Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 73 of 171
Found at i:25779593 original size:45 final size:45
Alignment explanation
Indices: 25779529--25779620 Score: 159
Period size: 45 Copynumber: 2.0 Consensus size: 45
25779519 AATTTTGACC
25779529 TAACTCAGCAGCATTTTAGATCCT-ATCCTAATATATATACTAGAG
1 TAACTCAGCAGCATTTTAGAT-CTGATCCTAATATATATACTAGAG
*
25779574 TAACTCAGCAGCATTTTAGATTTGATCCTAATATATATACTAGAG
1 TAACTCAGCAGCATTTTAGATCTGATCCTAATATATATACTAGAG
25779619 TA
1 TA
25779621 TTTGTACGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (45 bp):
TAACTCAGCAGCATTTTAGATCTGATCCTAATATATATACTAGAG
Found at i:25781075 original size:23 final size:23
Alignment explanation
Indices: 25781040--25781090 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
25781030 AGACTGGCCC
*
25781040 GACCCGAACCCGTTAACCAATCT
1 GACCCGAACCCGTTAACCAACCT
* * *
25781063 GACCTGAAGCCGTTGACCAACCT
1 GACCCGAACCCGTTAACCAACCT
25781086 GACCC
1 GACCC
25781091 ATACCCATAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.16
Consensus pattern (23 bp):
GACCCGAACCCGTTAACCAACCT
Found at i:25781145 original size:13 final size:12
Alignment explanation
Indices: 25781127--25781219 Score: 80
Period size: 13 Copynumber: 7.2 Consensus size: 12
25781117 CCTAGACCTA
25781127 TTGACCTTTGACT
1 TTGA-CTTTGACT
*
25781140 TTGACCTTTAACT
1 TTGA-CTTTGACT
25781153 TTGACTATTGACT
1 TTGACT-TTGACT
*
25781166 TTGACCTTTGACCA
1 TTGA-CTTTGA-CT
25781180 TTGACTTTGACAGT
1 TTGACTTTGAC--T
*
25781194 TT-ACTTTAACCT
1 TTGACTTTGA-CT
25781206 TTGACTTTGACT
1 TTGACTTTGACT
25781218 TT
1 TT
25781220 AACCGTTGAC
Statistics
Matches: 67, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
12 10 0.15
13 47 0.70
14 10 0.15
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (12 bp):
TTGACTTTGACT
Found at i:25781157 original size:26 final size:25
Alignment explanation
Indices: 25781127--25781219 Score: 100
Period size: 26 Copynumber: 3.6 Consensus size: 25
25781117 CCTAGACCTA
25781127 TTGACCTTTGACTTTGACCTTTAACT
1 TTGA-CTTTGACTTTGACCTTTAACT
* *
25781153 TTGACTATTGACTTTGACCTTTGACCA
1 TTGACT-TTGACTTTGACCTTT-AACT
25781180 TTGACTTTGACAGTTT-A-CTTTAACCT
1 TTGACTTTGAC--TTTGACCTTTAA-CT
25781206 TTGACTTTGACTTT
1 TTGACTTTGACTTT
25781220 AACCGTTGAC
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.05
25 3 0.05
26 40 0.69
27 9 0.16
28 3 0.05
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.46
Consensus pattern (25 bp):
TTGACTTTGACTTTGACCTTTAACT
Found at i:25781174 original size:20 final size:20
Alignment explanation
Indices: 25781127--25781190 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
25781117 CCTAGACCTA
25781127 TTGACCTTTGACT-TTGACCT
1 TTGACCTTTGACTATTGA-CT
*
25781147 TT-AACTTTGACTATTGACT
1 TTGACCTTTGACTATTGACT
*
25781166 TTGACCTTTGACCATTGACT
1 TTGACCTTTGACTATTGACT
25781186 TTGAC
1 TTGAC
25781191 AGTTTACTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (20 bp):
TTGACCTTTGACTATTGACT
Found at i:25781175 original size:33 final size:33
Alignment explanation
Indices: 25781124--25781219 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 33
25781114 CGACCTAGAC
*
25781124 CTATTGACCTTTGA-CTTTGACCTTTAACTTTGA
1 CTATTGA-CTTTGACCTTTGACCTTTGACTTTGA
*
25781157 CTATTGACTTTGACCTTTGACCATTGACTTTGA
1 CTATTGACTTTGACCTTTGACCTTTGACTTTGA
* *
25781190 C-AGTTTACTTTAACCTTTGA-CTTTGACTTT
1 CTA-TTGACTTTGACCTTTGACCTTTGACTTT
25781220 AACCGTTGAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 16 0.29
33 40 0.71
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (33 bp):
CTATTGACTTTGACCTTTGACCTTTGACTTTGA
Found at i:25787292 original size:81 final size:81
Alignment explanation
Indices: 25787168--25787590 Score: 596
Period size: 81 Copynumber: 5.2 Consensus size: 81
25787158 CCCACTGAAT
* * * * *
25787168 GGGTAAAAGATCGAATGGTGTCTTTAATCTACCCTCTGATTAGGGTAAATGATTGGATGGCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
*
25787233 ATCTGCCCCATGGTCG
66 ATCTACCCCATGGTCG
* * * *
25787249 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTTTTGGTTAGGGTAAAAGATTGGAT-GCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
25787313 ATCTACCCCATGGTCG
66 ATCTACCCCATGGTCG
* * *
25787329 AGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTTTGGTTAGGGTAAAAGATTGGATGGCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
* *
25787394 ATTTTCCCCATGGTCG
66 ATCTACCCCATGGTCG
** * * * *
25787410 GGGTAAAAGATTGGATTATGTCTTCAATCTGCTCTCTGGTTAGGATAAAAGATTGAATGGCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
* *
25787475 ATTTACCCCATGGTTG
66 ATCTACCCCATGGTCG
* * *
25787491 GGGTAAAAGATTGGATGGTCTCTTCAATCTACCCTCTCGTTAAGGTAAAAGATTGGATGGCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
*
25787556 ATCTACCCCATAGTCG
66 ATCTACCCCATGGTCG
25787572 GGGTAAAAGATTGGATGGT
1 GGGTAAAAGATTGGATGGT
25787591 AGCTTTCCCT
Statistics
Matches: 303, Mismatches: 38, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
80 76 0.25
81 227 0.75
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (81 bp):
GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCA
ATCTACCCCATGGTCG
Found at i:25787295 original size:42 final size:42
Alignment explanation
Indices: 25787168--25787590 Score: 349
Period size: 42 Copynumber: 10.5 Consensus size: 42
25787158 CCCACTGAAT
* * * * *
25787168 GGGTAAAAGATCGAATGGTGTCTTTAATCTACCCTCTGATTA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * * **
25787210 GGGTAAATGATTGGAT-G-G-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * * *
25787249 GGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTTTTGGTTA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* *
25787291 GGGTAAAAGATTGGA---TG-CTTCAATCTACCCCATGG-TC
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* *
25787328 GAGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTTTGGTTA
1 G-GGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * * **
25787371 GGGTAAAAGATTGGAT-G-G-CTTCAATTTTCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
** * * *
25787410 GGGTAAAAGATTGGATTATGTCTTCAATCTGCTCTCTGGTTA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * * * *
25787452 GGATAAAAGATTGAAT-G-G-CTTCAATTTACCCCATGGTTG
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * *
25787491 GGGTAAAAGATTGGATGGTCTCTTCAATCTACCCTCTCGTTA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
* * * **
25787533 AGGTAAAAGATTGGAT-G-G-CTTCAATCTACCCCATAGTCG
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
25787572 GGGTAAAAGATTGGATGGT
1 GGGTAAAAGATTGGATGGT
25787591 AGCTTTCCCT
Statistics
Matches: 297, Mismatches: 67, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
37 2 0.01
38 27 0.09
39 121 0.41
40 6 0.02
41 7 0.02
42 132 0.44
43 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTATGGTTA
Found at i:25787452 original size:161 final size:162
Alignment explanation
Indices: 25787169--25787588 Score: 610
Period size: 161 Copynumber: 2.6 Consensus size: 162
25787159 CCACTGAATG
* * * * *
25787169 GGTAAAAGATCGAATGGTGTCTTTAATCTACCCTCTGATTAGGGTAAATGATTGGATGGCTTCAA
1 GGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAA
* * * * *
25787234 TCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTGTCTTCAATCTGCCTTTTGGTTAGGGTAAAA
66 TCTACCCCATGGTCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCTTCTGGTTAGGATAAAA
*
25787299 GATTGGAT-GCTTCAATCTACCCCATGGTCGA
131 GATTGAATGGCTTCAATCTACCCCATGGTCGA
* *
25787330 GGTAAGAGATTGGATGGTGTCTTCAATCTACCCTTTGGTTAGGGTAAAAGATTGGATGGCTTCAA
1 GGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAA
* * *
25787395 TTTTCCCCATGGTCGGGGTAAAAGATTGGATTATGTCTTCAATCTG-CTCTCTGGTTAGGATAAA
66 TCTACCCCATGGTCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCT-TCTGGTTAGGATAAA
* * *
25787459 AGATTGAATGGCTTCAATTTACCCCATGGTTGG
130 AGATTGAATGGCTTCAATCTACCCCATGGTCGA
* * *
25787492 GGTAAAAGATTGGATGGTCTCTTCAATCTACCCTCTCGTTAAGGTAAAAGATTGGATGGCTTCAA
1 GGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAA
*
25787557 TCTACCCCATAGTCGGGGTAAAAGATTGGATG
66 TCTACCCCATGGTCGGGGTAAAAGATTGGATG
25787589 GTAGCTTTCC
Statistics
Matches: 230, Mismatches: 27, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
160 2 0.01
161 120 0.52
162 108 0.47
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (162 bp):
GGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGGCTTCAA
TCTACCCCATGGTCGGGGTAAAAGATTGGATGATGTCTTCAATCTGCCTTCTGGTTAGGATAAAA
GATTGAATGGCTTCAATCTACCCCATGGTCGA
Found at i:25789737 original size:25 final size:25
Alignment explanation
Indices: 25789703--25789772 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
25789693 GTCAACATGT
*
25789703 TGCTTTGCTTTGCTTTGTTGTGTTG
1 TGCTTTGCTTTGCTTTGTTGTGATG
* *
25789728 TG-TTGTGCTTCGCTATGTTGTGATG
1 TGCTT-TGCTTTGCTTTGTTGTGATG
*
25789753 TGCTTTGCGGTTGCTTTGTT
1 TGCTTTGC-TTTGCTTTGTT
25789773 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
24 2 0.06
25 24 0.67
26 10 0.28
ACGTcount: A:0.03, C:0.13, G:0.30, T:0.54
Consensus pattern (25 bp):
TGCTTTGCTTTGCTTTGTTGTGATG
Found at i:25789784 original size:18 final size:21
Alignment explanation
Indices: 25789763--25789867 Score: 78
Period size: 22 Copynumber: 5.1 Consensus size: 21
25789753 TGCTTTGCGG
25789763 TTGCTTTGTTTT-TTTTT-T-
1 TTGCTTTGTTTTCTTTTTATA
25789781 TTGCTTTGCTTTTCTTTTTATA
1 TTGCTTTG-TTTTCTTTTTATA
*
25789803 TTGCTTTGTTGTGC--TTTACT-
1 TTGCTTTGTT-TTCTTTTTA-TA
* * *
25789823 TTGTTTTGCTTTGTTTTTATA
1 TTGCTTTGTTTTCTTTTTATA
* *
25789844 TTGCTTTGCCTTGCTTTTTATA
1 TTGCTTTG-TTTTCTTTTTATA
25789866 TT
1 TT
25789868 TTTTTGCTTT
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
18 8 0.12
19 5 0.07
20 18 0.26
21 15 0.22
22 23 0.33
ACGTcount: A:0.07, C:0.11, G:0.13, T:0.69
Consensus pattern (21 bp):
TTGCTTTGTTTTCTTTTTATA
Found at i:25789834 original size:10 final size:10
Alignment explanation
Indices: 25789763--25789925 Score: 54
Period size: 10 Copynumber: 16.2 Consensus size: 10
25789753 TGCTTTGCGG
25789763 TTGCTTTGTT
1 TTGCTTTGTT
*
25789773 TT--TTTTTT
1 TTGCTTTGTT
25789781 TTGCTTTGCTT
1 TTGCTTTG-TT
*
25789792 TT-CTTTTTAT
1 TTGCTTTGT-T
25789802 ATTGCTTTGTT
1 -TTGCTTTGTT
* **
25789813 GTGCTTTACT
1 TTGCTTTGTT
* *
25789823 TTGTTTTGCT
1 TTGCTTTGTT
*
25789833 TTG-TTTTTAT
1 TTGCTTTGT-T
**
25789843 ATTGCTTTGCC
1 -TTGCTTTGTT
25789854 TTGCTTT-TT
1 TTGCTTTGTT
* *
25789863 AT-ATTT-TT
1 TTGCTTTGTT
25789871 TTGCTTTGTT
1 TTGCTTTGTT
* *
25789881 TTACTTTGCT
1 TTGCTTTGTT
25789891 TTGCTTT-TAT
