Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 334 of 344
Found at i:108538872 original size:3 final size:3
Alignment explanation
Indices: 108538866--108538911 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
108538856 TTTTCTTTCT
*
108538866 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
108538912 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:108538895 original size:10 final size:10
Alignment explanation
Indices: 108538880--108538908 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
108538870 TCTTCCTCTT
108538880 TTCTTCTTCC
1 TTCTTCTTCC
108538890 TTCTTCTTCC
1 TTCTTCTTCC
108538900 TTCTTCTTC
1 TTCTTCTTC
108538909 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:108538896 original size:13 final size:13
Alignment explanation
Indices: 108538866--108538911 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
108538856 TTTTCTTTCT
108538866 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
108538878 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
108538890 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
108538903 TTCTTCTTC
1 TTCTTCTTC
108538912 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:108538996 original size:23 final size:23
Alignment explanation
Indices: 108538966--108539011 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
108538956 GACGCCGGTA
*
108538966 CTCTTTCTTTTCTTCTCCTCTTT
1 CTCTTTCTTCTCTTCTCCTCTTT
* *
108538989 CTCTTTCTTCTCTTTTCTTCTTT
1 CTCTTTCTTCTCTTCTCCTCTTT
108539012 TTTCCTTCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (23 bp):
CTCTTTCTTCTCTTCTCCTCTTT
Found at i:108538997 original size:18 final size:17
Alignment explanation
Indices: 108538966--108539000 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
108538956 GACGCCGGTA
108538966 CTCTTTCTTTTCTTCTC
1 CTCTTTCTTTTCTTCTC
108538983 CTCTTTCTCTTTCTTCTC
1 CTCTTTCT-TTTCTTCTC
108539001 TTTTCTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
CTCTTTCTTTTCTTCTC
Found at i:108539298 original size:29 final size:29
Alignment explanation
Indices: 108539260--108539376 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
108539250 TGTAATTTTT
* *
108539260 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTTAAAATGAAATTTAA
* *
108539289 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAGTTTA-GGGT-TAAAATGAAATTTAA
*
108539319 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTTAAAATGAAATTTAA
* * *
108539348 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AG-AAAGTTTAGG-GTTAAAATGAAATTT
108539377 TTATTTTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.18
30 58 0.79
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAGTTTAGGGTTAAAATGAAATTTAA
Found at i:108539315 original size:30 final size:30
Alignment explanation
Indices: 108539275--108539376 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
108539265 ATTTAGGATT
*
108539275 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
108539305 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
108539335 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
108539365 AAAATGCAATTT
1 AAAATGAAATTT
108539377 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:108539866 original size:53 final size:54
Alignment explanation
Indices: 108539648--108539897 Score: 377
Period size: 53 Copynumber: 4.7 Consensus size: 54
108539638 CACGTGAGCC
* *
108539648 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
108539703 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
108539753 AAGGCTCAACTCACTTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
108539807 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108539860 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
108539898 TTTTTTGAAA
Statistics
Matches: 180, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
50 47 0.26
52 1 0.01
53 50 0.28
54 38 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:108539937 original size:13 final size:14
Alignment explanation
Indices: 108539909--108539941 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
108539899 TTTTTGAAAC
108539909 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
108539923 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
108539936 ACAGAA
1 ACAGAA
108539942 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:108539949 original size:14 final size:14
Alignment explanation
Indices: 108539902--108539949 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
108539892 ATTTTTTTTT
*
108539902 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
108539916 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
108539930 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
108539943 TTGAAAA
1 TTGAAAA
108539950 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:108540213 original size:72 final size:72
Alignment explanation
Indices: 108540025--108540889 Score: 1324
Period size: 72 Copynumber: 12.1 Consensus size: 72
108540015 ATTAGTAAAG
* * * *
108540025 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
108540089 TTTGAAAA
65 TTTGAAAA
* *
108540097 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
108540162 TTTGAAAA
65 TTTGAAAA
*
108540170 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108540235 TTGAGAAG
66 TTGA-AAA
*
108540243 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540308 TTGAAAA
66 TTGAAAA
108540315 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540380 TTGAAAA
66 TTGAAAA
*
108540387 CAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108540452 TTGAGAAG
66 TTGA-AAA
*
108540460 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540525 TTGAAAA
66 TTGAAAA
108540532 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540595 TTGAAAA
66 TTGAAAA
108540602 CAGAAATTGAAA-TACCTCAACGTGTC-TGA-GCTCAACTCA--TCT-GCAATATGAG-TGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540659 TTGAAAA
66 TTGAAAA
* * * *
108540666 CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540731 TTGAAAA
66 TTGAAAA
* * * *
108540738 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108540803 TTTAACAA
66 TTGAA-AA
* * * ** * *
108540811 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-A-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108540874 TTGAAAAA
66 TTG-AAAA
*
108540882 CATAAATT
1 CAGAAATT
108540890 AAAAGGCTTA
Statistics
Matches: 745, Mismatches: 34, Indels: 28
0.92 0.04 0.03
Matches are distributed among these distances:
64 24 0.03
65 23 0.03
66 6 0.01
67 20 0.03
68 3 0.00
69 17 0.02
70 29 0.04
71 36 0.05
72 325 0.44
73 260 0.35
74 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:108540276 original size:145 final size:144
Alignment explanation
Indices: 108540025--108540889 Score: 1326
Period size: 145 Copynumber: 6.1 Consensus size: 144
108540015 ATTAGTAAAG
* * * *
108540025 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
108540089 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
108540154 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
*
108540170 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108540235 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
108540300 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
108540315 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
108540380 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
108540445 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
108540460 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108540525 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
108540589 TTGAA-TTTGAAAA
131 TTGAATTTTGAAAA
108540602 CAGAAATTGAAA-TACCTCAACGTGTC-TGA-GCTCAACTCA--TCT-GCAATATGAG-TGAA-T
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
108540659 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
108540724 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
* * * *
108540738 TAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * * ** *
108540803 TTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
66 TTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
108540867 AATTG-A-TTTGAAAAA
129 AGTTGAATTTTG-AAAA
*
108540882 CATAAATT
1 CAGAAATT
108540890 AAAAGGCTTA
Statistics
Matches: 674, Mismatches: 30, Indels: 33
0.91 0.04 0.04
Matches are distributed among these distances:
134 47 0.07
135 23 0.03
136 29 0.04
137 16 0.02
138 3 0.00
139 20 0.03
140 3 0.00
141 17 0.03
142 24 0.04
143 12 0.02
144 109 0.16
145 367 0.54
146 4 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:108540398 original size:217 final size:217
Alignment explanation
Indices: 108540022--108540872 Score: 1384
Period size: 217 Copynumber: 4.0 Consensus size: 217
108540012 AGAATTAGTA
* * *
108540022 AAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-A
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
108540086 AGTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
66 A-TTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
108540151 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
129 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
108540216 TTGCAATATGAGTTGAATTTTGAG
194 TTGCAATATGAGTTGAATTTTGAG
108540240 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
108540305 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* *
108540370 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCATTTCTC
131 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTT
108540435 GCAATATGAGTTGAATTTTGAG
196 GCAATATGAGTTGAATTTTGAG
108540457 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
108540522 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA-TTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
108540586 GAGTTGAA-TTTGAAAACAGAAATTGAAA-TACCTCAACGTGTC-TGA-GCTCAACTCA--TC-T
131 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTT
108540644 GCAATATGAG-TGAA-TTTGA-
196 GCAATATGAGTTGAATTTTGAG
* * * *
108540663 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * *
108540728 ATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * * * * **
108540793 GAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
131 GAGTTGAATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
* *
108540858 AGCAATATGAATTGA
195 TGCAATATGAGTTGA
108540873 TTTGAAAAAC
Statistics
Matches: 600, Mismatches: 22, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
206 110 0.18
207 24 0.04
208 9 0.01
209 23 0.04
210 15 0.03
211 3 0.00
212 20 0.03
213 2 0.00
214 16 0.03
215 29 0.05
216 23 0.04
217 255 0.43
218 69 0.12
219 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (217 bp):
AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTT
GCAATATGAGTTGAATTTTGAG
Found at i:108541024 original size:121 final size:123
Alignment explanation
