AAATTA-AACATTAAAACAAACTTAAG-TACC
12379121 AAATTAAACATTAAAACTAAACTTAAGTACC
1 AAATTAAACATTAAAAC-AAACTTAAGTACC
12379152 AAAT
1 AAAT
12379156 AGTATAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
26 5 0.10
27 14 0.29
29 5 0.10
31 18 0.38
32 6 0.12
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.23
Consensus pattern (30 bp):
AAATTAAACATTAAAACAAACTTAAGTACC
Found at i:12380396 original size:14 final size:14
Alignment explanation
Indices: 12380377--12380404 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12380367 TTTTCAATCC
12380377 TTTTCTTTTTTTTA
1 TTTTCTTTTTTTTA
12380391 TTTTCTTTTTTTTA
1 TTTTCTTTTTTTTA
12380405 ATTATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTCTTTTTTTTA
Found at i:12384584 original size:20 final size:20
Alignment explanation
Indices: 12384548--12384585 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12384538 TTTTAGCCAC
*
12384548 TTTATTATTTTGTTTATTTT
1 TTTATTATTTTGATTATTTT
12384568 TTTATTATTATT-ATTATT
1 TTTATTATT-TTGATTATT
12384586 ATTACTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTATTATTTTGATTATTTT
Found at i:12385153 original size:16 final size:16
Alignment explanation
Indices: 12385134--12385164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12385124 TACACCCATA
*
12385134 TATATGTACATATTTT
1 TATATATACATATTTT
12385150 TATATATACATATTT
1 TATATATACATATTT
12385165 ATCGTTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATACATATTTT
Found at i:12396488 original size:24 final size:24
Alignment explanation
Indices: 12396483--12396576 Score: 152
Period size: 24 Copynumber: 3.9 Consensus size: 24
12396473 TATTGACATT
12396483 CAAATCCGCACACATAGTGCCATA
1 CAAATCCGCACACATAGTGCCATA
**
12396507 CAAATCTACACACATAGTGCCATA
1 CAAATCCGCACACATAGTGCCATA
* *
12396531 CAAATCTGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATA
12396555 CAAATCCGCACACATAGTGCCA
1 CAAATCCGCACACATAGTGCCA
12396577 AAGTCATTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.19
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATA
Found at i:12396574 original size:48 final size:48
Alignment explanation
Indices: 12396443--12396576 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
12396433 TGTTAACCCA
* * ** * * * *
12396443 CACACATAGTGTCTTAGTAATCCACACACGTATTGACATTCAAATCCG
1 CACACATAGTGCCATACAAATCCACACACATAGTGCCATACAAATCCG
* *
12396491 CACACATAGTGCCATACAAATCTACACACATAGTGCCATACAAATCTG
1 CACACATAGTGCCATACAAATCCACACACATAGTGCCATACAAATCCG
* *
12396539 CACACATAGTGCCATTCAAATCCGCACACATAGTGCCA
1 CACACATAGTGCCATACAAATCCACACACATAGTGCCA
12396577 AAGTCATTTC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 73 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (48 bp):
CACACATAGTGCCATACAAATCCACACACATAGTGCCATACAAATCCG
Found at i:12399649 original size:36 final size:36
Alignment explanation
Indices: 12399602--12399683 Score: 112
Period size: 36 Copynumber: 2.3 Consensus size: 36
12399592 GTCAGATCAA
*
12399602 CCAAAACACACCAGATGATCACACGAACCAATGCC-T
1 CCAAAACACACCACATGATCACACGAACCAAT-CCTT
* *
12399638 CCAAAACACACCACATGCTCACACGAGCCAATCCTT
1 CCAAAACACACCACATGATCACACGAACCAATCCTT
*
12399674 CTAAAACACA
1 CCAAAACACA
12399684 TCAATGCTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 2 0.05
36 39 0.95
ACGTcount: A:0.41, C:0.38, G:0.09, T:0.12
Consensus pattern (36 bp):
CCAAAACACACCACATGATCACACGAACCAATCCTT
Found at i:12406027 original size:48 final size:48
Alignment explanation