1 TTGCTTTGT-T
*
25789901 ATTGATATTGTT
1 -TTGCT-TTGTT
25789913 TTGCTTTGCTT
1 TTGCTTTG-TT
25789924 TT
1 TT
25789926 CATTTTATAT
Statistics
Matches: 110, Mismatches: 27, Indels: 31
0.65 0.16 0.18
Matches are distributed among these distances:
8 13 0.12
9 8 0.07
10 55 0.50
11 22 0.20
12 11 0.10
13 1 0.01
ACGTcount: A:0.07, C:0.11, G:0.13, T:0.68
Consensus pattern (10 bp):
TTGCTTTGTT
Found at i:25789851 original size:63 final size:63
Alignment explanation
Indices: 25789763--25789925 Score: 183
Period size: 63 Copynumber: 2.6 Consensus size: 63
25789753 TGCTTTGCGG
* *
25789763 TTGCTTTG-TTT-TTTTT-TTTTGCTTTGCTTTTCTTTTTATATTGCTTTG-TTGTGCTTTACT
1 TTGCTTTGCTTTGTTTTTATATTGCTTTGCTTTGCTTTTTATATTGCTTTGCTT-TGCTTTACT
* * ** *
25789823 TTGTTTTGCTTTGTTTTTATATTGCTTTGCCTTGCTTTTTATATTTTTTTGCTTTGTTTTACT
1 TTGCTTTGCTTTGTTTTTATATTGCTTTGCTTTGCTTTTTATATTGCTTTGCTTTGCTTTACT
* *
25789886 TTGCTTTGCTTT-TATATTGATATTGTTTTGCTTTGCTTTT
1 TTGCTTTGCTTTGT-T-TTTATATTGCTTTGCTTTGCTTTT
25789926 CATTTTATAT
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
60 7 0.08
61 3 0.03
62 6 0.07
63 47 0.55
64 23 0.27
ACGTcount: A:0.07, C:0.11, G:0.13, T:0.68
Consensus pattern (63 bp):
TTGCTTTGCTTTGTTTTTATATTGCTTTGCTTTGCTTTTTATATTGCTTTGCTTTGCTTTACT
Found at i:25789909 original size:42 final size:43
Alignment explanation
Indices: 25789823--25789925 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 43
25789813 GTGCTTTACT
* * * *
25789823 TTGTTTTGCTTTGTTTTTATATTGCTTTGCCTTGCTTTTTATA
1 TTGTTTTGCTTTGCTTTTATATTGCTTTGCCTTGATATTGATA
* * *
25789866 TTTTTTTGCTTTG-TTTTACT-TTGCTTTGCTTTTATATTGATA
1 TTGTTTTGCTTTGCTTTTA-TATTGCTTTGCCTTGATATTGATA
25789908 TTGTTTTGCTTTGCTTTT
1 TTGTTTTGCTTTGCTTTT
25789926 CATTTTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
42 34 0.67
43 17 0.33
ACGTcount: A:0.09, C:0.11, G:0.14, T:0.67
Consensus pattern (43 bp):
TTGTTTTGCTTTGCTTTTATATTGCTTTGCCTTGATATTGATA
Found at i:25789915 original size:27 final size:28
Alignment explanation
Indices: 25789887--25789978 Score: 111
Period size: 27 Copynumber: 3.4 Consensus size: 28
25789877 TGTTTTACTT
*
25789887 TGCTTTGCTTTT-ATATTGATATTGTTT
1 TGCTTTGCTTTTCATATTGATATTGTTG
* *
25789914 TGCTTTGCTTTTCAT-TTTATATTGTCG
1 TGCTTTGCTTTTCATATTGATATTGTTG
*
25789941 TGCTGTT-CTTTTCATATTGAT-GTGTTG
1 TGCT-TTGCTTTTCATATTGATATTGTTG
25789968 TGCTTTGCTTT
1 TGCTTTGCTTT
25789979 GCTTTTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
26 2 0.04
27 45 0.82
28 8 0.15
ACGTcount: A:0.11, C:0.12, G:0.17, T:0.60
Consensus pattern (28 bp):
TGCTTTGCTTTTCATATTGATATTGTTG
Found at i:25789991 original size:15 final size:14
Alignment explanation
Indices: 25789971--25790020 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
25789961 TGTGTTGTGC
25789971 TTTGCTTTGCTTTTA
1 TTTGCTTTG-TTTTA
25789986 TTTGCTTTGTTTTA
1 TTTGCTTTGTTTTA
* *
25790000 TATTGCGTTGATTTTC
1 T-TTGCTTTG-TTTTA
25790016 TTTGC
1 TTTGC
25790021 ATTTTATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 6 0.19
15 20 0.65
16 5 0.16
ACGTcount: A:0.08, C:0.12, G:0.16, T:0.64
Consensus pattern (14 bp):
TTTGCTTTGTTTTA
Found at i:25790005 original size:25 final size:26
Alignment explanation
Indices: 25789977--25790033 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
25789967 GTGCTTTGCT
*
25789977 TTGCTTTTATTTGCTTTG-TTTTATA
1 TTGCTTTGATTTGCTTTGATTTTATA
* *
25790002 TTGCGTTGATTTTCTTTGCATTTTATA
1 TTGCTTTGATTTGCTTTG-ATTTTATA
25790029 TTGCT
1 TTGCT
25790034 ATAATTTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 15 0.58
27 11 0.42
ACGTcount: A:0.12, C:0.11, G:0.14, T:0.63
Consensus pattern (26 bp):
TTGCTTTGATTTGCTTTGATTTTATA
Found at i:25793241 original size:29 final size:27
Alignment explanation
Indices: 25793199--25793256 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 27
25793189 GAAAATGATT
*
25793199 ATTAAAAATAATAATATAAATATACTTAA
1 ATTAAAAATAATAAT-TAAATA-AATTAA
25793228 ATTAAAAATAATAATTAAATAAATTAA
1 ATTAAAAATAATAATTAAATAAATTAA
25793255 AT
1 AT
25793257 CCATATATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 7 0.25
28 6 0.21
29 15 0.54
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTAAAAATAATAATTAAATAAATTAA
Found at i:25793453 original size:17 final size:18
Alignment explanation
Indices: 25793431--25793466 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25793421 AAACAAAGCC
*
25793431 AAAGCAAAGGAAA-ATAT
1 AAAGCAAAGCAAAGATAT
25793448 AAAGCAAAGCAAAGATAT
1 AAAGCAAAGCAAAGATAT
25793466 A
1 A
25793467 TATGAAGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (18 bp):
AAAGCAAAGCAAAGATAT
Found at i:25793456 original size:22 final size:21
Alignment explanation
Indices: 25793425--25793500 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 21
25793415 AATATAAAAC
25793425 AAAGCCAAAGCAAAGGAAAATAT
1 AAAG-CAAAGCAAA-GAAAATAT
*
25793448 AAAGCAAAGCAAAGATATATAT
1 AAAGCAAAGCAAAGA-AAATAT
* *
25793470 GAAGCAAAGCAAA-ACAATAT
1 AAAGCAAAGCAAAGAAAATAT
*
25793490 AAAACAAAGCA
1 AAAGCAAAGCA
25793501 CAAAGCAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
20 13 0.28
21 3 0.07
22 26 0.57
23 4 0.09
ACGTcount: A:0.62, C:0.13, G:0.14, T:0.11
Consensus pattern (21 bp):
AAAGCAAAGCAAAGAAAATAT
Found at i:25793504 original size:22 final size:22
Alignment explanation
Indices: 25793409--25793504 Score: 54
Period size: 22 Copynumber: 4.2 Consensus size: 22
25793399 AATATTAAAG
25793409 CAAAACAATATAAAACAAAGCCAAA
1 CAAAACAATATAAAACAAAG-C--A
* *
25793434 GCAAAGGAAAATATAAAGCAAAGCA
1 -CAAA--ACAATATAAAACAAAGCA
* * * *
25793459 -AAGATATATATGAAGCAAAG--
1 CAAAACA-ATATAAAACAAAGCA
25793479 CAAAACAATATAAAACAAAGCA
1 CAAAACAATATAAAACAAAGCA
25793501 CAAA
1 CAAA
25793505 GCAAAGTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
20 11 0.20
21 6 0.11
22 16 0.29
23 2 0.04
25 1 0.02
26 4 0.07
27 1 0.02
28 14 0.25
ACGTcount: A:0.64, C:0.15, G:0.11, T:0.10
Consensus pattern (22 bp):
CAAAACAATATAAAACAAAGCA
Found at i:25794805 original size:27 final size:27
Alignment explanation
Indices: 25794772--25794827 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
25794762 AAAAATAATT
*
25794772 ATTAAAAATAATAA-TATATATAATTAA
1 ATTAAAAATAATAATTAAATA-AATTAA
*
25794799 ATTAAAAATAGTAATTAAATAAATTAA
1 ATTAAAAATAATAATTAAATAAATTAA
25794826 AT
1 AT
25794828 CCACCTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTAAAAATAATAATTAAATAAATTAA
Found at i:25795043 original size:26 final size:26
Alignment explanation
Indices: 25795014--25795106 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 26
25795004 AATACAATAT
*
25795014 TAAAGAAAATGTAAAACAAAGCAAAG
1 TAAAGAAAATGTAAAAAAAAGCAAAG
*
25795040 TAAAG-AAATATAAAGTTATATAAAGCAAAG
1 TAAAGAAAATGTAAA---A-A-AAAGCAAAG
*
25795070 GAAAGAAAA-GTAAATAAAAAGCAAAG
1 TAAAGAAAATGTAAA-AAAAAGCAAAG
*
25795096 AAAAGTAAAAT
1 TAAAG-AAAAT
25795107 AAAGGAATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
25 8 0.15
26 18 0.33
27 5 0.09
28 3 0.06
30 17 0.31
31 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.15, T:0.15
Consensus pattern (26 bp):
TAAAGAAAATGTAAAAAAAAGCAAAG
Found at i:25795067 original size:30 final size:28
Alignment explanation
Indices: 25795031--25795123 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 28
25795021 AATGTAAAAC
*
25795031 AAAGCAAAGTAAAGAAATATAAAGTTATAT
1 AAAGCAAAGAAAAGAAA-ATAAAG-TATAT
*
25795061 AAAGCAAAGGAAAGAAAAGTAAA-TA-A-
1 AAAGCAAAGAAAAGAAAA-TAAAGTATAT
*
25795087 AAAGCAAAGAAAAGTAAAATAAAGGAATAT
1 AAAGCAAAGAAAAG-AAAATAAA-GTATAT
25795117 AAAGCAA
1 AAAGCAA
25795124 TATAAAGCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
26 17 0.31
27 5 0.09
28 3 0.06
29 2 0.04
30 27 0.50
ACGTcount: A:0.66, C:0.04, G:0.16, T:0.14
Consensus pattern (28 bp):
AAAGCAAAGAAAAGAAAATAAAGTATAT
Found at i:25795095 original size:21 final size:22
Alignment explanation
Indices: 25795066--25795109 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
25795056 TATATAAAGC
*
25795066 AAAGGAAAGAAAAGT-AAATAA
1 AAAGCAAAGAAAAGTAAAATAA
25795087 AAAGCAAAGAAAAGTAAAATAA
1 AAAGCAAAGAAAAGTAAAATAA
25795109 A
1 A
25795110 GGAATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAGCAAAGAAAAGTAAAATAA
Found at i:25795109 original size:56 final size:56
Alignment explanation
Indices: 25795015--25795123 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 56
25795005 ATACAATATT
* * **
25795015 AAAGAAAATGTAAAACAAAGCAAAGTAAAGAAATATAAAGTTATATAAAGCAAAGG
1 AAAGAAAATGTAAAAAAAAGCAAAGAAAAGAAATATAAAGGAATATAAAGCAAAGG
25795071 AAAGAAAA-GTAAATAAAAAGCAAAGAAAAGTAAA-ATAAAGGAATATAAAGCAA
1 AAAGAAAATGTAAA-AAAAAGCAAAGAAAAG-AAATATAAAGGAATATAAAGCAA
25795124 TATAAAGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 5 0.11
56 39 0.83
57 3 0.06
ACGTcount: A:0.66, C:0.05, G:0.16, T:0.14
Consensus pattern (56 bp):
AAAGAAAATGTAAAAAAAAGCAAAGAAAAGAAATATAAAGGAATATAAAGCAAAGG
Found at i:25797067 original size:3 final size:3
Alignment explanation
Indices: 25797010--25797052 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
25797000 ATAAACCTAT
25797010 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25797053 AGAGCACAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25800002 original size:25 final size:23
Alignment explanation
Indices: 25799974--25800019 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
25799964 GCTGTATCCA
25799974 AATTAAATTCTAAAAAGATAATTTG
1 AATTAAA-TCTAAAAA-ATAATTTG
*
25799999 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
25800020 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTTG
Found at i:25801089 original size:20 final size:20
Alignment explanation
Indices: 25801049--25801105 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
25801039 CACTTTTGTC
25801049 TTTTTTTTC--TTTTTC-TT
1 TTTTTTTTCAATTTTTCTTT
*
25801066 TTTTTTCTCAA-TTTTCTTT
1 TTTTTTTTCAATTTTTCTTT
25801085 TTTTTTTTCAATTTTTCTTT
1 TTTTTTTTCAATTTTTCTTT
25801105 T
1 T
25801106 CGACTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 12 0.35
20 9 0.26
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTCAATTTTTCTTT
Found at i:25802071 original size:5 final size:5
Alignment explanation
Indices: 25802046--25802115 Score: 86
Period size: 5 Copynumber: 12.8 Consensus size: 5
25802036 ATTGCATAAT
25802046 TAAAA TAAAA CTAAAA CTAAAA TAAAA TAAAA TAAAA TAAAA TAAAAA
1 TAAAA TAAAA -TAAAA -TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA
25802094 TAAAAA TAAATA TGAAAA TAAA