Indices: 108540768--108541042 Score: 333
Period size: 121 Copynumber: 2.2 Consensus size: 123
108540758 GCGTGTCCTG
** * * * *
108540768 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTAACAACAGAAATTAAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAG-TCA-TATTTAACAACAGAAACTAAAAATACCTCAGC
* *
108540833 GTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTGAAAAACATAAATTAAA
64 GTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTGAAAAACAGAAATTAAA
* * **
108540893 AGGCTTAACTCACCTCTCGCAATATGAGTCA-ATTTAA-AACATAAACTAAAAATACCTTGGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAACAACAGAAACTAAAAATACCTCAGCGT
* * *
108540956 GCCCT-AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TAAA
66 GCCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGA--TTTGAAAAACAGAAATTAAA
**
108541014 AGGCTCAACTCACCTCTCGTGATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
108541043 TGATTTTCTT
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
120 29 0.22
121 55 0.42
122 19 0.15
124 2 0.02
125 25 0.19
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.29
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCATATTTAACAACAGAAACTAAAAATACCTCAGCGT
GCCCTGAGGCTCAACTCACCTCTAGCAATATGAATTGATTTGAAAAACAGAAATTAAA
Found at i:108556516 original size:36 final size:34
Alignment explanation
Indices: 108556436--108556529 Score: 89
Period size: 35 Copynumber: 2.6 Consensus size: 34
108556426 ACTTTTTCTT
* * *
108556436 TTTTGAAAACACGATTTTTTTTAAAAATACAAGAA
1 TTTTG-AAACACGATTTTTTTAAAAAAAACAAAAA
* *
108556471 TTTCAGAAACCCGATTTTTTTAAAAAAAACACGAAAA
1 TTT-TGAAACACGATTTTTTTAAAAAAAACA--AAAA
108556508 TTTTGAAACACGAGATTTTTTT
1 TTTTGAAACAC--GATTTTTTT
108556530 GAAACACGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
35 25 0.53
36 7 0.15
37 6 0.13
38 9 0.19
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (34 bp):
TTTTGAAACACGATTTTTTTAAAAAAAACAAAAA
Found at i:108556542 original size:17 final size:18
Alignment explanation
Indices: 108556508--108556543 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
108556498 AACACGAAAA
108556508 TTTTGAAACACGAGATTT
1 TTTTGAAACACGAGATTT
108556526 TTTTGAAACACGA-ATTT
1 TTTTGAAACACGAGATTT
108556543 T
1 T
108556544 CTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTTGAAACACGAGATTT
Found at i:108556543 original size:16 final size:16
Alignment explanation
Indices: 108556497--108556543 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
108556487 TTTTTAAAAA
**
108556497 AAACACGAAAATTTTG
1 AAACACGAATTTTTTG
108556513 AAACACGAGATTTTTTTG
1 AAACACGA-A-TTTTTTG
108556531 AAACACGAATTTT
1 AAACACGAATTTT
108556544 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 13 0.48
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
AAACACGAATTTTTTG
Found at i:108556567 original size:16 final size:16
Alignment explanation
Indices: 108556545--108556580 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
108556535 ACGAATTTTC
*
108556545 TTTTTTAAACACGAAAA
1 TTTTTAAAACAC-AAAA
108556562 TTTTTAAAACACAAAA
1 TTTTTAAAACACAAAA
108556578 TTT
1 TTT
108556581 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTTTAAAACACAAAA
Found at i:108556593 original size:38 final size:37
Alignment explanation
Indices: 108556508--108556590 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
108556498 AACACGAAAA
** * * *
108556508 TTTTGAAACACGAGATTTTTTTGAAACACGAATTTTCT
1 TTTTGAAACACGA-AAATTTTTAAAACACAAAATTTCT
* *
108556546 TTTTTAAACACGAAAATTTTTAAAACACAAAATTTGT
1 TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
108556583 TTTTGAAA
1 TTTTGAAA
108556591 ACATAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (37 bp):
TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
Found at i:108556602 original size:22 final size:20
Alignment explanation
Indices: 108556562--108556602 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
108556552 AACACGAAAA
*
108556562 TTTTTAAAACACAAAATTTG
1 TTTTTAAAACAAAAAATTTG
108556582 TTTTTGAAAACATAAAAATTT
1 TTTTT-AAAACA-AAAAATTT
108556603 TGATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTAAAACAAAAAATTTG
Found at i:108556648 original size:20 final size:20
Alignment explanation
Indices: 108556615--108556745 Score: 62
Period size: 21 Copynumber: 6.8 Consensus size: 20
108556605 ATAAAAAATG
**
108556615 AAACACGAGGATTTTTTTTA
1 AAACACGAAAATTTTTTTTA
*
108556635 AAACACGAAAA---TTTAT-
1 AAACACGAAAATTTTTTTTA
* ** *
108556651 GAACACGGTCAATTTTTTTGA
1 AAACAC-GAAAATTTTTTTTA
* *
108556672 AAACATGAAAA---TTTTTG
1 AAACACGAAAATTTTTTTTA
* *
108556689 AAAGACGAGAATTTTTTTGTA
1 AAACACGAAAATTTTTTT-TA
108556710 AAACAC-AGAAATTTTTTTTGA
1 AAACACGA-AAATTTTTTTT-A
*
108556731 AAACAAGAAAATTTT
1 AAACACGAAAATTTT
108556746 CAAAATACGG
Statistics
Matches: 78, Mismatches: 21, Indels: 23
0.64 0.17 0.19
Matches are distributed among these distances:
16 5 0.06
17 19 0.24
20 21 0.27
21 32 0.41
22 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (20 bp):
AAACACGAAAATTTTTTTTA
Found at i:108556687 original size:21 final size:19
Alignment explanation
Indices: 108556661--108556745 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 19
108556651 GAACACGGTC
108556661 AATTTTTTTGAAAACATGAA
1 AATTTTTTTGAAAACA-GAA
*
108556681 AA--TTTTTGAAAGAC-GAG
1 AATTTTTTTGAAA-ACAGAA
108556698 AATTTTTTTGTAAAACACAGAA
1 AATTTTTTTG--AAA-ACAGAA
*
108556720 ATTTTTTTTGAAAACAAGAA
1 AATTTTTTTGAAAAC-AGAA
108556740 AATTTT
1 AATTTT
108556746 CAAAATACGG
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.08
18 9 0.17
19 10 0.19
20 14 0.26
21 5 0.09
22 11 0.21
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.39
Consensus pattern (19 bp):
AATTTTTTTGAAAACAGAA
Found at i:108556688 original size:18 final size:18
Alignment explanation
Indices: 108556665--108556869 Score: 90
Period size: 17 Copynumber: 11.6 Consensus size: 18
108556655 ACGGTCAATT
108556665 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
**
108556683 TTTTTGAAAGACGA-GAATT
1 TTTTTGAAA-AC-ATGAAAA
* *
108556702 TTTTTGTAAAACACAGAAATTT
1 TTTTTG-AAAACA-TGAAA--A
*
108556724 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACATGAAAA
* * * **
108556742 -TTTTCAAAATACGGGAA
1 TTTTTGAAAACATGAAAA
*
108556759 TTTTTGAAAACACT----T
1 TTTTTGAAAACA-TGAAAA
*
108556774 TTTTTTAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
*
108556792 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACA-TGAAAA
* *
108556809 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACATGAAAA
* *
108556826 TTTTTG-AAACGTGAGAA
1 TTTTTGAAAACATGAAAA
*
108556843 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACATGAAAA
*
108556860 TTTTTTAAAA
1 TTTTTGAAAA
108556870 AAAACACGGA
Statistics
Matches: 141, Mismatches: 28, Indels: 37
0.68 0.14 0.18
Matches are distributed among these distances:
14 1 0.01
15 11 0.08
16 6 0.04
17 49 0.35
18 36 0.26
19 13 0.09
20 12 0.09
21 6 0.04
22 7 0.05
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACATGAAAA
Found at i:108556705 original size:38 final size:37
Alignment explanation
Indices: 108556612--108556859 Score: 128
Period size: 37 Copynumber: 6.9 Consensus size: 37
108556602 TTGATAAAAA
* *
108556612 ATGAAACACGAGGATTTTTTTTAAAACACGAAAATTT
1 ATGAAACACGAGAATTTTTTTGAAAACACGAAAATTT
*
108556649 ATG-AACACG-GTCAATTTTTTTGAAAACATGAAAATTT
1 ATGAAACACGAG--AATTTTTTTGAAAACACGAAAATTT
* * *
108556686 TTGAAAGACGAGAATTTTTTTGTAAAACACAGAAATTTTTT
1 ATGAAACACGAGAATTTTTTTG-AAAACAC-GAAA--ATTT
* * ** * * **
108556727 TTGAAA-ACAAGAA-AATTTTCAAAATACGGGAATTT
1 ATGAAACACGAGAATTTTTTTGAAAACACGAAAATTT
* * * *
108556762 TTGAAA-AC---ACTTTTTTTTAAAACATGAAAATTT
1 ATGAAACACGAGAATTTTTTTGAAAACACGAAAATTT
* *
108556795 TTGAAACACTG-GAA---TTTTGAAAACACGAAGATTT
1 ATGAAACAC-GAGAATTTTTTTGAAAACACGAAAATTT
* **
108556829 TTGAAACGTGAGAA--TTTTTGAAAACACGAAA
1 ATGAAACACGAGAATTTTTTTGAAAACACGAAA
108556860 TTTTTTAAAA
Statistics
Matches: 166, Mismatches: 30, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
32 1 0.01
33 22 0.13
34 29 0.17
35 27 0.16
36 6 0.04
37 40 0.24
38 17 0.10
39 9 0.05
40 6 0.04
41 9 0.05
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (37 bp):
ATGAAACACGAGAATTTTTTTGAAAACACGAAAATTT
Found at i:108556733 original size:59 final size:51
Alignment explanation
Indices: 108556663--108556820 Score: 160
Period size: 59 Copynumber: 3.0 Consensus size: 51
108556653 ACACGGTCAA
108556663 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTTTGTAAAACACAGAAAT
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAA--TTTTTG-AAAACAC-----T
* ** * *
108556722 TTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAATTTTTGAAAACACT
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTGAAAACACT
*
108556773 TTTTTTT-AAAACATGAAAATTTTTGAAACACTG-GAA-TTTTGAAAACAC
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGAC-GAGAATTTTTGAAAACAC
108556821 GAAGATTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
49 12 0.13
50 23 0.26
51 9 0.10
56 7 0.08
57 6 0.07
59 32 0.36
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (51 bp):
TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTGAAAACACT
Found at i:108556829 original size:34 final size:34
Alignment explanation
Indices: 108556774--108556864 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 34
108556764 GAAAACACTT
* *
108556774 TTTTTTAAAACATGAAAATTTTTGAAACACTG-GAA
1 TTTTTGAAAACACG-AAATTTTTGAAAC-CTGAGAA
*
108556809 -TTTTGAAAACACGAAGATTTTTGAAACGTGAGAA
1 TTTTTGAAAACACGAA-ATTTTTGAAACCTGAGAA
108556843 TTTTTGAAAACACGAAATTTTT
1 TTTTTGAAAACACGAAATTTTT
108556865 TAAAAAAAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 4 0.08
34 31 0.62
35 15 0.30
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (34 bp):
TTTTTGAAAACACGAAATTTTTGAAACCTGAGAA
Found at i:108556893 original size:17 final size:17
Alignment explanation
Indices: 108556775--108556904 Score: 74
Period size: 17 Copynumber: 7.3 Consensus size: 17
108556765 AAAACACTTT
* * *
108556775 TTTTTAAAACATGAAAA
1 TTTTTGAAACACGGAAA
108556792 TTTTTGAAACACTGG-AA
1 TTTTTGAAACAC-GGAAA
108556809 -TTTTGAAAACAC-GAAGA
1 TTTTTG-AAACACGGAA-A
108556826 TTTTTG-AA-ACGTGAGAA
1 TTTTTGAAACACG-GA-AA
108556843 TTTTTGAAAACAC-GAAA
1 TTTTTG-AAACACGGAAA
*
108556860 TTTTTTAAAAAAAACACGGAAA
1 -TTTTT----GAAACACGGAAA
108556882 TTTTTGAAACACGAGAAA
1 TTTTTGAAACACG-GAAA
108556900 TTTTT
1 TTTTT
108556905 TTAAAAAACC
Statistics
Matches: 90, Mismatches: 5, Indels: 35
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.03
16 8 0.09
17 37 0.41
18 23 0.26
19 2 0.02
20 2 0.02
21 11 0.12
22 4 0.04
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTGAAACACGGAAA
Found at i:108556942 original size:38 final size:38
Alignment explanation
Indices: 108556841--108556944 Score: 129
Period size: 39 Copynumber: 2.7 Consensus size: 38