Indices: 12405865--12406031 Score: 200
Period size: 46 Copynumber: 3.6 Consensus size: 48
12405855 TGATATGTGT
* *
12405865 GCTAGTGTAA-AAATGTCTGGGACATGCATCGACCTC-AGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
* * * * ** *
12405911 GCCAGTGTAAGACATGTCTGGGACTTGCATCGGCATTGAGA-CGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
12405957 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
*
12406005 GCTAGTGTAAGACTTG-CATGGGACATG
1 GCTAGTGTAAGACATGTC-TGGGACATG
12406032 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 47 0.47
47 24 0.24
48 28 0.28
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAA
Found at i:12413273 original size:36 final size:36
Alignment explanation
Indices: 12413224--12413322 Score: 137
Period size: 36 Copynumber: 2.8 Consensus size: 36
12413214 GTCAGATCTA
* * *
12413224 CCAAAACACACCAGATGATCACACGAGCCGATCCCT
1 CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
* * *
12413260 CTAAAACACACCAGATGCTCACATGAACCAATCCCT
1 CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
12413296 CCAAAACACACCA-ATGCTCACAAGAGC
1 CCAAAACACACCAGATGCTCACAAGAGC
12413323 TAGTCCAACG
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 12 0.22
36 43 0.78
ACGTcount: A:0.39, C:0.37, G:0.11, T:0.12
Consensus pattern (36 bp):
CCAAAACACACCAGATGCTCACAAGAGCCAATCCCT
Found at i:12415366 original size:11 final size:11
Alignment explanation
Indices: 12415350--12415380 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
12415340 TAAATTCTAA
12415350 CAATTTCATAC
1 CAATTTCATAC
12415361 CAATTTCATAC
1 CAATTTCATAC
12415372 CAATTTCAT
1 CAATTTCAT
12415381 CTAATTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (11 bp):
CAATTTCATAC
Found at i:12418642 original size:27 final size:27
Alignment explanation
Indices: 12418612--12418789 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
12418602 ATATTGAGCC
* *
12418612 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
12418639 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
12418666 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
12418694 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
12418721 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
12418748 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
12418775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12418790 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:12418724 original size:55 final size:54
Alignment explanation
Indices: 12418612--12418789 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
12418602 ATATTGAGCC
* * * * *
12418612 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
12418666 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
12418721 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
12418775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12418790 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:12420001 original size:1 final size:1
Alignment explanation
Indices: 12419995--12420104 Score: 202
Period size: 1 Copynumber: 110.0 Consensus size: 1
12419985 GAATGAACTC
12419995 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
12420060 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTACTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
12420105 CTCCATCACC
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 106 1.00
ACGTcount: A:0.01, C:0.01, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:12420917 original size:33 final size:32