1 T-AAAA TAAA-A T-AAAA TAAA
25802116 TATACTAATT
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
5 32 0.52
6 26 0.43
7 3 0.05
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:25802078 original size:10 final size:10
Alignment explanation
Indices: 25802046--25802115 Score: 86
Period size: 12 Copynumber: 6.4 Consensus size: 10
25802036 ATTGCATAAT
25802046 TAAAATAAAA
1 TAAAATAAAA
25802056 CTAAAACTAAAA
1 -TAAAA-TAAAA
25802068 TAAAATAAAA
1 TAAAATAAAA
25802078 TAAAATAAAA
1 TAAAATAAAA
25802088 TAAAAATAAAAA
1 T-AAAAT-AAAA
25802100 TAAATATGAAAA
1 TAAA-AT-AAAA
25802112 TAAA
1 TAAA
25802116 TATACTAATT
Statistics
Matches: 54, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
10 16 0.30
11 18 0.33
12 20 0.37
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:25803710 original size:17 final size:17
Alignment explanation
Indices: 25803688--25803723 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
25803678 AGTTACAAGG
25803688 GTTAGGCCTTGTAGACT
1 GTTAGGCCTTGTAGACT
25803705 GTTAGGCCTTGTAGACT
1 GTTAGGCCTTGTAGACT
25803722 GT
1 GT
25803724 AACTAGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.36
Consensus pattern (17 bp):
GTTAGGCCTTGTAGACT
Found at i:25805057 original size:18 final size:18
Alignment explanation
Indices: 25805034--25805073 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
25805024 TTCATACCCT
25805034 AAATCCCAAACCAAATGG
1 AAATCCCAAACCAAATGG
25805052 AAATCCCAAACCAAATGG
1 AAATCCCAAACCAAATGG
25805070 AAAT
1 AAAT
25805074 TAATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.53, C:0.25, G:0.10, T:0.12
Consensus pattern (18 bp):
AAATCCCAAACCAAATGG
Found at i:25805471 original size:3 final size:3
Alignment explanation
Indices: 25805463--25805496 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25805453 ATAAACCTAT
25805463 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25805497 ATCAGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:25806574 original size:20 final size:20
Alignment explanation
Indices: 25806541--25806584 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25806531 GTCAACATGT
* * *
25806541 TGCTTTGCTGTGTTGTGTTG
1 TGCTTCGCTATGTTGTGATG
25806561 TGCTTCGCTATGTTGTGATG
1 TGCTTCGCTATGTTGTGATG
25806581 TGCT
1 TGCT
25806585 CTGCGTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.14, G:0.32, T:0.50
Consensus pattern (20 bp):
TGCTTCGCTATGTTGTGATG
Found at i:25806599 original size:25 final size:25
Alignment explanation
Indices: 25806539--25806599 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
25806529 TGGTCAACAT
* * * *
25806539 GTTGCTTTGCTGTGTTGTGTTGTGC
1 GTTGCTTTGTTGTGATGTGCTCTGC
*
25806564 -TTCGCTATGTTGTGATGTGCTCTGC
1 GTT-GCTTTGTTGTGATGTGCTCTGC
25806589 GTTGCTTTGTT
1 GTTGCTTTGTT
25806600 ATGCTTTGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 2 0.07
25 24 0.86
26 2 0.07
ACGTcount: A:0.03, C:0.15, G:0.31, T:0.51
Consensus pattern (25 bp):
GTTGCTTTGTTGTGATGTGCTCTGC
Found at i:25806639 original size:43 final size:42
Alignment explanation
Indices: 25806581--25806725 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 42
25806571 TGTTGTGATG
* * *
25806581 TGCTCTGCGTTGCTTTGTTATGCTTTGCTTTTTTTTTTTTTTT
1 TGCTTTGCTTTGCTTT-TTATGCTTTGCTTTTTTTTTTTATTT
* * *
25806624 TGCTTTGCTTTGCTTTTTAT--ATTGCTTTGTTGTTCTTTACTT
1 TGCTTTGCTTTGCTTTTTATGCTTTGCTTT-TT-TTTTTTATTT
* * ** *
25806666 TGTTTTGCTTTGCTTTTATATTGCTTTGC-CTTGCTTTTTATAT
1 TGCTTTGCTTTGCTTTT-TA-TGCTTTGCTTTTTTTTTTTATTT
*
25806709 TGTTTTGCTTTGCTTTT
1 TGCTTTGCTTTGCTTTT
25806726 ATATTCATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
40 7 0.09
41 2 0.02
42 27 0.33
43 39 0.48
44 2 0.02
45 1 0.01
46 4 0.05
ACGTcount: A:0.06, C:0.14, G:0.15, T:0.66
Consensus pattern (42 bp):
TGCTTTGCTTTGCTTTTTATGCTTTGCTTTTTTTTTTTATTT
Found at i:25806648 original size:22 final size:22
Alignment explanation
Indices: 25806623--25806730 Score: 129
Period size: 22 Copynumber: 5.1 Consensus size: 22
25806613 TTTTTTTTTT
25806623 TTGCTTTGCTTTGCTTTTTATA
1 TTGCTTTGCTTTGCTTTTTATA
25806645 TTGCTTTG--TTG-TTCTTTACT-
1 TTGCTTTGCTTTGCTT-TTTA-TA
*
25806665 TTGTTTTGCTTTGC-TTTTATA
1 TTGCTTTGCTTTGCTTTTTATA
*
25806686 TTGCTTTGCCTTGCTTTTTATA
1 TTGCTTTGCTTTGCTTTTTATA
*
25806708 TTGTTTTGCTTTGC-TTTTATA
1 TTGCTTTGCTTTGCTTTTTATA
25806729 TT
1 TT
25806731 CATATTGTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.03
20 15 0.20
21 26 0.35
22 31 0.42
ACGTcount: A:0.08, C:0.13, G:0.14, T:0.65
Consensus pattern (22 bp):
TTGCTTTGCTTTGCTTTTTATA
Found at i:25806719 original size:27 final size:27
Alignment explanation
Indices: 25806686--25806765 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
25806676 TGCTTTTATA
* *
25806686 TTGCTTTGCCTTGCTTTTTATATTGTT
1 TTGCTTTGCTTTTCTTTTTATATTGTT
* * *
25806713 TTGCTTTGCTTTTATATTCATATTGTT
1 TTGCTTTGCTTTTCTTTTTATATTGTT
*
25806740 TTGCTTTGCTTTTCATTTTATATTGT
1 TTGCTTTGCTTTTCTTTTTATATTGT
25806766 CGGCTGTTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.11, C:0.12, G:0.12, T:0.64
Consensus pattern (27 bp):
TTGCTTTGCTTTTCTTTTTATATTGTT
Found at i:25806726 original size:43 final size:41
Alignment explanation
Indices: 25806622--25806730 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 41
25806612 TTTTTTTTTT
*
25806622 TTTGCTTTGCTTTGCTTTTTATATTGCTTTGTTGTTCTTTAC
1 TTTGTTTTGCTTTGC-TTTTATATTGCTTTGTTGTTCTTTAC
25806664 TTTGTTTTGCTTTGCTTTTATATTGCTTTGCCTTGCTT-TTTA-
1 TTTGTTTTGCTTTGCTTTTATATTGCTTTG--TTG-TTCTTTAC
25806706 TATTGTTTTGCTTTGCTTTTATATT
1 T-TTGTTTTGCTTTGCTTTTATATT
25806731 CATATTGTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
41 15 0.24
42 15 0.24
43 30 0.48
44 2 0.03
ACGTcount: A:0.08, C:0.13, G:0.14, T:0.65
Consensus pattern (41 bp):
TTTGTTTTGCTTTGCTTTTATATTGCTTTGTTGTTCTTTAC
Found at i:25806754 original size:22 final size:22
Alignment explanation
Indices: 25806627--25806755 Score: 113
Period size: 22 Copynumber: 5.8 Consensus size: 22
25806617 TTTTTTTTGC
* *
25806627 TTTGCTTTGCTTTTTATATTGC
1 TTTGCTTTGCTTTTCATATTGT
* *
25806649 TTTG-TTGTTCTTTAC-T-TTGT
1 TTTGCTT-TGCTTTTCATATTGT
*
25806669 TTTGCTTTGCTTTT-ATATTGC
1 TTTGCTTTGCTTTTCATATTGT
* *
25806690 TTTGCCTTGCTTTTTATATTGT
1 TTTGCTTTGCTTTTCATATTGT
25806712 TTTGCTTTGCTTTTATATTCATATTGT
1 TTTGCTTTGC---T-T-TTCATATTGT
25806739 TTTGCTTTGCTTTTCAT
1 TTTGCTTTGCTTTTCAT
25806756 TTTATATTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
20 13 0.15
21 21 0.24
22 29 0.34
23 1 0.01
24 1 0.01
25 1 0.01
26 1 0.01
27 19 0.22
ACGTcount: A:0.09, C:0.13, G:0.13, T:0.64
Consensus pattern (22 bp):
TTTGCTTTGCTTTTCATATTGT
Found at i:25806817 original size:15 final size:14
Alignment explanation
Indices: 25806797--25806846 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
25806787 TGTGTTGTGC
25806797 TTTGCTTTGCTTTTA
1 TTTGCTTTG-TTTTA
25806812 TTTGCTTTGTTTTA
1 TTTGCTTTGTTTTA
*
25806826 TATTGCTTTGATTTTC
1 T-TTGCTTTG-TTTTA
25806842 TTTGC
1 TTTGC
25806847 ATTTTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 6 0.19
15 21 0.66
16 5 0.16
ACGTcount: A:0.08, C:0.12, G:0.14, T:0.66
Consensus pattern (14 bp):
TTTGCTTTGTTTTA
Found at i:25806831 original size:25 final size:26
Alignment explanation
Indices: 25806803--25806859 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
25806793 GTGCTTTGCT
*
25806803 TTGCTTTTATTTGCTTTG-TTTTATA
1 TTGCTTTGATTTGCTTTGATTTTATA
*
25806828 TTGCTTTGATTTTCTTTGCATTTTATA
1 TTGCTTTGATTTGCTTTG-ATTTTATA
25806855 TTGCT
1 TTGCT
25806860 ATAGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 16 0.57
27 12 0.43
ACGTcount: A:0.12, C:0.11, G:0.12, T:0.65
Consensus pattern (26 bp):
TTGCTTTGATTTGCTTTGATTTTATA
Found at i:25806888 original size:15 final size:15
Alignment explanation
Indices: 25806796--25806891 Score: 54
Period size: 15 Copynumber: 6.3 Consensus size: 15
25806786 ATGTGTTGTG
25806796 CTTTGCTTTGCTTTTA
1 CTTTGCTTTGC-TTTA
*
25806812 -TTTGCTTTGTTTTA
1 CTTTGCTTTGCTTTA
* *
25806826 -TATTGCTTTGATTTT
1 CT-TTGCTTTGCTTTA
** *
25806841 CTTTGCATTTTATATTG
1 CTTTGC-TTTGCT-TTA
* *
25806858 CTATAG-TTTTCTTTA
1 CT-TTGCTTTGCTTTA
25806873 CTTTGCTTTGCTTTA
1 CTTTGCTTTGCTTTA
25806888 CTTT
1 CTTT
25806892 ATATTATATG
Statistics
Matches: 64, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
14 7 0.11
15 40 0.62
16 11 0.17
17 4 0.06
18 2 0.03
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.64
Consensus pattern (15 bp):
CTTTGCTTTGCTTTA
Found at i:25809837 original size:15 final size:14
Alignment explanation
Indices: 25809809--25809842 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
25809799 TCTTACCATG
*
25809809 AAAATAATATCACT
1 AAAATAATACCACT
25809823 AAAATGAATACCACT
1 AAAAT-AATACCACT
25809838 AAAAT
1 AAAAT
25809843 TTACATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (14 bp):
AAAATAATACCACT
Found at i:25811762 original size:15 final size:15
Alignment explanation
Indices: 25811742--25811782 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
25811732 TAGAACGATG
25811742 AAGCAAAGCAATATA
1 AAGCAAAGCAATATA
**
25811757 AAGCAAAATAATATA
1 AAGCAAAGCAATATA
*
25811772 AAGAAAAGCAA
1 AAGCAAAGCAA
25811783 AGCAAAGCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.12, T:0.12
Consensus pattern (15 bp):
AAGCAAAGCAATATA
Found at i:25813481 original size:5 final size:5
Alignment explanation
Indices: 25813471--25813527 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
25813461 AAGGAATATA
* *
25813471 AAAGC AAAGC AGAGC TAAAGT AAAGC AAAGC TAAA-C AATAAGC AAAGC
1 AAAGC AAAGC AAAGC -AAAGC AAAGC AAAGC -AAAGC -A-AAGC AAAGC
25813519 AAAGC AAAG
1 AAAGC AAAG
25813528 TAAAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 33 0.77
6 9 0.21
7 1 0.02
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.07
Consensus pattern (5 bp):
AAAGC
Found at i:25813490 original size:16 final size:16
Alignment explanation
Indices: 25813471--25813527 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
25813461 AAGGAATATA
*
25813471 AAAGCAAAGCAGAGCT
1 AAAGCAAAGCAAAGCT
*
25813487 AAAGTAAAGCAAAGCT
1 AAAGCAAAGCAAAGCT
25813503 AAA-CAATAAGCAAAGC-
1 AAAGC-A-AAGCAAAGCT
25813519 AAAGCAAAG
1 AAAGCAAAG
25813528 TAAAATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 3 0.09
16 22 0.63
17 10 0.29
ACGTcount: A:0.58, C:0.16, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAGCAAAGCAAAGCT
Found at i:25813564 original size:44 final size:44
Alignment explanation