108556831 GAAACGTGAG
*
108556841 AATTTTTGAAAACACGAAATTTTTTAAAAAAAACACGGA
1 AATTTTTG-AAACACGAAATTTTTTAAAAAAAACACGAA
* *
108556880 AATTTTTGAAACACGAGAAATTTTTT-TAAAAAACCCGAA
1 AATTTTTGAAACAC--GAAATTTTTTAAAAAAAACACGAA
**
108556919 AATTTTTGAAACACGATTTTTTTTAA
1 AATTTTTGAAACACGAAATTTTTTAA
108556945 GAAGTATTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
37 8 0.14
38 6 0.11
39 32 0.57
40 10 0.18
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.35
Consensus pattern (38 bp):
AATTTTTGAAACACGAAATTTTTTAAAAAAAACACGAA
Found at i:108557376 original size:21 final size:21
Alignment explanation
Indices: 108557350--108557389 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
108557340 AAAAAGCTCA
108557350 AAAATACGAGATTGACCGATC
1 AAAATACGAGATTGACCGATC
*
108557371 AAAATACGAGCTTGACCGA
1 AAAATACGAGATTGACCGA
108557390 GAGGGTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (21 bp):
AAAATACGAGATTGACCGATC
Found at i:108557426 original size:7 final size:7
Alignment explanation
Indices: 108557414--108557492 Score: 72
Period size: 7 Copynumber: 11.1 Consensus size: 7
108557404 TCGAGCCTTC
108557414 CTTTTTT
1 CTTTTTT
108557421 CTTTTTT
1 CTTTTTT
*
108557428 C-TTTTC
1 CTTTTTT
108557434 CTTTTTCCCT
1 CTTTTT---T
*
108557444 TTTTTTT
1 CTTTTTT
*
108557451 CTCTTTT
1 CTTTTTT
108557458 C-TTTTT
1 CTTTTTT
108557464 CTTTTTT
1 CTTTTTT
*
108557471 CTGTTTT
1 CTTTTTT
*
108557478 CTGTTTT
1 CTTTTTT
108557485 CTTTTTT
1 CTTTTTT
108557492 C
1 C
108557493 CTTCTTTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
6 10 0.17
7 44 0.75
10 5 0.08
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (7 bp):
CTTTTTT
Found at i:108557436 original size:20 final size:21
Alignment explanation
Indices: 108557411--108557492 Score: 78
Period size: 20 Copynumber: 3.9 Consensus size: 21
108557401 GACTCGAGCC
108557411 TTCCTTTTTTCTTTTTTCT-T
1 TTCCTTTTTTCTTTTTTCTCT
*
108557431 TTCCTTTTTCCCTTTTTTTTCTCT
1 TTCCTTTTT---TCTTTTTTCTCT
* *
108557455 TTTC-TTTTTCTTTTTTCTGT
1 TTCCTTTTTTCTTTTTTCTCT
* *
108557475 TTTCTGTTTTCTTTTTTC
1 TTCCTTTTTTCTTTTTTC
108557493 CTTCTTTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
20 23 0.44
21 12 0.23
23 13 0.25
24 4 0.08
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (21 bp):
TTCCTTTTTTCTTTTTTCTCT
Found at i:108557437 original size:13 final size:13
Alignment explanation
Indices: 108557414--108557490 Score: 70
Period size: 13 Copynumber: 6.0 Consensus size: 13
108557404 TCGAGCCTTC
108557414 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
*
108557427 -TCTTTTCCTTTTT
1 CT-TTTTTCTTTTT
**
108557440 C-CCTTT-TTTTT
1 CTTTTTTCTTTTT
*
108557451 CTCTTTTCTTTTT
1 CTTTTTTCTTTTT
108557464 CTTTTTTCTGTTTT
1 CTTTTTTCT-TTTT
*
108557478 CTGTTTTCTTTTT
1 CTTTTTTCTTTTT
108557491 TCCTTCTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
11 6 0.12
12 7 0.13
13 27 0.52
14 12 0.23
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:108557499 original size:43 final size:42
Alignment explanation
Indices: 108557416--108557500 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
108557406 GAGCCTTCCT
*
108557416 TTTTTCTTTTTTCTTTTCCTTTTTCCCTTTTTTTTCTCTTTTC
1 TTTTTCTTTTTTCTTTTCCTTTTT-CCTTTTTTCTCTCTTTTC
*
108557459 TTTTTCTTTTTTCTGTTTTCTGTTTT-CTTTTTTC-CTTCTTTT
1 TTTTTCTTTTTTCT-TTTCCT-TTTTCCTTTTTTCTC-TCTTTT
108557501 TCCTTTGGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 1 0.03
43 27 0.73
44 5 0.14
45 4 0.11
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (42 bp):
TTTTTCTTTTTTCTTTTCCTTTTTCCTTTTTTCTCTCTTTTC
Found at i:108557732 original size:26 final size:27
Alignment explanation
Indices: 108557693--108557751 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
108557683 GCTGTTTTGA
* *
108557693 TTTTTTTGTATTG-CT-TTTTCTTTTT
1 TTTTTTTCTATTGCCTAATTTCTTTTT
*
108557718 CTTTTTTTCTTTTGCCTAATTTCTTTTT
1 -TTTTTTTCTATTGCCTAATTTCTTTTT
108557746 TTTTTT
1 TTTTTT
108557752 GGGTTTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.39
27 8 0.29
28 9 0.32
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.78
Consensus pattern (27 bp):
TTTTTTTCTATTGCCTAATTTCTTTTT
Found at i:108557793 original size:18 final size:18
Alignment explanation
Indices: 108557772--108557815 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
108557762 GTTTGGGTTG
108557772 CGGGTCGGGTCACCAGAT
1 CGGGTCGGGTCACCAGAT
* * *
108557790 CGGGTCGTGTCGCCGGAT
1 CGGGTCGGGTCACCAGAT
108557808 CGGGTCGG
1 CGGGTCGG
108557816 TTTGACCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.27, G:0.45, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCACCAGAT
Found at i:108557868 original size:6 final size:6
Alignment explanation
Indices: 108557858--108557925 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
108557848 ATTTTTTATT
* **
108557858 TTTTTCC TTTTTC -TTTTC TTTTTC TTTTTC TTTTTC TTCTTC TCCTTC
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* * *
108557906 TTCTTC TTCTTC TTCTTC TT
1 TTTTTC TTTTTC TTTTTC TT
108557926 CACGAGCCCT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.09
6 47 0.82
7 5 0.09
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTTC
Found at i:108557899 original size:3 final size:3
Alignment explanation
Indices: 108557868--108557926 Score: 75
Period size: 3 Copynumber: 20.0 Consensus size: 3
108557858 TTTTTCCTTT
* * * *
108557868 TTC TT- TTC TTT TTC TTT TTC TTT TTC TTC TTC TCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
108557915 TTC TTC TTC TTC
1 TTC TTC TTC TTC
108557927 ACGAGCCCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:108558062 original size:20 final size:20
Alignment explanation
Indices: 108558005--108558062 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
108557995 TCGGAGGCTC
*
108558005 TCCTCTTC-TTCTC-CTTTC
1 TCCTCTTCTTTCTCTCTTTT
*
108558023 TCCTC-TCTTTCTCTCCTTT
1 TCCTCTTCTTTCTCTCTTTT
*
108558042 TCCTCTTCTTTTTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
108558062 T
1 T
108558063 TGCAAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 8 0.24
20 13 0.39
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:108558321 original size:29 final size:29
Alignment explanation
Indices: 108558288--108558404 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
108558278 TGTAATTTTT
*
108558288 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
108558317 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
108558347 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
108558376 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
108558405 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:108558343 original size:30 final size:30
Alignment explanation
Indices: 108558303--108558404 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
108558293 ATTTAGGATT
*
108558303 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
108558333 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
108558363 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
108558393 AAAATGCAATTT
1 AAAATGAAATTT
108558405 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:108558437 original size:17 final size:15
Alignment explanation
Indices: 108558400--108558428 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
108558390 GTCAAAATGC
108558400 AATTTTTATTTTTTT
1 AATTTTTATTTTTTT
108558415 AATTTTT-TTTTTTT
1 AATTTTTATTTTTTT
108558429 TGAAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
AATTTTTATTTTTTT
Found at i:108558897 original size:53 final size:54
Alignment explanation
Indices: 108558679--108558928 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
108558669 CACGTGAGCC
* *
108558679 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
108558734 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
108558784 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
108558838 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
108558891 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
108558929 TTTTTTTGAA
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 39 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:108558969 original size:13 final size:14
Alignment explanation
Indices: 108558941--108558973 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
108558931 TTTTTGAAAC
108558941 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
108558955 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
108558968 ACAGAA
1 ACAGAA
108558974 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:108558981 original size:14 final size:14
Alignment explanation
Indices: 108558934--108558981 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
108558924 TTTTTTTTTT
*
108558934 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
108558948 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
108558962 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
108558975 TTGAAAA
1 TTGAAAA
108558982 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:108559245 original size:72 final size:72
Alignment explanation
Indices: 108559057--108559934 Score: 1418
Period size: 72 Copynumber: 12.1 Consensus size: 72
108559047 ATTAGTAAAG
* * * *
108559057 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
108559121 TTTGAAAA
65 TTTGAAAA
* * *
108559129 GCAGAAATCGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
108559194 TTTGAAAA
65 TTTGAAAA
108559202 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108559267 TTGAGAAG
66 TTGA-AAA
*
108559275 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559340 TTGAAAA
66 TTGAAAA
*
108559347 CAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559412 TTGAAAA
66 TTGAAAA
108559419 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108559484 TTGAGAAG
66 TTGA-AAA
*
108559492 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559557 TTGAAAA
66 TTGAAAA
108559564 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559629 TTGAAAA
66 TTGAAAA
108559636 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559701 TTGAAAA
66 TTGAAAA
* * * *
108559708 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
108559773 TTTGAAAA
65 TTTGAAAA
* * *
108559781 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
108559846 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
108559855 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
108559919 TTGAAAAA
66 TTG-AAAA
*
108559927 CATAAATT
1 CAGAAATT
108559935 AAAAGGCTTA
Statistics
Matches: 764, Mismatches: 34, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
72 424 0.55
73 280 0.37
74 60 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:108559308 original size:145 final size:144
Alignment explanation
Indices: 108559057--108559934 Score: 1420
Period size: 145 Copynumber: 6.1 Consensus size: 144