Alignment explanation
Indices: 12420880--12420958 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 32
12420870 TGGCCCTACC
* * *
12420880 ATGGTCTTACACTCGTAATTTCATAACCCAGTT
1 ATGGTCTTACACTAG-AATTCCATAACCCAGCT
* * *
12420913 ATGGTCTTATCATTAGGATTCCATAACCTAGCT
1 ATGGTCTTA-CACTAGAATTCCATAACCCAGCT
12420946 ATGGTCTTACACT
1 ATGGTCTTACACT
12420959 TATACATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 3 0.08
33 31 0.82
34 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (32 bp):
ATGGTCTTACACTAGAATTCCATAACCCAGCT
Found at i:12421024 original size:105 final size:102
Alignment explanation
Indices: 12420901--12421095 Score: 248
Period size: 105 Copynumber: 1.9 Consensus size: 102
12420891 CTCGTAATTT
* * *
12420901 CATAACCCAGTTATGGTCTTATCATT-AGGATTCCATAACCTAGCTATGGTCTTACACTTATACA
1 CATAACCCAGTTAAGGTCTTATCATTGA-AATGCCATAACCTAGCTATGGTCTTACACTTA-ACA
* *
12420965 TATACTGACGTGGTTCAACCATGGTCTTACGTTCACGATGC
64 -AT-CTGACATGGTCCAACCATGGTCTTACGTTCACGATGC
* * * *
12421006 CATAACCTAGTTAAGGTCTTTTCATTGAAATGCCATAGCCTAGCTATGGTCTTACATTTAACAAT
1 CATAACCCAGTTAAGGTCTTATCATTGAAATGCCATAACCTAGCTATGGTCTTACACTTAACAAT
* *
12421071 TTGTCATGGTCCAACCATGGTCTTA
66 CTGACATGGTCCAACCATGGTCTTA
12421096 TCCGTCAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
102 21 0.27
103 2 0.03
104 3 0.04
105 51 0.65
106 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (102 bp):
CATAACCCAGTTAAGGTCTTATCATTGAAATGCCATAACCTAGCTATGGTCTTACACTTAACAAT
CTGACATGGTCCAACCATGGTCTTACGTTCACGATGC
Found at i:12422828 original size:46 final size:46
Alignment explanation
Indices: 12422742--12422909 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 46
12422732 TATGAGAGCC
* * *
12422742 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACG-AGTGTT
1 AGTGTAAGA-CATGTCTGGGACAT-GTATCGGCATCGAGACGTA-AGCT
* *
12422790 AGTGTAAGACACGTCTGGGACATGTATCGGCCTCGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGTATCGGCATCGAGACGTAAGCT
* * *
12422836 AGTGTAAGACATGTCTGGGACATGCATTGGCTAT-GAGATGT--G-T
1 AGTGTAAGACATGTCTGGGACATGTATCGGC-ATCGAGACGTAAGCT
* *
12422879 CAGTGTAAGACCATGTCTAGGACATGCATCG
1 -AGTGTAAGA-CATGTCTGGGACATGTATCG
12422910 ACTATGAGAT
Statistics
Matches: 104, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.01
44 10 0.10
45 18 0.17
46 51 0.49
47 15 0.14
48 9 0.09
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGTATCGGCATCGAGACGTAAGCT
Found at i:12422902 original size:45 final size:45
Alignment explanation
Indices: 12422836--12422954 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 45
12422826 GACGTAAGCT
* * * *
12422836 AGTGTAAGA-CATGTCTGGGACATGCATTGGCTATGAGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
12422880 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
*
12422925 AGTGTAAGACCATGTCT-GGGCATGGCATCG
1 AGTGTAAGACCATGTCTAGGACAT-GCATCG
12422955 GCACAGATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 14 0.21
45 54 0.79
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGACTATGAGATATGTC
Found at i:12425118 original size:41 final size:41
Alignment explanation
Indices: 12425072--12425154 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
12425062 ACTCGTTCTG
12425072 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
1 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
* * *
12425113 ATTGCCCGTTAATCTAAGGATAAAATACTGTGCTGGAATTT
1 ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