Indices: 25813510--25813604 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
25813500 GCTAAACAAT
**
25813510 AAGCAAAGCAAAGCAAAGTAAAATATAAAACACAATATAAAGGA
1 AAGCAAAGCAAAGCAAAGTAAAATATAAAACACAATATAAAACA
25813554 AAGCAAAGCAAAGCAAAGTAAAATATAAAACACAATATAAAACA
1 AAGCAAAGCAAAGCAAAGTAAAATATAAAACACAATATAAAACA
25813598 AAGCAAA
1 AAGCAAA
25813605 ACAATATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.65, C:0.13, G:0.12, T:0.11
Consensus pattern (44 bp):
AAGCAAAGCAAAGCAAAGTAAAATATAAAACACAATATAAAACA
Found at i:25813686 original size:22 final size:23
Alignment explanation
Indices: 25813656--25813699 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
25813646 ATATAAAACA
* *
25813656 AAAGCCAAATCAAAGTAAAATAT
1 AAAGCCAAAGCAAAGCAAAATAT
25813679 AAAG-CAAAGCAAAGCAAAATA
1 AAAGCCAAAGCAAAGCAAAATA
25813700 AAACAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.14, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAGCCAAAGCAAAGCAAAATAT
Found at i:25813761 original size:20 final size:20
Alignment explanation
Indices: 25813736--25813926 Score: 130
Period size: 20 Copynumber: 8.9 Consensus size: 20
25813726 TATAAAACAC
25813736 AATATAAAACAAAGCAAAGG
1 AATATAAAACAAAGCAAAGG
* **
25813756 AATATAAAGCAAAGCAAACTCAT
1 AATATAAAACAAAGCAAA---GG
* * *
25813779 AAAAGCAAAACAAAGCAAAGT
1 AATA-TAAAACAAAGCAAAGG
25813800 AATATAAAGCAACAAAGCAAAGG
1 AATAT-AA--AACAAAGCAAAGG
* **
25813823 AATATAAAATAAAGCAAAAC
1 AATATAAAACAAAGCAAAGG
*
25813843 AATATAAAACAATATAAAGCAAAGC
1 AATATAAAAC-----AAAGCAAAGG
* * * *
25813868 AAAAGAATATAAAGCAAAGG
1 AATATAAAACAAAGCAAAGG
*
25813888 AATATAAAGCAAAGCAAAGG
1 AATATAAAACAAAGCAAAGG
*
25813908 AATATAAAGCAAAGCAAAG
1 AATATAAAACAAAGCAAAG
25813927 CAAAGCAAAG
Statistics
Matches: 134, Mismatches: 25, Indels: 24
0.73 0.14 0.13
Matches are distributed among these distances:
20 79 0.59
21 6 0.04
22 2 0.01
23 20 0.15
24 12 0.09
25 15 0.11
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.12
Consensus pattern (20 bp):
AATATAAAACAAAGCAAAGG
Found at i:25813785 original size:19 final size:19
Alignment explanation
Indices: 25813739--25813792 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
25813729 AAAACACAAT
*
25813739 ATAAAA-CAAAGCAAAGGA
1 ATAAAAGCAAAGCAAACGA
**
25813757 ATATAAAGCAAAGCAAACTC
1 ATA-AAAGCAAAGCAAACGA
*
25813777 ATAAAAGCAAAACAAA
1 ATAAAAGCAAAGCAAA
25813793 GCAAAGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 3 0.10
19 15 0.50
20 12 0.40
ACGTcount: A:0.65, C:0.15, G:0.11, T:0.09
Consensus pattern (19 bp):
ATAAAAGCAAAGCAAACGA
Found at i:25813797 original size:24 final size:23
Alignment explanation
Indices: 25813743--25813830 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
25813733 CACAATATAA
**
25813743 AACAAAGCAAAGGAATATAAAG-
1 AACAAAGCAAACTAATATAAAGC
*
25813765 --CAAAGCAAACTCATA-AAAGC
1 AACAAAGCAAACTAATATAAAGC
*
25813785 AAAACAAAGCAAAGTAATATAAAGC
1 --AACAAAGCAAACTAATATAAAGC
**
25813810 AACAAAGCAAAGGAATATAAA
1 AACAAAGCAAACTAATATAAA
25813831 ATAAAGCAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
19 4 0.07
20 12 0.22
23 20 0.37
24 13 0.24
25 5 0.09
ACGTcount: A:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (23 bp):
AACAAAGCAAACTAATATAAAGC
Found at i:25813821 original size:28 final size:26
Alignment explanation
Indices: 25813761--25813964 Score: 88
Period size: 25 Copynumber: 7.6 Consensus size: 26
25813751 AAAGGAATAT
*
25813761 AAAGCAAAGCAAACTCATA-AAAGC-A
1 AAAGCAAAGCAAA-TAATATAAAGCAA
25813786 AAA-CAAAGCAAAGTAATATAAAGCAA
1 AAAGCAAAGCAAA-TAATATAAAGCAA
* *
25813812 CAAAGCAAAGGAATATAAAATAAAGC-A
1 -AAAGCAAAGCAA-ATAATATAAAGCAA
** *
25813839 AAA-CAATATAAAACAATATAAAGC--
1 AAAGCAA-AGCAAATAATATAAAGCAA
* *
25813863 AAAGCAAAAG-AATATAA-AGCAAAGGAATA
1 AAAGC-AAAGCAA-ATAATA-TAAA-GCA-A
*
25813892 TAAAGCAAAGCAAAGGAATATAAAGCAAA
1 -AAAGCAAAGCAAA-TAATATAAAGC-AA
*
25813921 GCAAAGCAAAGCAAAGTTATATAAAGC--
1 --AAAGCAAAGCAAA-TAATATAAAGCAA
25813948 AAAGCAAAGCAATATAA
1 AAAGCAAAGCAA-ATAA
25813965 AGCATTATAA
Statistics
Matches: 139, Mismatches: 19, Indels: 42
0.69 0.09 0.21
Matches are distributed among these distances:
24 19 0.14
25 43 0.31
26 11 0.08
27 4 0.03
28 17 0.12
29 8 0.06
30 36 0.26
31 1 0.01
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.12
Consensus pattern (26 bp):
AAAGCAAAGCAAATAATATAAAGCAA
Found at i:25813849 original size:15 final size:15
Alignment explanation
Indices: 25813831--25813900 Score: 70
Period size: 15 Copynumber: 4.7 Consensus size: 15
25813821 GGAATATAAA
*
25813831 ATAAAGCAAAACAAT
1 ATAAAGCAAAAGAAT
* * *
25813846 ATAAAACAATATAA-
1 ATAAAGCAAAAGAAT
*
25813860 AGCAAAGCAAAAGAAT
1 A-TAAAGCAAAAGAAT
*
25813876 ATAAAGCAAAGGAAT
1 ATAAAGCAAAAGAAT
25813891 ATAAAGCAAA
1 ATAAAGCAAA
25813901 GCAAAGGAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
14 1 0.02
15 42 0.95
16 1 0.02
ACGTcount: A:0.66, C:0.10, G:0.11, T:0.13
Consensus pattern (15 bp):
ATAAAGCAAAAGAAT
Found at i:25813899 original size:35 final size:35
Alignment explanation
Indices: 25813813--25813921 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 35
25813803 ATAAAGCAAC
** *
25813813 AAAGCAAAGGAATATAAAATAAAGCAAAACAATAT
1 AAAGCAAAGGAATATAAAGCAAAGCAAAAGAATAT
*
25813848 --A--AAA-CAATATAAAGCAAAGCAAAAGAATAT
1 AAAGCAAAGGAATATAAAGCAAAGCAAAAGAATAT
*
25813878 AAAGCAAAGGAATATAAAGCAAAGCAAAGGAATAT
1 AAAGCAAAGGAATATAAAGCAAAGCAAAAGAATAT
25813913 AAAGCAAAG
1 AAAGCAAAG
25813922 CAAAGCAAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
30 22 0.35
31 3 0.05
32 1 0.02
33 1 0.02
34 3 0.05
35 33 0.52
ACGTcount: A:0.64, C:0.09, G:0.15, T:0.12
Consensus pattern (35 bp):
AAAGCAAAGGAATATAAAGCAAAGCAAAAGAATAT
Found at i:25813901 original size:5 final size:5
Alignment explanation
Indices: 25813893--25813990 Score: 60
Period size: 5 Copynumber: 19.6 Consensus size: 5
25813883 AAAGGAATAT
* * * * *
25813893 AAAGC AAAGC AAAGG AATA-T AAAGC AAAGC AAAGC AAAGC AAAGTT ATA-T
1 AAAGC AAAGC AAAGC AA-AGC AAAGC AAAGC AAAGC AAAGC AAAG-C AAAGC
* * *
25813943 AAAGC AAAGC AAAGC AATA-T AAAGC ATTA-T AAAGC AAAGC AAAGC AAA
1 AAAGC AAAGC AAAGC AA-AGC AAAGC A-AAGC AAAGC AAAGC AAAGC AAA
25813991 ATAAAATAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
4 6 0.08
5 61 0.85
6 5 0.07
ACGTcount: A:0.59, C:0.13, G:0.16, T:0.11
Consensus pattern (5 bp):
AAAGC
Found at i:25813901 original size:15 final size:15
Alignment explanation
Indices: 25813863--25813951 Score: 72
Period size: 15 Copynumber: 5.6 Consensus size: 15
25813853 AATATAAAGC
*
25813863 AAAGCAAAAGAATAT
1 AAAGCAAAGGAATAT
25813878 AAAGCAAAGGAATAT
1 AAAGCAAAGGAATAT
25813893 AAAGCAAAGCAAAGGAATAT
1 -----AAAGCAAAGGAATAT
* *
25813913 AAAGCAAAGCAA-AGC
1 AAAGCAAAGGAATA-T
**
25813928 AAAGCAAAGTTATAT
1 AAAGCAAAGGAATAT
25813943 AAAGCAAAG
1 AAAGCAAAG
25813952 CAAAGCAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 44 0.72
16 1 0.02
20 15 0.25
ACGTcount: A:0.61, C:0.10, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAGCAAAGGAATAT
Found at i:25813977 original size:50 final size:50
Alignment explanation
Indices: 25813805--25813995 Score: 125
Period size: 50 Copynumber: 4.0 Consensus size: 50
25813795 AAAGTAATAT
** * *
25813805 AAAGC-AA-CAAAGCAAAGGAATATAAAATAAAGCAAAACAATATAAAAC
1 AAAGCAAAGCAAAGCAAAGGAATATAAAGCAAAGCAAAGCAATATAAAGC
* *
25813853 AATA-TAAAGCAAAGCAAAAGAATATAAAGCAAAG----G-AATATAAAGC
1 AA-AGCAAAGCAAAGCAAAGGAATATAAAGCAAAGCAAAGCAATATAAAGC
* * * * **
25813898 AAAGCAAAGGAATA-TAAAGCAA-AGCAAAGCAAAGCAAAGTTATATAAAGC
1 AAAGCAAAGCAA-AGCAAAGGAATA-TAAAGCAAAGCAAAGCAATATAAAGC
* * * *
25813948 AAAGCAAAGCAATA-TAAAGCATTATAAAGCAAAGCAAAGCAAAATAAA
1 AAAGCAAAGCAA-AGCAAAGGAATATAAAGCAAAGCAAAGCAATATAAA
25813996 ATAATAATTT
Statistics
Matches: 112, Mismatches: 19, Indels: 22
0.73 0.12 0.14
Matches are distributed among these distances:
44 2 0.02
45 31 0.28
46 1 0.01
48 2 0.02
49 4 0.04
50 71 0.63
51 1 0.01
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.12
Consensus pattern (50 bp):
AAAGCAAAGCAAAGCAAAGGAATATAAAGCAAAGCAAAGCAATATAAAGC
Found at i:25813994 original size:20 final size:20
Alignment explanation
Indices: 25813677--25813995 Score: 90
Period size: 20 Copynumber: 15.2 Consensus size: 20
25813667 AAAGTAAAAT
25813677 ATAAAGCAAAGCAAAGCAAA
1 ATAAAGCAAAGCAAAGCAAA
* *
25813697 ATAAAACAATA-TAAAGCAAA
1 ATAAAGCAA-AGCAAAGCAAA
** * * *
25813717 GCAAAGTAATA-TAAAACACAA
1 ATAAAGCAA-AGCAAAGCA-AA
* * *
25813738 TATAAAACAAAGCAAAGGAAT
1 -ATAAAGCAAAGCAAAGCAAA
*
25813759 ATAAAGCAAAGCAAACTCATAAA
1 ATAAAGCAAAGCAAA-GC--AAA
* * * *
25813782 AGCAAAACAAAGCAAAGTAAT
1 A-TAAAGCAAAGCAAAGCAAA
* *
25813803 ATAAAGCAACAAAGCAAAGGAAT
1 ATAAAG---CAAAGCAAAGCAAA
** * *
25813826 ATAAAATAAAGCAAAACAAT
1 ATAAAGCAAAGCAAAGCAAA
*
25813846 ATAAAACAATATAAAGCAAAGCAAA
1 ATAAAGC-----AAAGCAAAGCAAA
* * * *
25813871 AGAATA-TAAAGCAAAGGAAT
1 ATAA-AGCAAAGCAAAGCAAA
* *
25813891 ATAAAGCAAAGCAAAGGAAT
1 ATAAAGCAAAGCAAAGCAAA
25813911 ATAAAGCAAAGCAAAGCAAA
1 ATAAAGCAAAGCAAAGCAAA
** * * *
25813931 GCAAAGTTATA-TAAAGCAAA
1 ATAAAG-CAAAGCAAAGCAAA
** * **
25813951 GCAAAGCAATA-TAAAGCATT
1 ATAAAGCAA-AGCAAAGCAAA
25813971 ATAAAGCAAAGCAAAGCAAA
1 ATAAAGCAAAGCAAAGCAAA
25813991 ATAAA
1 ATAAA
25813996 ATAATAATTT
Statistics
Matches: 222, Mismatches: 56, Indels: 42
0.69 0.17 0.13
Matches are distributed among these distances:
19 3 0.01
20 152 0.68
21 10 0.05
22 9 0.04
23 21 0.09
24 12 0.05
25 14 0.06
26 1 0.00
ACGTcount: A:0.63, C:0.12, G:0.13, T:0.12
Consensus pattern (20 bp):
ATAAAGCAAAGCAAAGCAAA
Found at i:25815110 original size:27 final size:27
Alignment explanation
Indices: 25815077--25815132 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
25815067 AAAAATAATT
*
25815077 ATTAAAAATAATAA-TATATATAATTAA
1 ATTAAAAATAATAATTAAATA-AATTAA
*
25815104 ATTAAAAATAGTAATTAAATAAATTAA
1 ATTAAAAATAATAATTAAATAAATTAA
25815131 AT
1 AT
25815133 CCACCTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTAAAAATAATAATTAAATAAATTAA
Found at i:25815399 original size:21 final size:22
Alignment explanation
Indices: 25815370--25815413 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
25815360 TATATAAAGG
*
25815370 AAAGGAAAGAAAAGT-AAATAA
1 AAAGCAAAGAAAAGTAAAATAA
*
25815391 AAAGCAAAGCAAAGTAAAATAA
1 AAAGCAAAGAAAAGTAAAATAA
25815413 A
1 A
25815414 GGAATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.70, C:0.05, G:0.16, T:0.09
Consensus pattern (22 bp):
AAAGCAAAGAAAAGTAAAATAA