108559047 ATTAGTAAAG
* * * *
108559057 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
108559121 TTTGAAAAGCAGAAATCGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
108559186 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
108559202 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108559267 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
108559332 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
*
108559347 CAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108559412 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
108559477 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
108559492 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
108559557 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
108559622 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
108559636 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
108559701 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
108559766 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
* * *
108559781 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * ** *
108559846 TTTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
65 TTTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
108559910 GAATTG-ATTTTGAAAAA
128 GAGTTGAATTTTG-AAAA
*
108559927 CATAAATT
1 CAGAAATT
108559935 AAAAGGCTTA
Statistics
Matches: 696, Mismatches: 29, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
144 143 0.21
145 479 0.69
146 72 0.10
147 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:108559430 original size:217 final size:217
Alignment explanation
Indices: 108559054--108559922 Score: 1483
Period size: 217 Copynumber: 4.0 Consensus size: 217
108559044 AGAATTAGTA
* * *
108559054 AAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-A
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
108559118 AGTTTTGAAAAGCAGAAATCGAAAATACCTCAAT-GTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 A-TTTTGAAAA-CAGAAATTGAAATTACCTC-ATCGTGTCTTGAGGCTCAACTCATTTCTCGCAA
108559182 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
128 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
108559247 CTCGCAATATGAGTTGAATTTTGAG
193 CTCGCAATATGAGTTGAATTTTGAG
108559272 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
108559337 ATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
108559402 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
131 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
108559467 GCAATATGAGTTGAATTTTGAG
196 GCAATATGAGTTGAATTTTGAG
108559489 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
108559554 ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
108559619 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
131 GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
*
108559684 GCAATATGAGTTGAATTTTGAA
196 GCAATATGAGTTGAATTTTGAG
* * *
108559706 AAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA
1 AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* *
108559771 ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATAT
66 ATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
* * * * * **
108559836 GAGTTGATTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
131 GAGTTGA-ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
* *
108559901 TAGCAATATGAATTG-ATTTTGA
194 TCGCAATATGAGTTGAATTTTGA
108559923 AAAACATAAA
Statistics
Matches: 626, Mismatches: 21, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
216 2 0.00
217 484 0.77
218 82 0.13
219 58 0.09
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (217 bp):
AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
ATTTTGAAAACAGAAATTGAAATTACCTCATCGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
GCAATATGAGTTGAATTTTGAG
Found at i:108571871 original size:16 final size:16
Alignment explanation
Indices: 108571852--108571923 Score: 65
Period size: 16 Copynumber: 4.3 Consensus size: 16
108571842 GAAGGTTTTT
*
108571852 TTTTTAAATACGAGAA
1 TTTTTAAACACGAGAA
108571868 TTTTTGAAAACACGAGAA
1 TTTTT--AAACACGAGAA
*
108571886 TTTGTAAACACGA-ATA
1 TTTTTAAACACGAGA-A
* *
108571902 TTTTAGAAACACGAAAA
1 TTTT-TAAACACGAGAA
108571919 TTTTT
1 TTTTT
108571924 GAAAAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
15 1 0.02
16 17 0.37
17 13 0.28
18 15 0.33
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (16 bp):
TTTTTAAACACGAGAA
Found at i:108572011 original size:16 final size:18
Alignment explanation
Indices: 108571977--108572014 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
108571967 AACACGGGAA
108571977 TTTTTAAAACAAGACATT
1 TTTTTAAAACAAGACATT
*
108571995 TTTTTGAAACAA-A-ATT
1 TTTTTAAAACAAGACATT
108572011 TTTT
1 TTTT
108572015 CTTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
TTTTTAAAACAAGACATT
Found at i:108572075 original size:18 final size:17
Alignment explanation
Indices: 108571851--108572297 Score: 165
Period size: 17 Copynumber: 25.1 Consensus size: 17
108571841 AGAAGGTTTT
* * *
108571851 TTTTTTAAATACGAGAA
1 TTTTTAAAACACGAAAA
*
108571868 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
* *
108571886 TTTGT-AAACACGAATA
1 TTTTTAAAACACGAAAA
108571902 -TTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAAAA
* *
108571919 TTTTTGAAAAAAAACGAAAT
1 TTTTT---AAAACACGAAAA
**
108571939 TTTCTTAAAACACGACATTTT
1 TTT-TTAAAACACGA-A--AA
* **
108571960 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAAAA
* **
108571977 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGA-AAA
* *
108571995 TTTTTGAAACA--AAATTT
1 TTTTTAAAACACGAAA--A
108572012 TTTCTTAAAA-A--AAAA
1 TTT-TTAAAACACGAAAA
* * *
108572027 -ATTT-AAATACGAGAA
1 TTTTTAAAACACGAAAA
108572042 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
108572059 TTTTTAAAACACGGAAATA
1 TTTTTAAAACAC-GAAA-A
*
108572078 TTTTTTTTTAAAACACGAAATTTTT
1 ----TTTTTAAAACACGAAA----A
*
108572103 TTTTTGAAAACAAGAAAA
1 TTTTT-AAAACACGAAAA
* * *
108572121 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
* *
108572138 TTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
* * *
108572155 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
**
108572172 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAAAA
* *
108572190 TTATTGAAAGCACGAAAA
1 TT-TTTAAAACACGAAAA
* * *
108572208 TTTGTAAAAAACGACAA
1 TTTTTAAAACACGAAAA
* *
108572225 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGA-AAA
* *
108572243 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAAAA
*
108572260 TTTTTTCAAACACGAAAA
1 -TTTTTAAAACACGAAAA
* *
108572278 CTTTTGAAAACGCGAAAA
1 -TTTTTAAAACACGAAAA
108572296 TT
1 TT
108572298 CGAAAATTTC
Statistics
Matches: 323, Mismatches: 73, Indels: 68
0.70 0.16 0.15
Matches are distributed among these distances:
12 3 0.01
13 3 0.01
14 1 0.00
15 7 0.02
16 13 0.04
17 121 0.37
18 108 0.33
19 7 0.02
20 21 0.07
21 12 0.04
22 14 0.04
23 12 0.04
25 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:108572097 original size:22 final size:22
Alignment explanation
Indices: 108572059--108572125 Score: 93
Period size: 22 Copynumber: 3.0 Consensus size: 22
108572049 AACACGAAAA
108572059 TTTTTAAAACACGGAAATATTTT
1 TTTTTAAAACAC-GAAATATTTT
108572082 TTTTTAAAACACGAAAT-TTTT
1 TTTTTAAAACACGAAATATTTT
*
108572103 TTTTTGAAAACAAGAAA-ATTTT
1 TTTTT-AAAACACGAAATATTTT
108572125 T
1 T
108572126 GAAACACTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 9 0.22
22 20 0.49
23 12 0.29
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTTTAAAACACGAAATATTTT
Found at i:108572232 original size:35 final size:32
Alignment explanation
Indices: 108572104--108572294 Score: 121
Period size: 35 Copynumber: 5.5 Consensus size: 32
108572094 GAAATTTTTT
* *
108572104 TTTTGAAAACAAGAAAATTTTTGAAACACTAGAA
1 TTTT-AAAACACG-AAATTTTTGAAACACGAGAA
*
108572138 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTT-AAAACACGAA-ATTTTTGAAACACGAGAA
* * *
108572172 TTTTTAAAAGCACGAGGATTATTGAAAGCACGAAAA
1 -TTTTAAAA-CACGA-AATTTTTGAAA-CACGAGAA
* *
108572208 TTTGTAAAAAACGACAATTTTTGAAATACGAGAAA
1 TTT-TAAAACACGA-AATTTTTGAAACACGAG-AA
* * * *
108572243 TTTTTTAAACGCGAAAATTTTTTCAAACACGAAAA
1 -TTTTAAAACACG-AAA-TTTTTGAAACACGAGAA
*
108572278 CTTTTGAAAACGCGAAA
1 -TTTT-AAAACACGAAA
108572295 ATTCGAAAAT
Statistics
Matches: 125, Mismatches: 21, Indels: 21
0.75 0.13 0.13
Matches are distributed among these distances:
33 2 0.02
34 36 0.29
35 53 0.42
36 34 0.27
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.29
Consensus pattern (32 bp):
TTTTAAAACACGAAATTTTTGAAACACGAGAA
Found at i:108572341 original size:18 final size:17
Alignment explanation
Indices: 108572292--108572342 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
108572282 TGAAAACGCG
108572292 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
108572309 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
108572327 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
108572343 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:108572857 original size:7 final size:7
Alignment explanation
Indices: 108572845--108572894 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
108572835 TTTTTCTTCT
108572845 TTTTTTC
1 TTTTTTC
108572852 TTTTTTC
1 TTTTTTC
108572859 TTTTTTCC
1 TTTTTT-C
108572867 TTTTTTC
1 TTTTTTC
108572874 TTTTTTC
1 TTTTTTC
108572881 TTTTTTC
1 TTTTTTC
108572888 TTCTTTT
1 TT-TTTT
108572895 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:108572861 original size:15 final size:15
Alignment explanation
Indices: 108572836--108572898 Score: 92
Period size: 15 Copynumber: 4.1 Consensus size: 15
108572826 TGAACCCCCT
108572836 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
108572852 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
108572867 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
108572881 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
108572897 TT
1 TT
108572899 CCTTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.30
15 18 0.42
16 12 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:108572907 original size:22 final size:22
Alignment explanation
Indices: 108572835--108572910 Score: 82
Period size: 22 Copynumber: 3.3 Consensus size: 22
108572825 TTGAACCCCC
108572835 TTTTTCTTCTTTTT-TTCTTTT
1 TTTTTCTTCTTTTTCTTCTTTT
* *
108572856 TTCTTTTTTCCTTTTTTCTTTTTTCT
1 TT-TTTCTT-C-TTTTTCTTCTTT-T
*
108572882 TTTTTCTTCTTTTTCTTCCTTT
1 TTTTTCTTCTTTTTCTTCTTTT
108572904 TTTTTCT
1 TTTTTCT
108572911 GCTGGGCTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
21 2 0.04
22 13 0.29
23 11 0.24
24 6 0.13
25 10 0.22
26 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTTTTCTTCTTTTTCTTCTTTT
Found at i:108573210 original size:3 final size:3
Alignment explanation