12425154 A
1 A
12425155 GTTTAGTAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (41 bp):
ATTGCCCGTCAATCTAAGGATAAAATACTATGCTGAAATTT
Found at i:12430468 original size:33 final size:32
Alignment explanation
Indices: 12430431--12430507 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
12430421 TGCCCCTACC
* *
12430431 ATGGTCTTACACTCGTAATGCCATAA-CTCAGTT
1 ATGGTCTTACACTAG-AATGCCATAACCT-AGCT
* *
12430464 ATGGTCTTATCATTAGGATGCCATAACCTAGCT
1 ATGGTCTTA-CACTAGAATGCCATAACCTAGCT
12430497 ATGGTCTTACA
1 ATGGTCTTACA
12430508 TTTATACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 2 0.05
33 30 0.79
34 6 0.16
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (32 bp):
ATGGTCTTACACTAGAATGCCATAACCTAGCT
Found at i:12430559 original size:105 final size:105
Alignment explanation
Indices: 12430428--12430616 Score: 247
Period size: 105 Copynumber: 1.8 Consensus size: 105
12430418 CCATGCCCCT
** * * * *
12430428 ACCATGGTCTTACACTCGTAATGCCATAA-CTCAGTTATGGTCTTATCA-TTAGGATGCCATAAC
1 ACCATGGTCTTACACTCACAATGCCATAACCT-AGTTAAGGTCTTATCACTGA-AATACCATAAC
*
12430491 CTAGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
64 CCAGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
* * * *
12430533 ACCATGGTCTTACATTCACGATGCCATAACCTAGTTAAGGTCTTTTCACTGAAATACCATAGCCC
1 ACCATGGTCTTACACTCACAATGCCATAACCTAGTTAAGGTCTTATCACTGAAATACCATAACCC
12430598 AGCTATGGTCTTACATTTA
66 AGCTATGGTCTTACATTTA
12430617 ACACTTTGCC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
105 67 0.94
106 4 0.06
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (105 bp):
ACCATGGTCTTACACTCACAATGCCATAACCTAGTTAAGGTCTTATCACTGAAATACCATAACCC
AGCTATGGTCTTACATTTATACATATACTGACATGGTTCA
Found at i:12441003 original size:26 final size:28
Alignment explanation
Indices: 12440955--12441011 Score: 91
Period size: 26 Copynumber: 2.1 Consensus size: 28
12440945 AATCAAAAAG
12440955 TTAAACAGTTCTTTTTTCTTTACCTT-T
1 TTAAACAGTTCTTTTTTCTTTACCTTCT
*
12440982 TTAAACATTTC-TTTTTCTTTACCTTCT
1 TTAAACAGTTCTTTTTTCTTTACCTTCT
12441009 TTA
1 TTA
12441012 TGATTCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.19, C:0.19, G:0.02, T:0.60
Consensus pattern (28 bp):
TTAAACAGTTCTTTTTTCTTTACCTTCT
Found at i:12445325 original size:27 final size:27
Alignment explanation
Indices: 12445284--12445341 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
12445274 TTTGTAGAAA
* *
12445284 AGAGAAGTAATGAGATTAGAAAATTTT
1 AGAGAAGTAAAGAGATCAGAAAATTTT
12445311 AGAGAAGTAAAGAGATCAGAAAATTTT
1 AGAGAAGTAAAGAGATCAGAAAATTTT
12445338 AGAG
1 AGAG
12445342 TGGGTTACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.50, C:0.02, G:0.24, T:0.24
Consensus pattern (27 bp):
AGAGAAGTAAAGAGATCAGAAAATTTT
Found at i:12448318 original size:27 final size:27
Alignment explanation
Indices: 12448278--12448342 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
12448268 TTTTATTTTA
* *
12448278 TTTTTAAAAATATTCAAA-ATA-TTATAT
1 TTTTTAATATTATT-AAACATACTTAT-T
12448305 TTTTTAATATTATTAAACATACTTATT
1 TTTTTAATATTATTAAACATACTTATT
12448332 TTATTT-ATATT
1 TT-TTTAATATT
12448343 TAGTCATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 3 0.09
27 23 0.70
28 7 0.21
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTTAATATTATTAAACATACTTATT
Found at i:12448394 original size:13 final size:14
Alignment explanation
Indices: 12448378--12448419 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
12448368 TTTTAATTTT