Found at i:25815458 original size:45 final size:45
Alignment explanation
Indices: 25815395--25815482 Score: 104
Period size: 45 Copynumber: 2.0 Consensus size: 45
25815385 AAATAAAAAG
* * *
25815395 CAAAGCAAAGTAAAATAAAGGAATATAAAACAATATAAAGCAGAC
1 CAAAGAAAAATAAAATAAAGGAAAATAAAACAATATAAAGCAGAC
* * ** *
25815440 CAAAGAAAAATAATATAAAGTAAAATAAAGTAATATAATGCAG
1 CAAAGAAAAATAAAATAAAGGAAAATAAAACAATATAAAGCAG
25815483 GACCTGTGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.17
Consensus pattern (45 bp):
CAAAGAAAAATAAAATAAAGGAAAATAAAACAATATAAAGCAGAC
Found at i:25816679 original size:28 final size:28
Alignment explanation
Indices: 25816648--25816708 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
25816638 AAAATGAGAC
25816648 TTTGGA-TGCCCGAGGGCAAAACGATAAT
1 TTTGGACT-CCCGAGGGCAAAACGATAAT
* * * *
25816676 TTTGGACTCTCGGGGGCAAAATGGTAAT
1 TTTGGACTCCCGAGGGCAAAACGATAAT
25816704 TTTGG
1 TTTGG
25816709 GAAAATCTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TTTGGACTCCCGAGGGCAAAACGATAAT
Found at i:25816865 original size:57 final size:56
Alignment explanation
Indices: 25816804--25816997 Score: 192
Period size: 57 Copynumber: 3.4 Consensus size: 56
25816794 TAGACATCTG
** * * *
25816804 GGGGTAAAATGGTAATTTAAGGAGTTTTGGGGTAAAAATGGAATTTTTGGAAGTACA
1 GGGGTAAAAT-GTAATTTTTGGAGTTTTGGGGTCAAAATGTAATTTTTGAAAGTACA
* ** *
25816861 GGGGTAAAAATGTAATTTTTGAAAG-TTCAGGGTCAAAATGTAATTTTTGAAAGTTTCA
1 GGGGT-AAAATGTAATTTTTG-GAGTTTTGGGGTCAAAATGTAATTTTTGAAAG-TACA
* * ***
25816919 GGGGAAAAATGTAATTTTTGGAAGTTTTGAGGTCAAAATGTAATTTTTGAAAGTTTG
1 GGGGTAAAATGTAATTTTTGG-AGTTTTGGGGTCAAAATGTAATTTTTGAAAGTACA
* *
25816976 GGGGTCAAATATAATTTTTGGA
1 GGGGTAAAATGTAATTTTTGGA
25816998 CCGTTTAGGG
Statistics
Matches: 113, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
56 1 0.01
57 73 0.65
58 39 0.35
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (56 bp):
GGGGTAAAATGTAATTTTTGGAGTTTTGGGGTCAAAATGTAATTTTTGAAAGTACA
Found at i:25816869 original size:28 final size:29
Alignment explanation
Indices: 25816832--25816995 Score: 181
Period size: 29 Copynumber: 5.7 Consensus size: 29
25816822 AAGGAGTTTT
* * *
25816832 GGGGTAAAAATGGAATTTTTGGAAGTACA
1 GGGGTAAAAATGTAATTTTTGAAAGTTCA
25816861 GGGGTAAAAATGTAATTTTTGAAAGTTCA
1 GGGGTAAAAATGTAATTTTTGAAAGTTCA
*
25816890 -GGGTCAAAATGTAATTTTTGAAAGTTTCA
1 GGGGTAAAAATGTAATTTTTGAAAG-TTCA
* **
25816919 GGGG-AAAAATGTAATTTTTGGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTCA
* * **
25816947 GAGGTCAAAATGTAATTTTTGAAAGTTTG
1 GGGGTAAAAATGTAATTTTTGAAAGTTCA
* *
25816976 GGGGT-CAAATATAATTTTTG
1 GGGGTAAAAATGTAATTTTTG
25816996 GACCGTTTAG
Statistics
Matches: 117, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
28 41 0.35
29 73 0.62
30 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTCA
Found at i:25816916 original size:86 final size:86
Alignment explanation
Indices: 25816832--25816995 Score: 222
Period size: 86 Copynumber: 1.9 Consensus size: 86
25816822 AAGGAGTTTT
*
25816832 GGGGTAAAAATGGAATTTTTGGAAGTACAGGGGTAAAAATGTAATTTTTGAAAG-TTCAGGGTCA
1 GGGG-AAAAATGGAATTTTTGGAAGTACAGAGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTC-
*
25816896 AAATGTAATTTTTGAAAGTTTCA
64 AAATATAATTTTTGAAAGTTTCA
* *** * **
25816919 GGGGAAAAATGTAATTTTTGGAAGTTTTGAGGTCAAAATGTAATTTTTGAAAGTTTGGGGGTCAA
1 GGGGAAAAATGGAATTTTTGGAAGTACAGAGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTCAA
25816984 ATATAATTTTTG
66 ATATAATTTTTG
25816996 GACCGTTTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
86 56 0.84
87 11 0.16
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.36
Consensus pattern (86 bp):
GGGGAAAAATGGAATTTTTGGAAGTACAGAGGTAAAAATGTAATTTTTGAAAGTTTCAGGGTCAA
ATATAATTTTTGAAAGTTTCA
Found at i:25819002 original size:6 final size:6
Alignment explanation
Indices: 25818983--25819085 Score: 58
Period size: 6 Copynumber: 18.0 Consensus size: 6
25818973 AATATTAAGT
* *
25818983 TTTAAA -TT-AA TTTAAA TTT-AA -TTAGA TTTAAA TTTCAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * ** **
25819027 -GCAAA TTTAAT TTTAAAAA GATAAA TTTAAA TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTT--AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
25819076 -TT-AA TTTAAA
1 TTTAAA TTTAAA
25819086 CCTAACTTTA
Statistics
Matches: 70, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
4 6 0.09
5 14 0.20
6 47 0.67
8 3 0.04
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:25819034 original size:39 final size:38
Alignment explanation
Indices: 25818991--25819081 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 38
25818981 GTTTTAAATT
* *
25818991 AATTTAAATTTAATTAGATTTAAATTTCAATTT-AAAGCA
1 AATTTAAATTTAATTAGA--TAAATTTAAATTTAAAAACA
* ** *
25819030 AATTTAATTTTAAAAAGATAAATTTAAATTTAAAAATA
1 AATTTAAATTTAATTAGATAAATTTAAATTTAAAAACA
25819068 AATTTAAA-TTAATT
1 AATTTAAATTTAATT
25819082 TAAACCTAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
37 16 0.38
38 11 0.26
39 15 0.36
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (38 bp):
AATTTAAATTTAATTAGATAAATTTAAATTTAAAAACA
Found at i:25819070 original size:18 final size:18
Alignment explanation
Indices: 25819011--25819077 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
25819001 TAATTAGATT
* *
25819011 TAAATTTCAATTT-AAAG
1 TAAATTTAAATTTAAAAA
* *
25819028 CAAATTTAATTTTAAAAAGA
1 TAAATTTAAATTT-AAAA-A
25819048 TAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAAAA
25819066 TAAATTTAAATT
1 TAAATTTAAATT
25819078 AATTTAAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
17 10 0.24
18 13 0.32
19 7 0.17
20 11 0.27
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:25819542 original size:92 final size:92
Alignment explanation
Indices: 25819364--25820081 Score: 1096
Period size: 92 Copynumber: 7.8 Consensus size: 92
25819354 GATGTCGAGG
*
25819364 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATGAAGACTTGCTATATCCAACTTTACTACAAC
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAAC
* * *
25819429 TACATGAGGATAGGAATTGGTGTTTGAAA
64 TTCAAGAGGATAGGAATTGATGTTTGAAA
* *
25819458 CTACATCTTGCTCTTACTACAACTTCAGAGAGATAAATACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* * *
25819523 CATGGGGATAGGAATTGGTGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
*** * * *
25819550 GAACATCTTACTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
*
25819615 TAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * * *
25819642 CTCCATCTTGCTCTTACTACAACTTCAGAGAGGTAAAGACTTGCTATCCAACTTCACTATAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
25819707 CAAGAGGATAGGAATTGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * *
25819734 CTTCATCATGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
*
25819799 CAAGAGGATCGGAA-TGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
* *
25819825 CTTCATCTTTCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* *
25819890 TAAGAGGATAGGAAATGATGTTTGAAA
66 CAAGAGGATAGGAATTGATGTTTGAAA
*
25819917 CTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
* * *
25819982 CAAGAGGATAGGAATTAACGTTTGAAG
66 CAAGAGGATAGGAATTGATGTTTGAAA
* * *
25820009 CTTCATCTTACTCTTACTGCAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTACAACTT
1 CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
25820074 CAAGAGGA
66 CAAGAGGA
25820082 CTTGTTATCC
Statistics
Matches: 573, Mismatches: 50, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
91 86 0.15
92 446 0.78
94 41 0.07
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (92 bp):
CTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTT
CAAGAGGATAGGAATTGATGTTTGAAA
Found at i:25819918 original size:275 final size:276
Alignment explanation
Indices: 25819367--25820081 Score: 1135
Period size: 275 Copynumber: 2.6 Consensus size: 276
25819357 GTCGAGGCTT
* *
25819367 CATCTTGCTCTTACTACAACTTCAGAGAGATGAAGACTTGCTATATCCAACTTTACTACAACTAC
1 CATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--TATCCAACTTTACTACAACTTC
* * * *
25819432 ATGAGGATAGGAATTGGTGTTTGAAACTACATCTTGCTCTTACTACAACTTCAGAGAGATAAATA
64 AAGAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGA
* * * *
25819497 CTTGCTATCCAACTTTACTACAACTTCATGGGGATAGGAATTGGTGTTTGAAAGAACATCTTACT
129 CTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACAACATCTTACT
*
25819562 CTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTACAACTTTAAGAGGATAGG
194 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAGG
*
25819627 AATTGATGTTTGAAACTC
259 AAATGATGTTTGAAACTC
* * *
25819645 CATCTTGCTCTTACTACAACTTCAGAGAGGTAAAGACTTGCTATCCAACTTCACTATAACTTCAA
1 CATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAA
* *
25819710 GAGGATAGGAATTGATGTTTGAAACTTCATCATGCTCTTACTACAACTTTAGAGAGATAAAGACT
66 GAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
* * ** *
25819775 TGCTATCCATCTTTACTACAACTTCAAGAGGATCGGAA-TGATGTTTGAAACTTCATCTTTCTCT
131 TGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACAACATCTTACTCT
25819839 TACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAGGAA
196 TACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAGGAA
*
25819904 ATGATGTTTGAAACTT
261 ATGATGTTTGAAACTC
*
25819920 CATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAA
1 CATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAA
* * * * *
25819985 GAGGATAGGAATTAACGTTTGAAGCTTCATCTTACTCTTACTGCAACTTCAGAGAGATAAAGACT
66 GAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
*
25820050 TGTTATCCAACTTTACTACAACTTCAAGAGGA
131 TGCTATCCAACTTTACTACAACTTCAAGAGGA
25820082 CTTGTTATCC
Statistics
Matches: 401, Mismatches: 36, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
275 248 0.62
276 114 0.28
278 39 0.10
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32
Consensus pattern (276 bp):
CATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAA
GAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACT
TGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACAACATCTTACTCT
TACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAGGAA
ATGATGTTTGAAACTC
Found at i:25820089 original size:34 final size:34
Alignment explanation
Indices: 25820046--25820115 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
25820036 GAGAGATAAA
25820046 GACTTGTTATCCAACTTTACTACAACTTCAAGAG
1 GACTTGTTATCCAACTTTACTACAACTTCAAGAG
25820080 GACTTGTTATCCAACTTTACTACAACTTCAAGAG
1 GACTTGTTATCCAACTTTACTACAACTTCAAGAG
25820114 GA
1 GA