Indices: 108573204--108573249 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
108573194 TTTTCTTTCT
*
108573204 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
108573250 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:108573233 original size:10 final size:10
Alignment explanation
Indices: 108573218--108573246 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
108573208 TCTTCCTCTT
108573218 TTCTTCTTCC
1 TTCTTCTTCC
108573228 TTCTTCTTCC
1 TTCTTCTTCC
108573238 TTCTTCTTC
1 TTCTTCTTC
108573247 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:108573234 original size:13 final size:13
Alignment explanation
Indices: 108573204--108573249 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
108573194 TTTTCTTTCT
108573204 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
108573216 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
108573228 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
108573241 TTCTTCTTC
1 TTCTTCTTC
108573250 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:108573351 original size:18 final size:17
Alignment explanation
Indices: 108573304--108573356 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
108573294 GACGCCGGTA
108573304 CTCTTTCTT-TTCTTCTC
1 CTCTTTCTTCTT-TTCTC
108573321 CTCTTTC-TCTTTTCTC
1 CTCTTTCTTCTTTTCTC
*
108573337 CTCTTTTCTTCTTTTTTC
1 CTC-TTTCTTCTTTTCTC
108573355 CT
1 CT
108573357 TAGAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 9 0.28
17 13 0.41
18 10 0.31
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (17 bp):
CTCTTTCTTCTTTTCTC
Found at i:108573353 original size:10 final size:10
Alignment explanation
Indices: 108573305--108573354 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
108573295 ACGCCGGTAC
108573305 TCTT-TCTTT
1 TCTTCTCTTT
* *
108573314 TCTTCTCCTC
1 TCTTCTCTTT
108573324 T-TTCTCTTT
1 TCTTCTCTTT
*
108573333 TCTCCTCTTT
1 TCTTCTCTTT
*
108573343 TCTTCTTTTT
1 TCTTCTCTTT
108573353 TC
1 TC
108573355 CTTAGAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
9 11 0.34
10 21 0.66
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:108573633 original size:29 final size:29
Alignment explanation
Indices: 108573600--108573716 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
108573590 TGTAATTTTT
*
108573600 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
108573629 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
108573659 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
108573688 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
108573717 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:108573655 original size:30 final size:30
Alignment explanation
Indices: 108573615--108573716 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
108573605 ATTTAGGATT
*
108573615 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
108573645 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
108573675 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
108573705 AAAATGCAATTT
1 AAAATGAAATTT
108573717 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:108581867 original size:22 final size:22
Alignment explanation
Indices: 108581827--108581868 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
108581817 TGAGCCAATC
* *
108581827 ATTTCGAATTTGAACTATTTTA
1 ATTTCGAATTTAAAATATTTTA
*
108581849 ATTTCGAGTTTAAAATATTT
1 ATTTCGAATTTAAAATATTT
108581869 GTTCATGCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTCGAATTTAAAATATTTTA
Found at i:108584414 original size:30 final size:29
Alignment explanation
Indices: 108584379--108584438 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
108584369 ATAGGGACTT
* *
108584379 GATCAAATTAGCCCCCTTTATTATTAAACA
1 GATCAAATTAG-CCCCTATACTATTAAACA
* *
108584409 GATCAATTTAGTCCCTATACTATTAAACA
1 GATCAAATTAGCCCCTATACTATTAAACA
108584438 G
1 G
108584439 TAAATGAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (29 bp):
GATCAAATTAGCCCCTATACTATTAAACA
Found at i:108586426 original size:26 final size:24
Alignment explanation
Indices: 108586380--108586433 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 24
108586370 AATAAATACC
108586380 ATACTCTAAAATTATAATTATTATAT
1 ATACTCTAAAATTAT-ATTATTA-AT
108586406 ATACTCTAACAAATTAT-TTATTAAT
1 ATACTCT-A-AAATTATATTATTAAT
108586431 ATA
1 ATA
108586434 ATAATTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 5 0.19
26 13 0.50
27 1 0.04
28 7 0.27
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.44
Consensus pattern (24 bp):
ATACTCTAAAATTATATTATTAAT
Found at i:108586513 original size:30 final size:32
Alignment explanation
Indices: 108586477--108586540 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
108586467 TATATTTACT
108586477 TATTTAT-ATATAT-A-AATTGTAATAAAAAAA
1 TATTTATAATATATCATAATT-TAATAAAAAAA
* *
108586507 TATTTATAATTTATCATAATTTTATAAAAAAA
1 TATTTATAATATATCATAATTTAATAAAAAAA
108586539 TA
1 TA
108586541 GACTAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.24
31 5 0.17
32 13 0.45
33 4 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (32 bp):
TATTTATAATATATCATAATTTAATAAAAAAA
Found at i:108589961 original size:30 final size:31
Alignment explanation
Indices: 108589897--108589960 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
108589887 AGTTTAAAAA
*
108589897 TTTAGGTAATAGTTATATAAGTATTAATATT
1 TTTAGGTAATAGTTATATAAGTAATAATATT
108589928 TTTA-GTAATAGTTATATATTA-TAATAATATT
1 TTTAGGTAATAGTTATATA--AGTAATAATATT
108589959 TT
1 TT
108589961 ATGTATTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 14 0.47
31 15 0.50
32 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (31 bp):
TTTAGGTAATAGTTATATAAGTAATAATATT
Found at i:108591511 original size:24 final size:26
Alignment explanation
Indices: 108591464--108591511 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
108591454 CATGATCAAA
**
108591464 ACCACCCCGTCATCATCATCAACATC
1 ACCACCCCGTCATCATCAAAAACATC
108591490 ACCA-CCC-TCATCATCAAAAACA
1 ACCACCCCGTCATCATCAAAAACA
108591512 AAAAGATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 13 0.65
25 3 0.15
26 4 0.20
ACGTcount: A:0.38, C:0.44, G:0.02, T:0.17
Consensus pattern (26 bp):
ACCACCCCGTCATCATCAAAAACATC
Found at i:108594744 original size:34 final size:34
Alignment explanation
Indices: 108594701--108594769 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
108594691 CAATATACAT
108594701 TGTATTTTTTGCAAAATGATTGACAAAAATCGAA
1 TGTATTTTTTGCAAAATGATTGACAAAAATCGAA
108594735 TGTATTTTTTGCAAAATGATTGACAAAAATCGAA
1 TGTATTTTTTGCAAAATGATTGACAAAAATCGAA
108594769 T
1 T
108594770 CAAAATAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (34 bp):
TGTATTTTTTGCAAAATGATTGACAAAAATCGAA
Found at i:108601844 original size:27 final size:26
Alignment explanation
Indices: 108601791--108601846 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
108601781 AGTACTGTTT
** *
108601791 TAACAAAGAAAAATATCAGAAGCAAC
1 TAACAAAGAAAAATAAAAGAAGAAAC
*
108601817 TAACCAAGAAAAATAAAAGAGAGAAAC
1 TAACAAAGAAAAATAAAAGA-AGAAAC
108601844 TAA
1 TAA
108601847 GATGAACACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.11
Consensus pattern (26 bp):
TAACAAAGAAAAATAAAAGAAGAAAC
Found at i:108606941 original size:15 final size:15
Alignment explanation
Indices: 108606917--108606962 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
108606907 ATAATCTTTT
*
108606917 TAAAAAATAATACAA
1 TAAAAAATAATAAAA
*
108606932 TAAAATATAATAAAA
1 TAAAAAATAATAAAA
108606947 TATTAAAAATAATAAA
1 TA--AAAAATAATAAA
108606963 GAATATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
17 11 0.42
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAAATAATAAAA
Found at i:108608374 original size:12 final size:13
Alignment explanation
Indices: 108608352--108608380 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
108608342 AATGAATGAG
108608352 CTTTAGTTTAATT
1 CTTTAGTTTAATT
108608365 CTTT-GTTTAATT
1 CTTTAGTTTAATT
108608377 CTTT
1 CTTT
108608381 TATAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.66
Consensus pattern (13 bp):
CTTTAGTTTAATT
Found at i:108608545 original size:11 final size:11
Alignment explanation
Indices: 108608529--108608553 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
108608519 TTAAGTTATT
108608529 TAACTTAATTA
1 TAACTTAATTA
108608540 TAACTTAATTA
1 TAACTTAATTA
108608551 TAA
1 TAA
108608554 TTACTTTACA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (11 bp):
TAACTTAATTA
Found at i:108615729 original size:546 final size:546
Alignment explanation
Indices: 108614694--108615785 Score: 2177
Period size: 546 Copynumber: 2.0 Consensus size: 546
108614684 TGTAAGATCA
108614694 GTCTAATTATTTATTGCAAATTTATGACCAAAAAGTTAAGTTTAAACAAACAAAAAAAAATAATT
1 GTCTAATTATTTATTGCAAATTTATGACCAAAAAGTTAAGTTTAAACAAACAAAAAAAAATAATT
108614759 AATGTTGTTTGAATCAGATCGGATCAATTGGTTGAATTAAAAACCAATCGAGATATCAGCTTAAT
66 AATGTTGTTTGAATCAGATCGGATCAATTGGTTGAATTAAAAACCAATCGAGATATCAGCTTAAT
108614824 TAGAGAGGAGTTAAATCGATTGATCAACGAACCGATATAAACTGATTGAACTAATATTTCTTTTC
131 TAGAGAGGAGTTAAATCGATTGATCAACGAACCGATATAAACTGATTGAACTAATATTTCTTTTC
108614889 TGTTTTTTAATAATTTTTTATGATTTATTTAGTCAAACCGAACAAATCGACTAAATTAATTGTAT
196 TGTTTTTTAATAATTTTTTATGATTTATTTAGTCAAACCGAACAAATCGACTAAATTAATTGTAT
108614954 GATCAATTTAACCACCGATCAACTTCTGAAAGTCTCGAATATAATTTTAAAAGAACTCGCATGTA
261 GATCAATTTAACCACCGATCAACTTCTGAAAGTCTCGAATATAATTTTAAAAGAACTCGCATGTA
108615019 ATATTTACATATCGATACTTGAATAATATCAGGTCTCGAAACTTCAATTTTACTAACTTTGCTAT
326 ATATTTACATATCGATACTTGAATAATATCAGGTCTCGAAACTTCAATTTTACTAACTTTGCTAT
108615084 GGTTACATTTTGGAAATTCTTACCATTACCTTAAAAATAAAAACTCAAAATTTGAAATTTATAAT
391 GGTTACATTTTGGAAATTCTTACCATTACCTTAAAAATAAAAACTCAAAATTTGAAATTTATAAT
108615149 TTATTGATATTTTTCATTATTAAAAATTAAAAAAAATAATTAATTAATAATTCACCTTGAATAAT
456 TTATTGATATTTTTCATTATTAAAAATTAAAAAAAATAATTAATTAATAATTCACCTTGAATAAT
108615214 TTTATTATCCTTGGTGGGTGACAGCT
521 TTTATTATCCTTGGTGGGTGACAGCT
108615240 GTCTAATTATTTATTGCAAATTTATGACCAAAAAGTTAAGTTTAAACAAACAAAAAAAAATAATT
1 GTCTAATTATTTATTGCAAATTTATGACCAAAAAGTTAAGTTTAAACAAACAAAAAAAAATAATT
108615305 AATGTTGTTTGAATCAGATCGGATCAATTGGTTGAATTAAAAACCAATCGAGATATCAGCTTAAT
66 AATGTTGTTTGAATCAGATCGGATCAATTGGTTGAATTAAAAACCAATCGAGATATCAGCTTAAT
108615370 TAGAGAGGAGTTAAATCGATTGATCAACGAACCGATATAAACTGATTGAACTAATATTTCTTTTC
131 TAGAGAGGAGTTAAATCGATTGATCAACGAACCGATATAAACTGATTGAACTAATATTTCTTTTC
108615435 TGTTTTTTAATAATTTTTTATGATTTATTTAGTCAAACCGAACAAATCGACTAAATTAATTGTAT
196 TGTTTTTTAATAATTTTTTATGATTTATTTAGTCAAACCGAACAAATCGACTAAATTAATTGTAT
108615500 GATCAATTTAACCACCGATCAACTTCTGAAAGTCTCGAATATAATTTTAAAAGAACTCGCATGTA
261 GATCAATTTAACCACCGATCAACTTCTGAAAGTCTCGAATATAATTTTAAAAGAACTCGCATGTA
108615565 ATATTTACATATCGATACTTGAATAATATCAGGTCTCGAAACTTCAATTTTACTAACTTTGCTAT
326 ATATTTACATATCGATACTTGAATAATATCAGGTCTCGAAACTTCAATTTTACTAACTTTGCTAT