12448378 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
12448391 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
12448406 ATTTTGAATAATAT
1 ATTTT-AATAATAT
12448420 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:12448471 original size:15 final size:15
Alignment explanation
Indices: 12448437--12448507 Score: 56
Period size: 15 Copynumber: 4.6 Consensus size: 15
12448427 ATATTATTGA
12448437 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
12448450 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
12448465 AAATATTTATTATAATTAT
1 AAATA--T-TT-TAATAAT
*
12448484 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
12448499 AAATGTTTT
1 AAATATTTT
12448508 GTAATATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 19 0.42
16 1 0.02
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:12448480 original size:19 final size:19
Alignment explanation
Indices: 12448453--12448489 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12448443 TTAATATTAA
*
12448453 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
12448472 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
12448490 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:12449006 original size:15 final size:14
Alignment explanation
Indices: 12448969--12448999 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12448959 ATAAATTATT
12448969 TTTC-AAAAATTAA
1 TTTCTAAAAATTAA
12448982 TTTCTAAAAATTAA
1 TTTCTAAAAATTAA
12448996 TTTC
1 TTTC
12449000 AGTAAAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTCTAAAAATTAA
Found at i:12449693 original size:22 final size:22
Alignment explanation
Indices: 12449668--12449715 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
12449658 ATTTTTTTTC
12449668 TTTAAAGGGAATAATTT-GATAT
1 TTTAAAGGGAATAATTTAGAT-T
* * *
12449690 TTTACATGGAATTATTTAGATT
1 TTTAAAGGGAATAATTTAGATT
12449712 TTTA
1 TTTA
12449716 TAGAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (22 bp):
TTTAAAGGGAATAATTTAGATT
Found at i:12460936 original size:33 final size:34
Alignment explanation
Indices: 12460894--12461001 Score: 157
Period size: 34 Copynumber: 3.2 Consensus size: 34
12460884 TTTACATTTA
*
12460894 TGATACTATTACCGTAAT-GGCTAAGGCCCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
*
12460927 TGATACTATTACTGTAATGGGCTAAGGCTCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
* *
12460961 CGATACTATTACTGCAATGGGCTAAGG-CCACAC
1 TGATACTATTACTGTAATGGGCTAAGGCCCACAC
*
12460994 TAATACTA
1 TGATACTA
12461002 GACTGTCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 28 0.42
34 39 0.58
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (34 bp):
TGATACTATTACTGTAATGGGCTAAGGCCCACAC
Found at i:12466670 original size:186 final size:186
Alignment explanation
Indices: 12466356--12466729 Score: 615
Period size: 186 Copynumber: 2.0 Consensus size: 186
12466346 ATTTATCCCC
*
12466356 TACAAAAGGACTGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
1 TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
* * *
12466421 GTTTCTAACTTATCTTATTTTTTCCAATAGAGACCATCAGCTTACGGTCTTTTTTAATTTAACCC
66 GTTTCTAACTTATCCTATTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAACCC
* *
12466486 CTAATGTTCCTAATTTTTCGAGTTTAAAGGAAATCCTGGTATCATAATTTCTGGTG
131 CTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
* ** *
12466542 TACAAAAGGACAGGCTGGTTCTAATTCAACTGAACCAAAATTGGATTTCAACATTGTCCAATATT
1 TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