25820116 TAGGAAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (34 bp):
GACTTGTTATCCAACTTTACTACAACTTCAAGAG
Found at i:25820106 original size:126 final size:126
Alignment explanation
Indices: 25819954--25820207 Score: 427
Period size: 126 Copynumber: 2.0 Consensus size: 126
25819944 GAGAGATAAA
* * *
25819954 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTAACGTTTGAAGCTTCATCTTA
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATAACGTTTGAAACTTCATCCTA
* *
25820019 CTCTTACTGCAACTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTACAACTTCAAGAG
66 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
* * * *
25820080 GACTTGTTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATAACGTTTGAAACTTCATCCTA
25820145 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
66 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
25820206 GA
1 GA
25820208 TAGGAATTGA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (126 bp):
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATAACGTTTGAAACTTCATCCTA
CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
Found at i:25820125 original size:218 final size:218
Alignment explanation
Indices: 25819862--25820299 Score: 777
Period size: 218 Copynumber: 2.0 Consensus size: 218
25819852 GAGAGATAAA
* * *
25819862 GACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAGGAAATGATGTTTGAAACTTCATCTTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
*
25819927 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
66 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
* * *
25819992 GGAATTAACGTTTGAAGCTTCATCTTACTCTTACTGCAACTTCAGAGAGATAAAGACTTGTTATC
131 GGAATTAACGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATC
25820057 CAACTTTACTACAACTTCAAGAG
196 CAACTTTACTACAACTTCAAGAG
*
25820080 GACTTGTTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
25820145 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
66 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
* * *
25820210 GGAATTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGGGAAAAAGACTTGCTATC
131 GGAATTAACGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATC
25820275 CAACTTTACTACAACTTCAAGAG
196 CAACTTTACTACAACTTCAAGAG
25820298 GA
1 GA
25820300 TAGGAATTGA
Statistics
Matches: 209, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 209 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (218 bp):
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
GGAATTAACGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATC
CAACTTTACTACAACTTCAAGAG
Found at i:25820213 original size:92 final size:92
Alignment explanation
Indices: 25820080--25820453 Score: 667
Period size: 92 Copynumber: 4.1 Consensus size: 92
25820070 ACTTCAAGAG
* * *
25820080 GACTTGTTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
25820145 CTCTTACTACAACTTCAGAGAGATAAA
66 CTCTTACTACAACTTCAGAGAGATAAA
* *
25820172 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTA
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
* *
25820237 CTCTTACTACAACTTCAGAGGGAAAAA
66 CTCTTACTACAACTTCAGAGAGATAAA
*
25820264 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATCTTTGAAACTTCATCTTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
*
25820329 CTCTTACTACAACTTCAAAGAGATAAA
66 CTCTTACTACAACTTCAGAGAGATAAA
25820356 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
25820421 CTCTTACTACAACTTCAGAGAGATAAA
66 CTCTTACTACAACTTCAGAGAGATAAA
25820448 GACTTG
1 GACTTG
25820454 TTATTTTGAT
Statistics
Matches: 267, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 267 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (92 bp):
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTG
CTCTTACTACAACTTCAGAGAGATAAA
Found at i:25820373 original size:310 final size:309
Alignment explanation
Indices: 25819771--25820391 Score: 1046
Period size: 310 Copynumber: 2.0 Consensus size: 309
25819761 GAGAGATAAA
* * * *
25819771 GACTTGCTATCCATCTTTACTACAACTTCAAGAGGATCGGAATGATGTTTGAAACTTCATCTTTC
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATGATGTTTGAAACTTCATCCTGC
* *
25819836 TCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCATCTTTACTACAACTTTAAGAGGATAG
66 TCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAG
* * *
25819901 GAAATGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCC
131 GAAATGATGTTTGAAACTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATCC
* *
25819966 AACTTTACTACAACTTCAAGAGGATAGGAATTAACGTTTGAAGCTTCATCTTACTCTTACTGCAA
196 AACTTTACTACAACTTCAAGAGGATAGGAATTAACGTTTGAAACTTCATCTTACTCTTACTACAA
* *
25820031 CTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTACAACTTCAAGAG
261 CTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
*
25820080 GACTTGTTATCCAACTTTACTACAACTTCAAGAGGATAGGAAATGATGTTTGAAACTTCATCCTG
1 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGG-AATGATGTTTGAAACTTCATCCTG
25820145 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
65 CTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
* * *
25820210 GGAATTGATGTTTGAAGCTTCATCTTACTCTTACTACAACTTCAGAGGGAAAAAGACTTGCTATC
130 GGAAATGATGTTTGAAACTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATC
* *
25820275 CAACTTTACTACAACTTCAAGAGGATAGGAATTGATC-TTTGAAACTTCATCTTGCTCTTACTAC
195 CAACTTTACTACAACTTCAAGAGGATAGGAATT-AACGTTTGAAACTTCATCTTACTCTTACTAC
25820339 AACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
259 AACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
25820390 GA
1 GA
25820392 TAGGAATTGA
Statistics
Matches: 291, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
309 37 0.13
310 252 0.87
311 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (309 bp):
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATGATGTTTGAAACTTCATCCTGC
TCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAG
GAAATGATGTTTGAAACTTCATCTTACTCTTACTACAACTTCAGAGAGAAAAAGACTTGCTATCC
AACTTTACTACAACTTCAAGAGGATAGGAATTAACGTTTGAAACTTCATCTTACTCTTACTACAA
CTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAG
Found at i:25826491 original size:61 final size:61
Alignment explanation
Indices: 25826415--25826537 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
25826405 CCGTGATTGG
* *
25826415 CTCATTTATCTGTCCTGGCTTGTCAGTCTCTTTTTCTTCTAGATCAATTGTTAAGGCCTTT
1 CTCATTTATCGGTCCTGGCTTGTCAGTCTCTTTTTCTTCTAGATCAATTGCTAAGGCCTTT
* *
25826476 CTCATTTATCGGTCCTGGCTTGTCAGTCTCTTTTTCTTCTGGCTCAATTGCTAAGGCCTTT
1 CTCATTTATCGGTCCTGGCTTGTCAGTCTCTTTTTCTTCTAGATCAATTGCTAAGGCCTTT
25826537 C
1 C
25826538 CTTTTATAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (61 bp):
CTCATTTATCGGTCCTGGCTTGTCAGTCTCTTTTTCTTCTAGATCAATTGCTAAGGCCTTT
Found at i:25827461 original size:29 final size:29
Alignment explanation
Indices: 25827429--25827665 Score: 216
Period size: 29 Copynumber: 8.1 Consensus size: 29
25827419 AGAGTTTTGA
25827429 GGTTAAAAATGGT-ATTTTTGGAAGTTTAG
1 GGTTAAAAAT-GTAATTTTTGGAAGTTTAG
* *
25827458 GGTTAAAATTAG-AATTTTTAGAAGTTT-G
1 GGTTAAAAAT-GTAATTTTTGGAAGTTTAG
* *
25827486 GCATTAAAAATGGAATTTTTGGAAGTTTCGAG
1 G-GTTAAAAATGTAATTTTTGGAAGTTT--AG
* * *
25827518 GG-CAAAAATATAATTTTTGGAAGTTTCG
1 GGTTAAAAATGTAATTTTTGGAAGTTTAG
25827546 AGGTT-AAAATGTAATTTTTGGAAGTTTAG
1 -GGTTAAAAATGTAATTTTTGGAAGTTTAG
* * *
25827575 GGGTAAAAATGTAATTTTTAGAAGTTTCG
1 GGTTAAAAATGTAATTTTTGGAAGTTTAG
* * *
25827604 AGGTCAAAAATATAATTTTTGAAAGTTTAG
1 -GGTTAAAAATGTAATTTTTGGAAGTTTAG
* *
25827634 GAG-TCAAAATATAATTTTTGGATAGTTTAG
1 G-GTTAAAAATGTAATTTTTGGA-AGTTTAG
25827664 GG
1 GG
25827666 ACCTTTAGGG
Statistics
Matches: 170, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
28 7 0.04
29 108 0.64
30 53 0.31
32 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
GGTTAAAAATGTAATTTTTGGAAGTTTAG
Found at i:25827534 original size:88 final size:87
Alignment explanation
Indices: 25827442--25827664 Score: 288
Period size: 88 Copynumber: 2.5 Consensus size: 87
25827432 TAAAAATGGT
* *
25827442 ATTTTTGGAAGTTTAGGGTTAAAATTAGAATTTTTAGAAGTTT-GGCATTAAAAATGGAATTTTT
1 ATTTTTGGAAGTTTAGGGTTAAAA-TAGAATTTTTGGAAGTTTAGG-AGTAAAAATGGAATTTTT
*
25827506 GGAAGTTTCGAGGGCAAAAATATA
64 AGAAGTTTCGAGGGCAAAAATATA
* * *
25827530 ATTTTTGGAAGTTTCGAGGTTAAAAT-GTAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTT
1 ATTTTTGGAAGTTTAG-GGTTAAAATAG-AATTTTTGGAAGTTTAGGAGTAAAAATGGAATTTTT
*
25827594 AGAAGTTTCGAGGTCAAAAATATA
64 AGAAGTTTCGAGGGCAAAAATATA
* * *
25827618 ATTTTTGAAAGTTTAGGAGTCAAAATATAATTTTTGGATAGTTTAGG
1 ATTTTTGGAAGTTTAGG-GTTAAAATAGAATTTTTGGA-AGTTTAGG
25827665 GACCTTTAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
87 2 0.02
88 98 0.83
89 18 0.15
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.39
Consensus pattern (87 bp):
ATTTTTGGAAGTTTAGGGTTAAAATAGAATTTTTGGAAGTTTAGGAGTAAAAATGGAATTTTTAG
AAGTTTCGAGGGCAAAAATATA
Found at i:25827556 original size:59 final size:59
Alignment explanation
Indices: 25827411--25827661 Score: 264
Period size: 59 Copynumber: 4.3 Consensus size: 59
25827401 GGTAAAATGG
* * * * *
25827411 TAATTTTAAG-AGTTTTGAGGTTAAAAATGGTATTTTTGGAAGTTTAGGGTTAAAATTA
1 TAATTTTTAGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGTCAAAAATA
* *
25827469 GAATTTTTAGAAGTTT-G-GCATTAAAAATGGAATTTTTGGAAGTTTCGAGGG-CAAAAATA
1 TAATTTTTAGAAGTTTCGAG-GTTAAAAATGGAATTTTTGGAAGTTT--AGGGTCAAAAATA
* * *
25827528 TAATTTTTGGAAGTTTCGAGGTT-AAAATGTAATTTTTGGAAGTTTAGGGGT-AAAAATG
1 TAATTTTTAGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTA-GGGTCAAAAATA
* ** *
25827586 TAATTTTTAGAAGTTTCGAGGTCAAAAATATAATTTTTGAAAGTTTAGGAGTC-AAAATA
1 TAATTTTTAGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGG-GTCAAAAATA
*
25827645 TAATTTTTGGATAGTTT
1 TAATTTTTAGA-AGTTT
25827662 AGGGACCTTT
Statistics
Matches: 164, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
57 2 0.01
58 65 0.40
59 84 0.51
60 12 0.07
61 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (59 bp):
TAATTTTTAGAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTTAGGGTCAAAAATA
Found at i:25829667 original size:6 final size:6
Alignment explanation
Indices: 25829633--25829784 Score: 86
Period size: 6 Copynumber: 26.0 Consensus size: 6
25829623 AATATTAAGT
* *
25829633 TTTAAA -TT-AA TTCAAA TTT-AA -TTAGA TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** ** **
25829677 -GCAAA TTTAAA TTTAAAAA AATAAA TTTAAA TTTAAAAA GATAAA TTTAAA
1 TTTAAA TTTAAA TTT--AAA TTTAAA TTTAAA TTT--AAA TTTAAA TTTAAA