108615630 GGTTACATTTTGGAAATTCTTACCATTACCTT-AAAATAAAAACTCAAAATTTGAAATTTATAAT
391 GGTTACATTTTGGAAATTCTTACCATTACCTTAAAAATAAAAACTCAAAATTTGAAATTTATAAT
108615694 TTATTGATATTTTTCATTATTAAAAATTAAAAAAAATAATTAATTAATAATTCACCTTGAATAAT
456 TTATTGATATTTTTCATTATTAAAAATTAAAAAAAATAATTAATTAATAATTCACCTTGAATAAT
108615759 TTTATTATCCTTGGTGGGTGACAGCT
521 TTTATTATCCTTGGTGGGTGACAGCT
108615785 G
1 G
108615786 CCAAATACCC
Statistics
Matches: 546, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
545 124 0.23
546 422 0.77
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (546 bp):
GTCTAATTATTTATTGCAAATTTATGACCAAAAAGTTAAGTTTAAACAAACAAAAAAAAATAATT
AATGTTGTTTGAATCAGATCGGATCAATTGGTTGAATTAAAAACCAATCGAGATATCAGCTTAAT
TAGAGAGGAGTTAAATCGATTGATCAACGAACCGATATAAACTGATTGAACTAATATTTCTTTTC
TGTTTTTTAATAATTTTTTATGATTTATTTAGTCAAACCGAACAAATCGACTAAATTAATTGTAT
GATCAATTTAACCACCGATCAACTTCTGAAAGTCTCGAATATAATTTTAAAAGAACTCGCATGTA
ATATTTACATATCGATACTTGAATAATATCAGGTCTCGAAACTTCAATTTTACTAACTTTGCTAT
GGTTACATTTTGGAAATTCTTACCATTACCTTAAAAATAAAAACTCAAAATTTGAAATTTATAAT
TTATTGATATTTTTCATTATTAAAAATTAAAAAAAATAATTAATTAATAATTCACCTTGAATAAT
TTTATTATCCTTGGTGGGTGACAGCT
Found at i:108620314 original size:32 final size:32
Alignment explanation
Indices: 108620252--108620314 Score: 74
Period size: 33 Copynumber: 2.0 Consensus size: 32
108620242 TTTCCCATGC
* * *
108620252 TTTTTAAAAAAAATTATCTTTAGATCATTATA
1 TTTTTAAAAAAAATAATATTCAGATCATTATA
*
108620284 TTTTTAAAAAAAAATAATATTCATAT-ATTAT
1 TTTTT-AAAAAAAATAATATTCAGATCATTAT
108620315 TAATAAGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 10 0.38
33 16 0.62
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (32 bp):
TTTTTAAAAAAAATAATATTCAGATCATTATA
Found at i:108620629 original size:15 final size:15
Alignment explanation
Indices: 108620604--108620649 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
108620594 TTTAATTAAA
108620604 TAAATAATTAAAAAAT
1 TAAAT-ATTAAAAAAT
* * *
108620620 TATATTTTAAAAATT
1 TAAATATTAAAAAAT
108620635 TAAATATTAAAAAAT
1 TAAATATTAAAAAAT
108620650 AAAAAATCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATATTAAAAAAT
Found at i:108620652 original size:14 final size:14
Alignment explanation
Indices: 108620601--108620652 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
108620591 TAATTTAATT
108620601 AAATAAATAATTAAA
1 AAATAAAT-ATTAAA
* *
108620616 AAATTATATTTTAAA
1 AAA-TAAATATTAAA
*
108620631 AATTTAAATATTAAA
1 AA-ATAAATATTAAA
108620646 AAATAAA
1 AAATAAA
108620653 AAATCGATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.14
15 21 0.72
16 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATAAATATTAAA
Found at i:108623737 original size:47 final size:49
Alignment explanation
Indices: 108623615--108623741 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 49
108623605 GTCTCTTAGC
* * * *
108623615 TTAAGAAAAAGCCCTTTTTTTCAAAGCCATTTCTTCTCTTTTTTTTATCCT
1 TTAA-AAAAAACCCCTTTTTTCAAAGCCATTTCTTCTC-TTTCTTTACCCT
* *
108623666 TTAAAAAGAAA-CCCTTTTTCCAAAGTCATTTC-T-TC-TTCTTTACCCT
1 TTAAAAA-AAACCCCTTTTTTCAAAGCCATTTCTTCTCTTTCTTTACCCT
108623712 TTAAAAAAAATCCCCTTTTTTCAAAGCCAT
1 TTAAAAAAAA-CCCCTTTTTTCAAAGCCAT
108623742 ATTTTGCTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
45 3 0.05
46 16 0.25
47 16 0.25
48 2 0.03
49 1 0.02
50 21 0.32
51 6 0.09
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.43
Consensus pattern (49 bp):
TTAAAAAAAACCCCTTTTTTCAAAGCCATTTCTTCTCTTTCTTTACCCT
Found at i:108625301 original size:18 final size:18
Alignment explanation
Indices: 108625278--108625314 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
108625268 CAAAAATTGA
*
108625278 TTAATTAATTAAATTAAT
1 TTAATTAAGTAAATTAAT
*
108625296 TTAATTCAGTAAATTAAT
1 TTAATTAAGTAAATTAAT
108625314 T
1 T
108625315 CGATTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAATTAAGTAAATTAAT
Found at i:108626835 original size:18 final size:18
Alignment explanation
Indices: 108626812--108626885 Score: 53
Period size: 18 Copynumber: 4.1 Consensus size: 18
108626802 CCTACTAAAC
108626812 CATCCACTACCTCCATCA
1 CATCCACTACCTCCATCA
* *
108626830 CATCCAC-ACC-CTACTAAA
1 CATCCACTACCTCCA-T-CA
*
108626848 CCGTCCACTACCTCCATCA
1 -CATCCACTACCTCCATCA
** *
108626867 CCCCCACTAACTCCATCA
1 CATCCACTACCTCCATCA
108626885 C
1 C
108626886 CCTACTTGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 24 0.56
19 7 0.16
20 4 0.09
21 2 0.05
ACGTcount: A:0.28, C:0.51, G:0.01, T:0.19
Consensus pattern (18 bp):
CATCCACTACCTCCATCA
Found at i:108626846 original size:37 final size:38
Alignment explanation
Indices: 108626794--108626867 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 38
108626784 AACCACTAAC
108626794 TCCATCACCCTACTAAACCATCCACTACCTCCATCACA
1 TCCATCACCCTACTAAACCATCCACTACCTCCATCACA
*
108626832 TCCA-CACCCTACTAAACCGTCCACTACCTCCATCAC
1 TCCATCACCCTACTAAACCATCCACTACCTCCATCAC
108626868 CCCCACTAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.30, C:0.49, G:0.01, T:0.20
Consensus pattern (38 bp):
TCCATCACCCTACTAAACCATCCACTACCTCCATCACA
Found at i:108626886 original size:18 final size:18
Alignment explanation
Indices: 108626852--108626887 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
108626842 ACTAAACCGT
*
108626852 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
108626870 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
108626888 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:108626973 original size:11 final size:11
Alignment explanation
Indices: 108626957--108626995 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
108626947 GGGATTTTGG
108626957 AGAGGATTTTT
1 AGAGGATTTTT
108626968 AGAGGATTTTT
1 AGAGGATTTTT
*
108626979 GGAGGAATTTTTT
1 AGAGG-A-TTTTT
108626992 AGAG
1 AGAG
108626996 AATACACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.62
12 1 0.04
13 8 0.33
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (11 bp):
AGAGGATTTTT
Found at i:108627324 original size:63 final size:63
Alignment explanation
Indices: 108627201--108627320 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
108627191 CTTTTTTTTA
* *
108627201 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTGTT
* * *
108627265 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATAT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATAT
108627321 ATTTATTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
61 14 0.28
62 4 0.08
63 20 0.40
64 12 0.24
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTGTT
Found at i:108627555 original size:21 final size:21
Alignment explanation
Indices: 108627531--108627570 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108627521 ATATTTAATA
*
108627531 TTATCGTCAACATATTTTTTG
1 TTATCATCAACATATTTTTTG
* *
108627552 TTATTATCATCATATTTTT
1 TTATCATCAACATATTTTT
108627571 AATATTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (21 bp):
TTATCATCAACATATTTTTTG
Found at i:108631433 original size:21 final size:21
Alignment explanation
Indices: 108631403--108631447 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
108631393 GAGGGATCAA
*
108631403 ATGCTAGAGTCTCAGAAA-AAC
1 ATGCTAGAGTCACA-AAACAAC
*
108631424 ATGCTGGAGTCACAAAACAAC
1 ATGCTAGAGTCACAAAACAAC
108631445 ATG
1 ATG
108631448 ATGAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (21 bp):
ATGCTAGAGTCACAAAACAAC
Found at i:108633985 original size:13 final size:13
Alignment explanation
Indices: 108633969--108634014 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
108633959 ACAAAAAAAG
108633969 AAGAGAAAAAGGA
1 AAGAGAAAAAGGA
108633982 AAGAGAAAAAAGGA
1 AAGAG-AAAAAGGA
*
108633996 AA-AGGAAAAGGA
1 AAGAGAAAAAGGA
*
108634008 AAAAGAA
1 AAGAGAA
108634015 GAGAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 9 0.31
13 10 0.34
14 10 0.34
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAGAAAAAGGA
Found at i:108633990 original size:26 final size:26
Alignment explanation
Indices: 108633961--108634014 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
108633951 ACTTTCAAAC
* *
108633961 AAAAAAAGAAGAGAAAAAGGAAAGAG
1 AAAAAAAGAAAAGAAAAAGGAAAAAG
* *
108633987 AAAAAAGGAAAAGGAAAAGGAAAAAG
1 AAAAAAAGAAAAGAAAAAGGAAAAAG
108634013 AA
1 AA
108634015 GAGAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (26 bp):
AAAAAAAGAAAAGAAAAAGGAAAAAG
Found at i:108634000 original size:20 final size:19
Alignment explanation
Indices: 108633975--108634045 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
108633965 AAAGAAGAGA
108633975 AAAAGGAAAGAGAAAAAAGG
1 AAAAGGAAA-AGAAAAAAGG
*
108633995 AAAAGGAAAAGGAAAAA-G
1 AAAAGGAAAAGAAAAAAGG
* * *
108634013 AAGAGAAAAATAAAAAA-G
1 AAAAGGAAAAGAAAAAAGG
108634031 AGAAA-GAAAAGAAAA
1 A-AAAGGAAAAGAAAA
108634046 GCAAAGGAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 24 0.57
19 9 0.21
20 9 0.21
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (19 bp):
AAAAGGAAAAGAAAAAAGG
Found at i:108634030 original size:31 final size:34
Alignment explanation
Indices: 108633973--108634035 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 34
108633963 AAAAAGAAGA
*
108633973 GAAAAAGGAAAGAGAAAAAAGGAAAAG-GAAAAG
1 GAAAAAGGAAAGAGAAAAAAGAAAAAGAGAAAAG
108634006 GAAAAA-G-AAGAGAAAAATA-AAAAAGAGAAA
1 GAAAAAGGAAAGAGAAAAA-AGAAAAAGAGAAA
108634036 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 15 0.56
32 6 0.22
33 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (34 bp):
GAAAAAGGAAAGAGAAAAAAGAAAAAGAGAAAAG
Found at i:108635505 original size:90 final size:90
Alignment explanation
Indices: 108635397--108635694 Score: 254
Period size: 90 Copynumber: 3.3 Consensus size: 90
108635387 TTCGACAGAT
* * *
108635397 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTAAATCTTACCTCCATGTATCGGC
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTATCTCCATGTATCGGC
108635462 AATGGAGCAGATTTCAGCCACCAGC
66 AATGGAGCAGATTTCAGCCACCAGC
* * * * * * * *
108635487 CTTATCTTCCCTGAGCAGGAGTGAAGCAG-GCTAAA-TATAGCAGATCTCATC-CCACTGGCTGG
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATC-AAATTTTGGCAAATCTTATCTCCA-T-G-T--
** * * * *
108635549 AGT-GG-AACAGACCAAATTT-TG--A-CAGAT
60 A-TCGGCAATGGAGCAGATTTCAGCCACCAG-C
* * *
108635576 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATATTATCTTCATGTATCGGC
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTATCTCCATGTATCGGC
* *
108635641 ATTGGAGCAGATTTCAGCCACAAGC
66 AATGGAGCAGATTTCAGCCACCAGC
*
108635666 CTTATCTTCACTGAGCAGGAGTGGAGCAG
1 CTTATCTTCACTGAGCAGGAGCGGAGCAG
108635695 GCTAAATACT
Statistics
Matches: 155, Mismatches: 36, Indels: 34
0.69 0.16 0.15
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 9 0.06
88 8 0.05
89 43 0.28
90 71 0.46
91 6 0.04
92 10 0.06
93 3 0.02
94 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (90 bp):
CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTCAGCCACCAGC
Found at i:108635576 original size:44 final size:46
Alignment explanation
Indices: 108635527--108635615 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
108635517 CTAAATATAG
* *
108635527 CAGATCTCATC-CCACTG-GCTGGAGTGGAACAGACCAAATTTTGA
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGACCAAATTTTGA
* * * *
108635571 CAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTG
1 CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGACCAAATTTTG
108635616 GCGAATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 10 0.27
45 5 0.14
46 22 0.59
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (46 bp):
CAGATCTCATCTCCACTGAGCAGGAGCGGAACAGACCAAATTTTGA
Found at i:108635592 original size:89 final size:89
Alignment explanation
Indices: 108635316--108635596 Score: 220
Period size: 89 Copynumber: 3.1 Consensus size: 89
108635306 AGCCTTATCA
* *
108635316 CACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATTTCATCCCACTGGCAGGAGTGGAATAG
1 CACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCTGGAGTGGAATAG
* *
108635380 ATCAAATTTCGACAGATCTTATCTT
65 ACCAAATTTAGACAGATCTTATCTT
* * * * * * * * * *
108635405 CGCTGAGCAGGAGCGGAGCA-GATCAAATTTTGGTAAATCTTACCTCCA-T-G-T--A-TCGGCA
1 CACTGAGCAGGAGTGAAGCAGGCT-AAA-TATAGCAGATCTCATC-CCACTGGCTGGAGT-GG-A
* * * *
108635463 ATGGAGCAGATTTCAGCCACCAG-CCTTATCTT
61 ATAGACCAAATTT-AG--A-CAGATCTTATCTT
* *
108635495 CCCTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCTGGAGTGGAACAGA
1 CACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCTGGAGTGGAATAGA
*
108635560 CCAAATTTTGACAGATCTTATCTT
66 CCAAATTTAGACAGATCTTATCTT
108635584 CACTGAGCAGGAG
1 CACTGAGCAGGAG
108635597 CGGAGCAGAT
Statistics
Matches: 140, Mismatches: 34, Indels: 36
0.67 0.16 0.17
Matches are distributed among these distances:
85 1 0.01
86 3 0.02
87 11 0.08
88 11 0.08
89 50 0.36
90 40 0.29
91 10 0.07
92 10 0.07
93 3 0.02
94 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (89 bp):
CACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCTGGAGTGGAATAGA
CCAAATTTAGACAGATCTTATCTT
Found at i:108635636 original size:179 final size:179
Alignment explanation
Indices: 108635304--108635702 Score: 631
Period size: 179 Copynumber: 2.2 Consensus size: 179
108635294 CAGATTTCGG
* *
108635304 CAAGCCTTATC-ACACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATTTCATCCCACTGGC
1 CAAGCCTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGC
* * *
108635367 AGGAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAA
65 AGGAGTGGAACAGACCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAA
* *
108635432 TTTTGGTAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
130 TTTTGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * *
108635482 CCAGCCTTATCTTCCCTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCT
1 CAAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCA
*
108635547 GGAGTGGAACAGACCAAATTTTGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAAT
66 GGAGTGGAACAGACCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAAT
* * * *
108635612 TTTGGCGAATATTATCTTCATGTATCGGCATTGGAGCAGATTTCAGCCA
131 TTTGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
*
108635661 CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATA
1 CAAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATA
108635703 CTAGATCTTA
Statistics
Matches: 201, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
178 13 0.06
179 188 0.94
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (179 bp):
CAAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCA
GGAGTGGAACAGACCAAATTTCGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAAT
TTTGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:108635709 original size:133 final size:133
Alignment explanation
Indices: 108635572--108636265 Score: 966
Period size: 133 Copynumber: 5.2 Consensus size: 133
108635562 AAATTTTGAC
* * *
108635572 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATATTATCTTCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
108635637 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
66 CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
108635702 ACT
131 ACT
*
108635705 AGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
*
108635770 CGGCAATGGAGCAGATTTCAGCCACCAA-CCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
66 CGGCATTGGAGCAGATTTCAGCCA-CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
*
108635834 CATACC
129 -ATACT
* * * *
108635840 AGATCTTATCTTCACTGAGTAGGAGTGAAGCAGATCAAATTTT-GTCAAGTCTTATCTCCATGTA
1 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAA-TCTTATCTCCATGTA
* * * *
108635904 TCGGCAATT-GAGTAAATTCCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
65 TCGGC-ATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
108635968 ATACT
129 ATACT
* * * * * *
108635973 AGATCTTGTCTTCGCTGAGCAGGAGCAGAGTAAATCAAATTTTGGTGAATCTTATCTTCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
* *
108636038 CGGCAATT-GAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATA
66 CGGC-ATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
108636102 TACT
130 TACT
** * ** *
108636106 AGATCTTATCTTTGCTGAGCAGAAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
* * **
108636171 CGGCAATGGAGCAGATTCCAATCATC-AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
66 CGGCATTGGAGCAGATTTCAGCCA-CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
*
108636235 CATACC
129 -ATACT
*
108636241 AGATCTTATCTTTACTGAGCAGGAG
1 AGATCTTATCTTCACTGAGCAGGAG
108636266 TAAAACAGAT
Statistics
Matches: 503, Mismatches: 47, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
132 2 0.00
133 344 0.68
134 19 0.04
135 136 0.27
136 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (133 bp):
AGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTAT
CGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAT
ACT
Found at i:108635761 original size:179 final size:177
Alignment explanation
Indices: 108635304--108635748 Score: 608
Period size: 179 Copynumber: 2.5 Consensus size: 177
108635294 CAGATTTCGG
* *
108635304 CAAGCCTTATC-ACACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGAT-TTCATCCCACTGGC
1 CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATA--AGATCTT-ATCCCACTGGC
* * *
108635367 AGGAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAA
63 AGGAGTGGAACAGATCAAATTTTGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAA
* *
108635432 TTTTGGTAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
128 TTTTGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* * * * *
108635482 CCAGCCTTATCTTCCCTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTGGCT
1 CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATA--AGATCTTATCCCACTGGCA
*
108635547 GGAGTGGAACAGACCAAATTTTGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAAT
64 GGAGTGGAACAGATCAAATTTTGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAAT
* * * *
108635612 TTTGGCGAATATTATCTTCATGTATCGGCATTGGAGCAGATTTCAGCCA
129 TTTGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
* *
108635661 CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACT-AGATCTTATCTTCGCTGAGC
1 CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATA-TAAGATCTTATC-CCACTG-GC
* *
108635725 AGGAGCGGAGCAGATCAAATTTTG
63 AGGAGTGGAACAGATCAAATTTTG
108635749 GTGAATCTTA
Statistics
Matches: 235, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
177 9 0.04
178 14 0.06
179 210 0.89
180 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (177 bp):
CAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAAGATCTTATCCCACTGGCAGG
AGTGGAACAGATCAAATTTTGACAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTT
TGGCAAATATTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCA
Found at i:108636280 original size:268 final size:265
Alignment explanation
Indices: 108635571--108636281 Score: 1037
Period size: 268 Copynumber: 2.7 Consensus size: 265
108635561 CAAATTTTGA
* * * *
108635571 CAGATCTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCGAATATTATCTTCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTT-GTGAATCTTATCTCCATGTA
* *
108635636 TCGGCATTGGAGCAGATTTCAGCCACAAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCAATGGAGCAGATTCCAGCCAC-AGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
*
108635701 TACTAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCAT
129 TACTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGTGAATCTTATCTCCAT
108635766 GTATCGGCAATGGAGCAGATTTCAGCCACCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
194 GTATCGGCAATGGAGCAGATTTCAGCCACCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
108635831 AAACATAC
259 -AACATAC
* * *
108635839 CAGATCTTATCTTCACTGAGTAGGAGTGAAGCAGATCAAATTTTGTCAAGTCTTATCTCCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGTGAA-TCTTATCTCCATGTA
* * *
108635904 TCGGCAATTGAGTAAATTCCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCAATGGAGCAGATTCCAGCCA-CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
* * * *
108635969 TACTAGATCTTGTCTTCGCTGAGCAGGAGCAGAGTAAATCAAATTTTGGTGAATCTTATCTTCAT
129 TACTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGTGAATCTTATCTCCAT
* *
108636034 GTATCGGCAATTGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
194 GTATCGGCAATGGAGCAGATTTCAGCCACCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT
*
108636099 -ATATAC
259 AACATAC
* ** * *
108636105 TAGATCTTATCTTTGCTGAGCAGAAGCAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTG-TGAATCTTATCTCCATGTA
**
108636170 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
65 TCGGCAATGGAGCAGATTCCAGCCA-CAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
* ** * * *
108636235 CATACCAGATCTTATCTTTACTGAGCAGGAGTAAAACAGATCAAATT
128 -ATACTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATT
108636282 ACAGCAGATC
Statistics
Matches: 395, Mismatches: 43, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
266 114 0.29
267 8 0.02
268 272 0.69
269 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (265 bp):
CAGATCTTATCTTCACTGAGCAGGAGCGAAGCAGATCAAATTTTGTGAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTCCAGCCACAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATA
CTAGATCTTATCTTCGCTGAGCAGGAGCAGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGT
ATCGGCAATGGAGCAGATTTCAGCCACCAACCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
CATAC
Found at i:108636532 original size:29 final size:29
Alignment explanation
Indices: 108636499--108636555 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
108636489 TAAACACTCC
108636499 ACTAAACCGA-CCACTAACTCCATCACCCT
1 ACTAAACC-ATCCACTAACTCCATCACCCT
*