*
12466607 GTTTCTAACTTTTCCTATTTTTTTCCAATAAAGACCATCAAC-TACGGTCTTTTTTAATTTAACC
66 GTTTCTAACTTATCCTA-TTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAACC
* *
12466671 CCTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCTTGGTGTAATAATTTCTGGTG
130 CCTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
12466728 TA
1 TA
12466730 TTTACTGCCA
Statistics
Matches: 174, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
186 152 0.87
187 22 0.13
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (186 bp):
TACAAAAGGACAGGCTGGTTCTAATCCAACCAAACCAAAATTGGATTTCAACAATGTCCAATATT
GTTTCTAACTTATCCTATTTTTTCCAATAAAGACCATCAACTTACGGTCTTTTTTAATTTAACCC
CTAATGTTCCTAATTTTTCGAGTTTAAAGAAAATCCTGGTATAATAATTTCTGGTG
Found at i:12469956 original size:67 final size:68
Alignment explanation
Indices: 12469721--12470005 Score: 246
Period size: 67 Copynumber: 4.2 Consensus size: 68
12469711 ATCACTAAGT
* * * * * * * *
12469721 TATGGTTTTACACATCATACCCCATGTTTAAT-TTCCTGGAGGACTCTCTATGTTGTCATAGTC-
1 TATGGTCTTACACATTAAACCTCATGTTTAATGTT-CTAGTGGACTCTTTATGTTGTCATAGCCA
*
12469784 GAGC
65 TAGC
* * * * * *
12469788 TATGATCTTTCACATTATACCTTATATTTAATG-TCTTGGTGGACTCTTTATGTTG-CTATAGCC
1 TATGGTCTTACACATTAAACCTCATGTTTAATGTTC-TAGTGGACTCTTTATGTTGTC-ATAGCC
12469851 A-AGC
64 ATAGC
* *
12469855 TATGGTCTTACGCATTATAACC-CATGTTTGATGTTCTAGTGGACTCTTTATGTTGTCATAG-CA
1 TATGGTCTTACACATTA-AACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCA
12469918 TAGC
65 TAGC
**** * * *
12469922 TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAACAAACTCTTTATATTGCCATAG--TT
1 TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCAT
12469985 GAGC
66 -AGC
12469989 TATGGTCTTACACATTA
1 TATGGTCTTACACATTA
12470006 CCCCATTACA
Statistics
Matches: 181, Mismatches: 27, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
66 9 0.05
67 166 0.92
68 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.40
Consensus pattern (68 bp):
TATGGTCTTACACATTAAACCTCATGTTTAATGTTCTAGTGGACTCTTTATGTTGTCATAGCCAT
AGC
Found at i:12471645 original size:3 final size:3
Alignment explanation
Indices: 12471639--12471676 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12471629 CATCATTTAT
12471639 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
12471677 TTCACACAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:12471922 original size:21 final size:21
Alignment explanation
Indices: 12471881--12471930 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
12471871 TATCTTTAAC
*
12471881 TTAATATAAAATAATAATAAT
1 TTAATATAAAACAATAATAAT
12471902 TTAATATAAAACCATACTAATAA-
1 TTAATATAAAA-CA-A-TAATAAT
12471925 TTAATA
1 TTAATA
12471931 ATAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 7 0.28
24 6 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (21 bp):
TTAATATAAAACAATAATAAT
Found at i:12477040 original size:76 final size:76
Alignment explanation
Indices: 12476914--12477066 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
12476904 CAAAAATCCC
12476914 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCGATTT-AGCCTG
1 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCGATTTAAGCC-G
12476978 AGAATCGGCTAA
65 AGAATCGGCTAA
* *
12476990 AACTCAATTTTGACTCAAAAGTGGCATGTACTATTAGACTCACTTCCGAGCTCGATTTAAGTCGA
1 AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCGATTTAAGCCGA
12477055 GAATCGGCTAA
66 GAATCGGCTAA
12477066 A
1 A