** **
25829728 TTTAAA -AGAAA TTTAAA TTTAAA AATAAA TTTAAA -TT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
25829773 CTTAAC TTTAAA
1 TTTAAA TTTAAA
25829785 ATCAAAGCTT
Statistics
Matches: 106, Mismatches: 28, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
4 6 0.06
5 16 0.15
6 76 0.72
8 8 0.08
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (6 bp):
TTTAAA
Found at i:25829751 original size:37 final size:37
Alignment explanation
Indices: 25829662--25829764 Score: 133
Period size: 37 Copynumber: 2.8 Consensus size: 37
25829652 AATTAGATTT
* *
25829662 AAATTTAAATTT-AAAG-CAAATTTAAATTTAAAAAAAT
1 AAATTTAAATTTAAAAGATAAATTTAAATTT--AAAAAG
25829699 AAATTTAAATTTAAAAAGATAAATTTAAATTT-AAAAG
1 AAATTTAAATTT-AAAAGATAAATTTAAATTTAAAAAG
25829736 AAATTTAAATTTAAAA-ATAAATTTAAATT
1 AAATTTAAATTTAAAAGATAAATTTAAATT
25829765 AATTTAAACT
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
35 13 0.21
36 4 0.07
37 28 0.46
39 4 0.07
40 12 0.20
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (37 bp):
AAATTTAAATTTAAAAGATAAATTTAAATTTAAAAAG
Found at i:25829766 original size:17 final size:18
Alignment explanation
Indices: 25829661--25829764 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 18
25829651 TAATTAGATT
*
25829661 TAAATTTAAATTT-AAAG
1 TAAATTTAAATTTAAAAA
*
25829678 CAAATTTAAATTTAAAAAAA
1 TAAATTTAAATTT--AAAAA
25829698 TAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTT-AAAA-A
25829718 TAAATTTAAATTT-AAAA
1 TAAATTTAAATTTAAAAA
*
25829735 GAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAAAA
25829753 TAAATTTAAATT
1 TAAATTTAAATT
25829765 AATTTAAACT
Statistics
Matches: 77, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
17 25 0.32
18 18 0.23
19 5 0.06
20 29 0.38
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAATTTAAATTTAAAAA
Found at i:25838942 original size:9 final size:10
Alignment explanation
Indices: 25838930--25838971 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
25838920 AAAAGGTTCG
25838930 AAAAGA-AAA
1 AAAAGAGAAA
25838939 AAAAGAGAAA
1 AAAAGAGAAA
25838949 AAAAGGAGAAA
1 AAAA-GAGAAA
25838960 AAGAAGA-AAA
1 AA-AAGAGAAA
25838970 AA
1 AA
25838972 CATGGTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.20
10 12 0.40
11 10 0.33
12 2 0.07
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAGAGAAA
Found at i:25838949 original size:11 final size:11
Alignment explanation
Indices: 25838933--25838971 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
25838923 AGGTTCGAAA
25838933 AGAAAAAAAAG
1 AGAAAAAAAAG
*
25838944 AGAAAAAAAGG
1 AGAAAAAAAAG
*
25838955 AGAAAAAGAAG
1 AGAAAAAAAAG
25838966 A-AAAAA
1 AGAAAAA
25838972 CATGGTTGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:25838952 original size:19 final size:20
Alignment explanation
Indices: 25838930--25838971 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
25838920 AAAAGGTTCG
25838930 AAAAGAAAAAAAAG-AGAAA
1 AAAAGAAAAAAAAGAAGAAA
* *
25838949 AAAAGGAGAAAAAGAAGAAA
1 AAAAGAAAAAAAAGAAGAAA
25838969 AAA
1 AAA
25838972 CATGGTTGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAAAGAAGAAA
Found at i:25838962 original size:38 final size:38
Alignment explanation
Indices: 25838887--25838962 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
25838877 TTCGTACGTT
*
25838887 GTTCGAACAACAAAAAAACAGAGAAAAAAAAGCAAAAG
1 GTTCGAACAACAAAAAAACAGAGAAAAAAAAGAAAAAG
*
25838925 GTTCGAA-AAGAAAAAAA-AGAGAAAAAAAGGAGAAAAAG
1 GTTCGAACAACAAAAAAACAGAGAAAAAAA--AGAAAAAG
25838963 AAGAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 11 0.32
37 9 0.26
38 14 0.41
ACGTcount: A:0.67, C:0.08, G:0.20, T:0.05
Consensus pattern (38 bp):
GTTCGAACAACAAAAAAACAGAGAAAAAAAAGAAAAAG
Found at i:25841235 original size:17 final size:16
Alignment explanation
Indices: 25841165--25841233 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
25841155 AATAAGTTTG
25841165 AATTTATTTTAAATTCA
1 AATTTATTTTAAATT-A
* * ** *
25841182 AACTCATTTTGAGTTTG
1 AATTTATTTT-AAATTA
*
25841199 AATTTACTTTAAAGTTA
1 AATTTATTTTAAA-TTA
25841216 AATTTATTTTAAATTA
1 AATTTATTTTAAATTA
25841232 AA
1 AA
25841234 ATAAAATTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
16 6 0.16
17 29 0.76
18 3 0.08
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (16 bp):
AATTTATTTTAAATTA
Found at i:25842912 original size:29 final size:28
Alignment explanation
Indices: 25842869--25843091 Score: 254
Period size: 29 Copynumber: 7.7 Consensus size: 28
25842859 CTTGAACTTC
*
25842869 TCCAAAAATTACATTTTTACCTCTGAACT
1 TCCAAAAATTACATTTTTACC-CTAAACT
*
25842898 TCCAAAAATTCCATTTTTGACCCTTAAACT
1 TCCAAAAATTACATTTTT-ACCC-TAAACT
*
25842928 T-CAAAAATTACATTTTTACCCCTGAACT
1 TCCAAAAATTACATTTTTA-CCCTAAACT
*
25842956 TCCAAAAATTCCATTTTTAACCCTAAAACT
1 TCCAAAAATTACATTTTT-ACCCT-AAACT
25842986 TCCAAAAATTACATTTTTACCCTCAAACT
1 TCCAAAAATTACATTTTTACCCT-AAACT
* * *
25843015 TCCAAAAATTCCATTTTAACCCCAAAACT
1 TCCAAAAATTACATTTTTA-CCCTAAACT
*
25843044 TCCAAAAATTACATTTTTACCCTCGAA-T
1 TCCAAAAATTACATTTTTACCCT-AAACT
25843072 GTCCAAAAATT-CTATTTTTA
1 -TCCAAAAATTAC-ATTTTTA
25843092 TCCCAATTTT
Statistics
Matches: 169, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
28 12 0.07
29 123 0.73
30 34 0.20
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (28 bp):
TCCAAAAATTACATTTTTACCCTAAACT
Found at i:25842944 original size:58 final size:59
Alignment explanation
Indices: 25842869--25843091 Score: 339
Period size: 58 Copynumber: 3.8 Consensus size: 59
25842859 CTTGAACTTC
* *
25842869 TCCAAAAATTACATTTTTA-CCTCTGAACTTCCAAAAATTCCATTTTTGACCCTTAAACT
1 TCCAAAAATTACATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
25842928 T-CAAAAATTACATTTTTACCC-CTGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
1 TCCAAAAATTACATTTTTACCCTC-GAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
* *
25842986 TCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCA-TTTTAACCCCAAAACT
1 TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
*
25843044 TCCAAAAATTACATTTTTACCCTCGAA-TGTCCAAAAATTCTATTTTTA
1 TCCAAAAATTACATTTTTACCCTCGAACT-TCCAAAAATTCCATTTTTA
25843092 TCCCAATTTT
Statistics
Matches: 153, Mismatches: 6, Indels: 10
0.91 0.04 0.06
Matches are distributed among these distances:
57 1 0.01
58 106 0.69
59 45 0.29
60 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (59 bp):
TCCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
Found at i:25843003 original size:88 final size:86
Alignment explanation
Indices: 25842841--25843091 Score: 283
Period size: 88 Copynumber: 2.8 Consensus size: 86
25842831 TAAAATGTAT
* ** * *
25842841 AAAAATTATATTTTGGCCCTTGAACTTCTCCAAAAATTACATTTTTACCTCTGAACTTCCAAAAA
1 AAAAATTACATTTTAACCCCTGAAC-T-TCCAAAAATTACATTTTTACC-CTAAACTTCCAAAAA
* *
25842906 TTCCATTTTTGACCCTTAAACTT-C
63 TTACATTTTT-ACCCTCAAACTTCC
* *
25842930 AAAAATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAT
1 AAAAATTACATTTTAACCCCTGAACTTCCAAAAATTACATTTTT-ACCCT-AAACTTCCAAAAAT
25842995 TACATTTTTACCCTCAAACTTCC
64 TACATTTTTACCCTCAAACTTCC
* ** *
25843018 AAAAATTCCATTTTAACCCCAAAACTTCCAAAAATTACATTTTTACCCTCGAA-TGTCCAAAAAT
1 AAAAATTACATTTTAACCCCTGAACTTCCAAAAATTACATTTTTACCCT-AAACT-TCCAAAAAT
25843082 T-CTATTTTTA
64 TAC-ATTTTTA
25843092 TCCCAATTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
86 2 0.01
87 54 0.38
88 65 0.46
89 21 0.15
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (86 bp):
AAAAATTACATTTTAACCCCTGAACTTCCAAAAATTACATTTTTACCCTAAACTTCCAAAAATTA
CATTTTTACCCTCAAACTTCC
Found at i:25843077 original size:117 final size:117
Alignment explanation
Indices: 25842869--25843091 Score: 337
Period size: 117 Copynumber: 1.9 Consensus size: 117
25842859 CTTGAACTTC
* * **
25842869 TCCAAAAATTACATTTTTACCTCTGAACTTCCAAAAATTCCATTTTTGACCCTTAAACTTCAAAA
1 TCCAAAAATTACATTTTTACCTCTAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCAAAA
25842934 ATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
66 ATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
25842986 TCCAAAAATTACATTTTTACC-CTCAAACTTCCAAAAATTCCA-TTTTAACCCCAAAACTTCCAA
1 TCCAAAAATTACATTTTTACCTCT-AAACTTCCAAAAATTCCATTTTTAACCCCAAAACTT-CAA
*
25843049 AAATTACATTTTTA-CCCTCGAA-TGTCCAAAAATTCTATTTTTA
64 AAATTACATTTTTACCCCT-GAACT-TCCAAAAATTCCATTTTTA
25843092 TCCCAATTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
116 21 0.22
117 76 0.78
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (117 bp):
TCCAAAAATTACATTTTTACCTCTAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCAAAA
ATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTAACCCTAAAACT
Found at i:25846405 original size:5 final size:5
Alignment explanation
Indices: 25846336--25846567 Score: 71
Period size: 5 Copynumber: 45.4 Consensus size: 5
25846326 TGTCAACATG
* * * * * *
25846336 TTGCT TTGCT GTG-T TGTGCT GTGCT TTGCT ATG-T TGTGAT GTGCT TTGCG
1 TTGCT TTGCT TTGCT T-TGCT TTGCT TTGCT TTGCT T-TGCT TTGCT TTGCT
* ** ** *
25846386 TTGCT TTG-T TATGCT TTGCT TTGTT TTTTT TTTTT TTGCT TTGCT TTGTT
1 TTGCT TTGCT T-TGCT TTGCT TTGCT TTGCT TTGCT TTGCT TTGCT TTGCT
** * **
25846436 TTGCT TTTAT ATTGCT TTTCT TTGCTT TTTAT ATTGCT TTG-T TGTGCT
1 TTGCT TTGCT -TTGCT TTGCT TTGC-T TTGCT -TTGCT TTGCT T-TGCT
* * ** * * ** *
25846484 TTACT TT-TT TTGCT TTGCT TTTAT ATTACT TTGCC TTGCTT TTTAT ATTGTT
1 TTGCT TTGCT TTGCT TTGCT TTGCT -TTGCT TTGCT TTGC-T TTGCT -TTGCT
* *
25846536 TTGCT TTGCT TT-AT ATTGTT TTGCT TTGCT TT
1 TTGCT TTGCT TTGCT -TTGCT TTGCT TTGCT TT
25846568 TCATTTTATA
Statistics
Matches: 165, Mismatches: 45, Indels: 34
0.68 0.18 0.14
Matches are distributed among these distances:
4 10 0.06
5 131 0.79
6 24 0.15
ACGTcount: A:0.06, C:0.12, G:0.18, T:0.63
Consensus pattern (5 bp):
TTGCT
Found at i:25846452 original size:11 final size:11
Alignment explanation
Indices: 25846436--25846475 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
25846426 TTGCTTTGTT
25846436 TTGCTTTTATA
1 TTGCTTTTATA
*
25846447 TTGCTTTTCT-
1 TTGCTTTTATA
25846457 TTGCTTTTTATA
1 TTGC-TTTTATA
25846469 TTGCTTT
1 TTGCTTT
25846476 GTTGTGCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 4 0.16
11 17 0.68
12 4 0.16
ACGTcount: A:0.10, C:0.12, G:0.10, T:0.68
Consensus pattern (11 bp):
TTGCTTTTATA
Found at i:25846509 original size:62 final size:63
Alignment explanation
Indices: 25846430--25846568 Score: 194
Period size: 62 Copynumber: 2.2 Consensus size: 63
25846420 TTTGCTTTGC
* * * *
25846430 TTTGTTTTGCTTTTATATTGCTTTTCTTTGCTTTTTATATTGCTTTG-TTGTGCTTTACT-TT-T