108636528 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCATCCACTAACTCCATCACCC
108636556 CCACACCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCCT
Found at i:108636570 original size:37 final size:37
Alignment explanation
Indices: 108636522--108636596 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
108636512 CTAACTCCAT
108636522 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
108636559 CACCCTACTAAACCGTCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
108636596 C
1 C
108636597 TAACTCCATC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.55, G:0.01, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:108636598 original size:18 final size:18
Alignment explanation
Indices: 108636538--108636610 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
108636528 ACTAAACCAT
108636538 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
108636556 CCAC-ACC-CTACTAAACCGT
1 CCACTACCTCCA-T-CACC-C
108636575 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
*
108636593 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
108636611 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 24 0.56
19 7 0.16
20 4 0.09
21 2 0.05
ACGTcount: A:0.26, C:0.56, G:0.01, T:0.16
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:108637020 original size:63 final size:63
Alignment explanation
Indices: 108636899--108637025 Score: 161
Period size: 63 Copynumber: 2.0 Consensus size: 63
108636889 CCTTTTTTTA
* *
108636899 TTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTATT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTATT
* *
108636963 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATATTTAT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATT-TT-TATATTTAT
108637025 T
63 T
108637026 ATGTAAATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
61 8 0.14
62 6 0.11
63 30 0.54
64 12 0.21
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.63
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTATT
Found at i:108639471 original size:16 final size:17
Alignment explanation
Indices: 108639450--108639488 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
108639440 AACGAATTTT
108639450 TTGTTTGGGC-CATGGG
1 TTGTTTGGGCTCATGGG
*
108639466 TTGTTTCGGCTCATGGG
1 TTGTTTGGGCTCATGGG
108639483 -TGTTTG
1 TTGTTTG
108639489 ACATTGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.05, C:0.13, G:0.38, T:0.44
Consensus pattern (17 bp):
TTGTTTGGGCTCATGGG
Found at i:108641057 original size:25 final size:25
Alignment explanation
Indices: 108641009--108641062 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
108640999 AATTATTTTC
**
108641009 TAAAATTAAATATTTTAACTAATAA
1 TAAAATTAAATATAGTAACTAATAA
108641034 TAAAATTAAATATAGTAA-TAAATAA
1 TAAAATTAAATATAGTAACT-AATAA
108641059 TAAA
1 TAAA
108641063 TATGGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
TAAAATTAAATATAGTAACTAATAA
Found at i:108641064 original size:19 final size:18
Alignment explanation
Indices: 108641031--108641070 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
108641021 TTTTAACTAA
*
108641031 TAATAAAATTAAATATAG
1 TAATAAAAATAAATATAG
*
108641049 TAATAAATAATAAATATGG
1 TAATAAA-AATAAATATAG
108641068 TAA
1 TAA
108641071 ATTTAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (18 bp):
TAATAAAAATAAATATAG
Found at i:108642677 original size:15 final size:15
Alignment explanation
Indices: 108642657--108642695 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
108642647 GAATTATTTA
108642657 AAAATATTAAAAGA-T
1 AAAATATTAAAA-ATT
*
108642672 AAAATAGTAAAAATT
1 AAAATATTAAAAATT
108642687 AAAATATTA
1 AAAATATTA
108642696 TTTTTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAATT
Found at i:108650200 original size:6 final size:6
Alignment explanation
Indices: 108650189--108650224 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
108650179 ATATCTTCTT
*
108650189 ATAAAA ATAAAA ATAAAA ATAAAT ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
108650225 TTCCAACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:108650739 original size:24 final size:25
Alignment explanation
Indices: 108650712--108650758 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
108650702 TAAAAAAATA
*
108650712 TAAAATTT-TAATTTAATACAATGG
1 TAAAATTTATAATCTAATACAATGG
*
108650736 TAAAATTTATAATCTAATTCAAT
1 TAAAATTTATAATCTAATACAAT
108650759 CTCGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (25 bp):
TAAAATTTATAATCTAATACAATGG
Found at i:108663022 original size:51 final size:51
Alignment explanation
Indices: 108662951--108663111 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
108662941 CTGATCACAT
108662951 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
108663002 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACAACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
108663053 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
108663104 TTGTCACT
1 TTATCACT
108663112 GATCAGAAGT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 104 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:108666920 original size:18 final size:18
Alignment explanation
Indices: 108666899--108666958 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
108666889 AATCGGTTAA
*
108666899 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
108666917 TCAGT-ATCAGTCATTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
108666935 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
108666953 TCAGTA
1 TCAGTA
108666959 GCAGACAGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 2 0.06
18 32 0.91
19 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:108672897 original size:3 final size:3
Alignment explanation
Indices: 108672889--108672920 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
108672879 TTCTACTCCC
108672889 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
108672921 ATAGGAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:108673279 original size:34 final size:34
Alignment explanation
Indices: 108673240--108673306 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
108673230 AATATAAAAG
*
108673240 GTGCCCCTAATGCATTTAGA-ATCCTTAATTGAAT
1 GTGCCCCTAATGCATTGA-ATATCCTTAATTGAAT
*
108673274 GTGCCCCTATTGCATTGAATATCCTTAATTGAA
1 GTGCCCCTAATGCATTGAATATCCTTAATTGAA
108673307 GATTGAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 1 0.03
34 29 0.97
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (34 bp):
GTGCCCCTAATGCATTGAATATCCTTAATTGAAT
Found at i:108688052 original size:22 final size:22
Alignment explanation
Indices: 108688027--108688075 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
108688017 CGAATCAACT
* * *
108688027 ATTTTGTTATTATTTTGTTACA
1 ATTTTGTTACTATATTGCTACA
* *
108688049 ATTTCGTTACTATATTGCTACT
1 ATTTTGTTACTATATTGCTACA
108688071 ATTTT
1 ATTTT
108688076 ATTGTTATGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (22 bp):
ATTTTGTTACTATATTGCTACA
Found at i:108688583 original size:2 final size:2
Alignment explanation
Indices: 108688578--108688606 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
108688568 CTTTAGTCTC
108688578 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108688607 TATTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:108688818 original size:17 final size:17
Alignment explanation
Indices: 108688796--108688828 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
108688786 TTTTAAAAAT
108688796 TATATTAGAAATTTTAA
1 TATATTAGAAATTTTAA
108688813 TATATTAGAAATTTTA
1 TATATTAGAAATTTTA
108688829 TAAATCACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
TATATTAGAAATTTTAA
Found at i:108689085 original size:9 final size:9
Alignment explanation
Indices: 108689073--108689156 Score: 53
Period size: 9 Copynumber: 9.0 Consensus size: 9
108689063 TCACAATTTT
108689073 TTTTTTTAA
1 TTTTTTTAA
**
108689082 TTTTAGTAA
1 TTTTTTTAA
***
108689091 TTTAAGTAA
1 TTTTTTTAA
108689100 TTTTTTTAA
1 TTTTTTTAA
108689109 TTTTTTTGTAA
1 -TTTTTT-TAA
*
108689120 -TTTTATAA
1 TTTTTTTAA
*
108689128 GTTTTTTCAA
1 -TTTTTTTAA
*
108689138 TTTTTAATAA
1 TTTTT-TTAA
108689148 TTTTTTTAA
1 TTTTTTTAA
108689157 AATTTTTGTA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
8 3 0.05
9 33 0.57
10 19 0.33
11 3 0.05
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:108689119 original size:20 final size:20
Alignment explanation
Indices: 108689096--108689173 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
108689086 AGTAATTTAA
*
108689096 GTAATTTTTTTAATTTTTTT
1 GTAATTTTTATAATTTTTTT
*
108689116 GTAA-TTTTATAAGTTTTTT
1 GTAATTTTTATAATTTTTTT
*
108689135 -CAATTTTTAATAATTTTTTT
1 GTAATTTTT-ATAATTTTTTT
** * *
108689155 AAAATTTTTGTACTTTTTT
1 GTAATTTTTATAATTTTTT
108689174 CATTTTTAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 2 0.04
19 17 0.35
20 22 0.46
21 7 0.15
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
GTAATTTTTATAATTTTTTT
Found at i:108689151 original size:28 final size:28
Alignment explanation
Indices: 108689073--108689151 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
108689063 TCACAATTTT
*
108689073 TTTTTTTAA-TTTTAGTAATTTAAGTAA
1 TTTTTTTAATTTTTAGTAATTTTAGTAA
*
108689100 TTTTTTTAATTTTTTTGTAATTTTA-TAA
1 TTTTTTTAA-TTTTTAGTAATTTTAGTAA
* *
108689128 GTTTTTTCAATTTTTAATAATTTT
1 -TTTTTTTAATTTTTAGTAATTTT
108689152 TTTAAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.20
28 15 0.34
29 20 0.45
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTTTTTAATTTTTAGTAATTTTAGTAA
Found at i:108689163 original size:48 final size:48
Alignment explanation
Indices: 108689091--108689201 Score: 127
Period size: 48 Copynumber: 2.3 Consensus size: 48
108689081 ATTTTAGTAA
** **
108689091 TTTAAGTAATTTTTTTAATTTTTTTGTAATTTTATAAGTTTTTTCA-ATT
1 TTTAA-TAATTTTTTTAAAATTTTTGTAATTTTATAA-TTTTTAAAGATT
* * *
108689140 TTTAATAATTTTTTTAAAATTTTTGTACTTTTTTCATTTTTAAAGATT
1 TTTAATAATTTTTTTAAAATTTTTGTAATTTTATAATTTTTAAAGATT
108689188 TTTAA-AATTTTTTT
1 TTTAATAATTTTTTT
108689202 CGAATGATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 15 0.28
48 34 0.63
49 5 0.09
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (48 bp):
TTTAATAATTTTTTTAAAATTTTTGTAATTTTATAATTTTTAAAGATT
Found at i:108689320 original size:31 final size:31
Alignment explanation
Indices: 108689282--108689347 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
108689272 TAGTTCAAAG
*
108689282 GACTAAACT-AGAAACATCC-GATAATGTTAGA
1 GACTAAACTGAG-AACA-CCTGATAATATTAGA
*
108689313 GACTAAACTGAGAACACCTGATAATATTAGG
1 GACTAAACTGAGAACACCTGATAATATTAGA
108689344 GACT
1 GACT
108689348 GAAATTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 27 0.87
32 2 0.06
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.23
Consensus pattern (31 bp):
GACTAAACTGAGAACACCTGATAATATTAGA
Done.