12477067 CTTGATAGCT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 71 0.96
77 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (76 bp):
AACTCAATTTTGACTCAAAAGTGACATGTACTATTAGACTCACTTCCGAGCTCGATTTAAGCCGA
GAATCGGCTAA
Found at i:12478877 original size:3 final size:3
Alignment explanation
Indices: 12478861--12478925 Score: 50
Period size: 3 Copynumber: 23.0 Consensus size: 3
12478851 ATCTTTAACT
* **
12478861 TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA T-T TAA T-A TAA -AA CCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
12478904 TAC TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA
12478926 AATCTTAGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
2 9 0.18
3 37 0.76
4 3 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12478895 original size:30 final size:31
Alignment explanation
Indices: 12478860--12478920 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
12478850 TATCTTTAAC
*
12478860 TTAATATAAAATAATAATAATAA-TAATAAT
1 TTAATATAAAACAATAATAATAATTAATAAT
* *
12478890 TTAATATAAAACCATACTAATAATTAATAAT
1 TTAATATAAAACAATAATAATAATTAATAAT
12478921 AATAAAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (31 bp):
TTAATATAAAACAATAATAATAATTAATAAT
Found at i:12483953 original size:10 final size:11
Alignment explanation
Indices: 12483928--12483956 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12483918 TGTAAATATT
12483928 GTGTATTTTTA
1 GTGTATTTTTA
12483939 GTGTATTTTTA
1 GTGTATTTTTA
12483950 -TGTATTT
1 GTGTATTT
12483957 AGTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (11 bp):
GTGTATTTTTA
Found at i:12486100 original size:20 final size:20
Alignment explanation
Indices: 12486072--12486180 Score: 112
Period size: 20 Copynumber: 5.5 Consensus size: 20
12486062 AGATGCATAA
12486072 CAGGGGCACCGAAGTGCAAT
1 CAGGGGCACCGAAGTGCAAT
* *
12486092 CAGGAGCA-CGAATGTGCGAT
1 CAGGGGCACCGAA-GTGCAAT
12486112 CAGGGGCACCGAAGTGCAAT
1 CAGGGGCACCGAAGTGCAAT
* ** * * *
12486132 CAAGGGCATAGATGTGTATT
1 CAGGGGCACCGAAGTGCAAT
* *
12486152 CAGGTGCACCGAAGTGCAAA
1 CAGGGGCACCGAAGTGCAAT
12486172 CAGGGGCAC
1 CAGGGGCAC
12486181 AGATGTACAT
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
19 4 0.06
20 60 0.88
21 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.34, T:0.14
Consensus pattern (20 bp):
CAGGGGCACCGAAGTGCAAT
Found at i:12486193 original size:40 final size:40
Alignment explanation
Indices: 12486072--12486194 Score: 151
Period size: 40 Copynumber: 3.1 Consensus size: 40
12486062 AGATGCATAA
*
12486072 CAGGGGCACCGAAGTGCAATCAGGAGCAC-GAATGTGCGA-T
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAG-ATGTGC-ATT
* * *
12486112 CAGGGGCACCGAAGTGCAATCAAGGGCATAGATGTGTATT
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
* * *
12486152 CAGGTGCACCGAAGTGCAAACAGGGGCACAGATGTACATT
1 CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
12486192 CAG
1 CAG
12486195 AGGTATCGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.33, T:0.15
Consensus pattern (40 bp):
CAGGGGCACCGAAGTGCAATCAGGGGCACAGATGTGCATT
Found at i:12486205 original size:40 final size:40
Alignment explanation
Indices: 12486072--12486216 Score: 118
Period size: 40 Copynumber: 3.6 Consensus size: 40
12486062 AGATGCATAA
* * *
12486072 CAGGGGCACCGAAGTGCAATC-AGGAGCAC-GAATGTGCGA-T
1 CAGGTGCACCGAAGTGCAAACAAGG-GCACAG-ATGTAC-ATT
* * * **
12486112 CAGGGGCACCGAAGTGCAATCAAGGGCATAGATGTGTATT
1 CAGGTGCACCGAAGTGCAAACAAGGGCACAGATGTACATT
*
12486152 CAGGTGCACCGAAGTGCAAACAGGGGCACAGATGTACATT
1 CAGGTGCACCGAAGTGCAAACAAGGGCACAGATGTACATT
* * *
12486192 CAGAG-GTATCGAAGTACAAACAAGG
1 CAG-GTGCACCGAAGTGCAAACAAGG
12486217 CACTACTTCA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 83 0.93
41 5 0.06
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.15
Consensus pattern (40 bp):
CAGGTGCACCGAAGTGCAAACAAGGGCACAGATGTACATT
Found at i:12490858 original size:13 final size:13
Alignment explanation
Indices: 12490819--12490858 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
12490809 GAAGTAATCG
12490819 CACACGGGCGTGT
1 CACACGGGCGTGT
*
12490832 CACACAGGCGTGT
1 CACACGGGCGTGT
* *
12490845 CATACGGGCATGT
1 CACACGGGCGTGT
12490858 C
1 C
12490859 CCTGCCGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:12491436 original size:17 final size:17
Alignment explanation
Indices: 12491414--12491448 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12491404 TATAGATCGA
12491414 GTTAATGCAACCCTAGG
1 GTTAATGCAACCCTAGG
12491431 GTTAATGCAACCCTAGG
1 GTTAATGCAACCCTAGG
12491448 G
1 G
12491449 AGTTAACTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (17 bp):
GTTAATGCAACCCTAGG
Found at i:12502490 original size:13 final size:13
Alignment explanation
Indices: 12502472--12502498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12502462 GCTTGGCAGG
12502472 GACACGCCCGTGT
1 GACACGCCCGTGT
12502485 GACACGCCCGTGT
1 GACACGCCCGTGT
12502498 G
1 G
12502499 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:12503177 original size:49 final size:50
Alignment explanation
Indices: 12503122--12503250 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
12503112 GTTGTGTGTC
*
12503122 AGTGTAAGACCTGTCTGGGACATGACATCGAAAC-CGATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGACATCGAAACTCGATAGATGAAAGCT
* * * ** * *
12503171 AGTGTAAGACTTGTCTAGGACACGACATCG-GCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGACATCGAAACTCGATAGATGAAAGCT
* *
12503220 AGTGTAAGAACTGTTTGGGACAT-AGCATCGA
1 AGTGTAAGACCTGTCTGGGACATGA-CATCGA
12503251 CTTTGATGTG
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
48 2 0.03
49 62 0.97
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCTGTCTGGGACATGACATCGAAACTCGATAGATGAAAGCT
Found at i:12503290 original size:141 final size:138
Alignment explanation
Indices: 12503019--12503287 Score: 315
Period size: 142 Copynumber: 1.9 Consensus size: 138
12503009 ATCGACATTA
* * *
12503019 AGATGAGAGCTAGTGTAAGACATGTCTGGGACATGAATTGGCCTCGAGATATACAAGCTAATGTA
1 AGATGAGAGCTAGTGTAAGACATGTCTAGGACACGAATCGGCCTCGAGATATACAAGCTAATGTA
* * * * *
12503084 AGACCTATTTGGGACATGGCGTCAACTTGTTGTGTGTCAGTGTAAGACCTGTCTGGGACATGACA
66 AGAACTATTTGGGACATAGCATCAACTTGATGTGTGCCAGTGTAAGACCTGTCTGGG--A-GACA
12503149 TCGAAACCGAT
128 TCGAAACCGAT
* * * *
12503160 AGATGAGAGCTAGTGTAAGACTTGTCTAGGACACGACATCGGCCTCGATATATGA-AAGTTAGTG
1 AGATGAGAGCTAGTGTAAGACATGTCTAGGACACGA-ATCGGCCTCGAGATAT-ACAAGCTAATG
* * *
12503224 TAAGAACTGTTTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTTAGACCATGTCTGGGA
64 TAAGAACTATTTGGGACATAGCATCAAC-TTGATGTG-T-GCCAGTGTAAGACC-TGTCTGGGA
12503288 CATGACGTCG
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
141 33 0.31
142 44 0.41
143 8 0.07
144 2 0.02
145 12 0.11
146 8 0.07
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (138 bp):
AGATGAGAGCTAGTGTAAGACATGTCTAGGACACGAATCGGCCTCGAGATATACAAGCTAATGTA
AGAACTATTTGGGACATAGCATCAACTTGATGTGTGCCAGTGTAAGACCTGTCTGGGAGACATCG
AAACCGAT
Done.