1 TTTGCTTTGCTTTTATATTACTTTGCCTTGCTTTTTATATTGCTTTGCTT-TGCTTTA-TATTGT
*
25846492 TTTGCTTTGCTTTTATATTACTTTGCCTTGCTTTTTATATTGTTTTGCTTTGCTTTATATTGT
1 TTTGCTTTGCTTTTATATTACTTTGCCTTGCTTTTTATATTGCTTTGCTTTGCTTTATATTGT
25846555 TTTGCTTTGCTTTT
1 TTTGCTTTGCTTTT
25846569 CATTTTATAT
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
61 1 0.01
62 51 0.74
63 17 0.25
ACGTcount: A:0.09, C:0.12, G:0.13, T:0.66
Consensus pattern (63 bp):
TTTGCTTTGCTTTTATATTACTTTGCCTTGCTTTTTATATTGCTTTGCTTTGCTTTATATTGT
Found at i:25846530 original size:22 final size:21
Alignment explanation
Indices: 25846430--25846568 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 21
25846420 TTTGCTTTGC
*
25846430 TTTGTTTTGCTTTTATATTGCT
1 TTTGCTTTGCTTTTATATTG-T
*
25846452 TTT-CTTTGCTTTTTATATTGC
1 TTTGCTTTGC-TTTTATATTGT
25846473 TTTG-TTGTGC-TTTACT-TT-T
1 TTTGCTT-TGCTTTTA-TATTGT
**
25846492 TTTGCTTTGCTTTTATATTAC
1 TTTGCTTTGCTTTTATATTGT
*
25846513 TTTGCCTTGCTTTTTATATTGT
1 TTTGCTTTGC-TTTTATATTGT
25846535 TTTGCTTTGC-TTTATATTGT
1 TTTGCTTTGCTTTTATATTGT
25846555 TTTGCTTTGCTTTT
1 TTTGCTTTGCTTTT
25846569 CATTTTATAT
Statistics
Matches: 99, Mismatches: 8, Indels: 21
0.77 0.06 0.16
Matches are distributed among these distances:
19 8 0.08
20 34 0.34
21 23 0.23
22 34 0.34
ACGTcount: A:0.09, C:0.12, G:0.13, T:0.66
Consensus pattern (21 bp):
TTTGCTTTGCTTTTATATTGT
Found at i:25846579 original size:27 final size:26
Alignment explanation
Indices: 25846545--25846632 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 26
25846535 TTTGCTTTGC
*
25846545 TTTATATTGTTTTGCTTTGCTTTTCAT
1 TTTAT-TTGTTGTGCTTTGCTTTTCAT
*
25846572 TTTATATTGTCGTGCTGTT-CTTTTCAT
1 TTTAT-TTGTTGTGCT-TTGCTTTTCAT
* * *
25846599 ATTGATGTGTTGTGCTTTGCTTTGC-T
1 -TTTATTTGTTGTGCTTTGCTTTTCAT
25846625 TTTATTTG
1 TTTATTTG
25846633 CTTTGTTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 6 0.12
26 3 0.06
27 35 0.70
28 6 0.12
ACGTcount: A:0.10, C:0.11, G:0.17, T:0.61
Consensus pattern (26 bp):
TTTATTTGTTGTGCTTTGCTTTTCAT
Found at i:25846634 original size:15 final size:14
Alignment explanation
Indices: 25846614--25846666 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
25846604 TGTGTTGTGC
25846614 TTTGCTTTGCTTTTA
1 TTTGCTTTG-TTTTA
25846629 TTTGCTTTGTTTTA
1 TTTGCTTTGTTTTA
* *
25846643 TATTTCTTTGATTTTC
1 T-TTGCTTTG-TTTTA
25846659 TTTGCTTT
1 TTTGCTTT
25846667 TTATATTGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 6 0.18
15 22 0.67
16 5 0.15
ACGTcount: A:0.08, C:0.11, G:0.11, T:0.70
Consensus pattern (14 bp):
TTTGCTTTGTTTTA
Found at i:25846651 original size:25 final size:26
Alignment explanation
Indices: 25846623--25846673 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
25846613 CTTTGCTTTG
*
25846623 CTTTTATTTGCTTTG-TTTTATATTT
1 CTTTGATTTGCTTTGCTTTTATATTT
*
25846648 CTTTGATTTTCTTTGCTTTTTATATT
1 CTTTGATTTGCTTTGC-TTTTATATT
25846674 GCTATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
27 9 0.41
ACGTcount: A:0.12, C:0.10, G:0.08, T:0.71
Consensus pattern (26 bp):
CTTTGATTTGCTTTGCTTTTATATTT
Found at i:25846688 original size:27 final size:27
Alignment explanation
Indices: 25846628--25846693 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
25846618 CTTTGCTTTT
* *
25846628 ATTTGCTTTG--TTTTATATTTCTTTG
1 ATTTGCTTTGCTTTTTATATTGCTTAG
*
25846653 ATTTTCTTTGCTTTTTATATTGCTATAG
1 ATTTGCTTTGCTTTTTATATTGCT-TAG
*
25846681 -TTTGCTTTACTTT
1 ATTTGCTTTGCTTT
25846694 GCTTTGCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 9 0.27
27 22 0.67
28 2 0.06
ACGTcount: A:0.14, C:0.11, G:0.11, T:0.65
Consensus pattern (27 bp):
ATTTGCTTTGCTTTTTATATTGCTTAG
Found at i:25849612 original size:15 final size:14
Alignment explanation
Indices: 25849584--25849617 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
25849574 TCTTACCATG
*
25849584 AAAATAATATCACT
1 AAAATAATACCACT
25849598 AAAATGAATACCACT
1 AAAAT-AATACCACT
25849613 AAAAT
1 AAAAT
25849618 TTACATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.15, G:0.03, T:0.24
Consensus pattern (14 bp):
AAAATAATACCACT
Found at i:25853930 original size:15 final size:15
Alignment explanation
Indices: 25853910--25854015 Score: 62
Period size: 15 Copynumber: 7.2 Consensus size: 15
25853900 ATTAAATATT
25853910 AAAGCAAAGCAAAAC
1 AAAGCAAAGCAAAAC
*
25853925 AAAGCAAAGCAATAC
1 AAAGCAAAGCAAAAC
* *
25853940 --A--AAAG-AATAT
1 AAAGCAAAGCAAAAC
25853950 AAAGCAAAGC-AAAC
1 AAAGCAAAGCAAAAC
**
25853964 TAATAAAAAAGCAAAAC
1 -AA-AGCAAAGCAAAAC
* *
25853981 AAAGCAAAGTAATATAT
1 AAAGCAAAGCAA-A-AC
*
25853998 AAAGCAAAGCAAAGC
1 AAAGCAAAGCAAAAC
25854013 AAA
1 AAA
25854016 ATAGTATAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
10 4 0.06
11 4 0.06
12 1 0.01
13 1 0.01
14 6 0.09
15 26 0.38
16 10 0.15
17 16 0.24
ACGTcount: A:0.65, C:0.14, G:0.12, T:0.08
Consensus pattern (15 bp):
AAAGCAAAGCAAAAC
Found at i:25853960 original size:30 final size:31
Alignment explanation
Indices: 25853919--25853989 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
25853909 TAAAGCAAAG
* * *
25853919 CAAAACAAAGCAAAGC-AATACAAAAG-AATA
1 CAAAGCAAAGCAAA-CTAATAAAAAAGCAAAA
*
25853949 TAAAGCAAAGCAAACTAATAAAAAAGCAAAA
1 CAAAGCAAAGCAAACTAATAAAAAAGCAAAA
25853980 CAAAGCAAAG
1 CAAAGCAAAG
25853990 TAATATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 21 0.62
31 12 0.35
ACGTcount: A:0.66, C:0.15, G:0.11, T:0.07
Consensus pattern (31 bp):
CAAAGCAAAGCAAACTAATAAAAAAGCAAAA
Found at i:25854023 original size:27 final size:27
Alignment explanation
Indices: 25853950--25854026 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
25853940 AAAAGAATAT
*
25853950 AAAGCAAAGCAAACTAATA-AAAAAGC
1 AAAGCAAAGCAAAATAATATAAAAAGC
* * *
25853976 AAAACAAAGCAAAGTAATATATAAAGC
1 AAAGCAAAGCAAAATAATATAAAAAGC
*
25854003 AAAGCAAAGCAAAATAGTATAAAA
1 AAAGCAAAGCAAAATAATATAAAA
25854027 CAATAATATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 17 0.40
27 26 0.60
ACGTcount: A:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (27 bp):
AAAGCAAAGCAAAATAATATAAAAAGC
Found at i:25854125 original size:20 final size:21
Alignment explanation
Indices: 25854089--25854127 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25854079 ACATTATAGC
25854089 AAAGCAAACTAAATATAAAAT
1 AAAGCAAACTAAATATAAAAT
*
25854110 AAAGCAAAGT-AATATAAA
1 AAAGCAAACTAAATATAAA
25854128 GCAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.18
Consensus pattern (21 bp):
AAAGCAAACTAAATATAAAAT
Found at i:25854174 original size:28 final size:27
Alignment explanation
Indices: 25854130--25854279 Score: 101
Period size: 28 Copynumber: 5.3 Consensus size: 27
25854120 AATATAAAGC
25854130 AATATAAAACAAAAAGCCAAATCAAAGTAA
1 AATATAAAAC--AAAG-CAAATCAAAGTAA
* * *
25854160 AATATAAAACAAAGCAATTTAAAATATAAAA
1 AATATAAAACAAAGCAA-ATCAAA-GT--AA
*
25854191 TAATATAAAACAAAGCAAAGCAAAGTAAA
1 -AATATAAAACAAAGCAAATCAAAGT-AA
* **
25854220 AATTTAAAACAAAGCAAA--GGAG-AA
1 AATATAAAACAAAGCAAATCAAAGTAA
* *
25854244 AATATAAAGCAAAG-TAATGCAAAGTAA
1 AATATAAAACAAAGCAAAT-CAAAGTAA
25854271 AATATAAAA
1 AATATAAAA
25854280 TAATAAAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.02
24 14 0.15
26 4 0.04
27 13 0.14
28 25 0.26
29 4 0.04
30 11 0.12
31 5 0.05
32 17 0.18
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.17
Consensus pattern (27 bp):
AATATAAAACAAAGCAAATCAAAGTAA
Found at i:25854174 original size:60 final size:59
Alignment explanation
Indices: 25854086--25854238 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 59
25854076 ACAACATTAT
* * *
25854086 AGCAAAGCAAACT--AAATATAAAATAAAGCAAAGT-AATATAAAGCAATATAAAACAAAA
1 AGCAAAGCAAAGTAAAAATATAAAACAAAGCAAAGTAAATATAAAACAATATAAAAC--AA
* ** *
25854144 AGCCAAATCAAAGT-AAAATATAAAACAAAGCAATTTAAAATATAAAATAATATAAAACAA
1 AG-CAAAGCAAAGTAAAAATATAAAACAAAGCAAAGT-AAATATAAAACAATATAAAACAA
*
25854204 AGCAAAGCAAAGTAAAAATTTAAAACAAAGCAAAG
1 AGCAAAGCAAAGTAAAAATATAAAACAAAGCAAAG
25854239 GAGAAAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
58 2 0.03
59 19 0.24
60 40 0.51
62 18 0.23
ACGTcount: A:0.65, C:0.10, G:0.08, T:0.16
Consensus pattern (59 bp):
AGCAAAGCAAAGTAAAAATATAAAACAAAGCAAAGTAAATATAAAACAATATAAAACAA
Found at i:25854233 original size:23 final size:24
Alignment explanation
Indices: 25854206--25854257 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
25854196 TAAAACAAAG
* *
25854206 CAAAGCAAAGTA-AAAATTTAAAA
1 CAAAGCAAAGGAGAAAATATAAAA
*
25854229 CAAAGCAAAGGAGAAAATATAAAG
1 CAAAGCAAAGGAGAAAATATAAAA
25854253 CAAAG
1 CAAAG
25854258 TAATGCAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.63, C:0.10, G:0.15, T:0.12
Consensus pattern (24 bp):
CAAAGCAAAGGAGAAAATATAAAA
Found at i:25854319 original size:25 final size:25
Alignment explanation
Indices: 25854290--25854657 Score: 130
Period size: 25 Copynumber: 14.4 Consensus size: 25
25854280 TAATAAAAAA
* *
25854290 CAAAGCAAAGGAATATAAAGTAAAG
1 CAAAGCAAAGCAATATAAAGCAAAG
* *
25854315 TAAAGCAAAACAATATAAAGCAAAG
1 CAAAGCAAAGCAATATAAAGCAAAG
* * * * *
25854340 CAAAGAAAAGTAATGTAAAACACAATA
1 CAAAGCAAAGCAATATAAAGCA-AA-G
* * * *
25854367 TAAAACAAAGCAA-AGGAATA-TAAAG
1 CAAAGCAAAGCAATA-TAA-AGCAAAG
* *
25854392 CAAAACAAA-CTAATAAAAAGCCAAA-
1 CAAAGCAAAGC-AATATAAAG-CAAAG
* *
25854417 CAAAGCAAAGTAATATAAAGCAAAA
1 CAAAGCAAAGCAATATAAAGCAAAG
* *
25854442 CAAAATAGTATAAAACAATATAAAGCAAAG
1 C--AA-AG--CAAAGCAATATAAAGCAAAG
* ** *
25854472 TAAAATATAAAACAATATAAAGCAAAG
1 -CAAA-GCAAAGCAATATAAAGCAAAG
* * *
25854499 CAAAGGAATA-TAAAATAAAGCAAAG
1 CAAAGCAA-AGCAATATAAAGCAAAG
* *
25854524 TAAAGCAAAGCAATATAAAACAATATAAAG
1 CAAAGCAAAGCAATATAAAGC-----AAAG
* *
25854554 CAAAGCAAAGGAATATAAAGCAAAA
1 CAAAGCAAAGCAATATAAAGCAAAG
* * *
25854579 CAAAACAATA-TAAAATAAAGCAAAG
1 CAAAGCAA-AGCAATATAAAGCAAAG
* * *
25854604 TAATA-TAAAACAATATAAAGCAAAG
1 CAA-AGCAAAGCAATATAAAGCAAAG
*
25854629 CAAAG----G-AATATAAAGTAAAG
1 CAAAGCAAAGCAATATAAAGCAAAG
25854649 CAAAGCAAA
1 CAAAGCAAA
25854658 ACAAAGTAAT
Statistics
Matches: 255, Mismatches: 56, Indels: 65
0.68 0.15 0.17
Matches are distributed among these distances:
20 18 0.07
24 9 0.04
25 136 0.53
26 14 0.05
27 34 0.13
28 4 0.02
29 2 0.01
30 38 0.15
ACGTcount: A:0.64, C:0.11, G:0.12, T:0.13
Consensus pattern (25 bp):
CAAAGCAAAGCAATATAAAGCAAAG
Found at i:25854388 original size:20 final size:20
Alignment explanation
Indices: 25854363--25854616 Score: 117
Period size: 20 Copynumber: 12.6 Consensus size: 20
25854353 TGTAAAACAC
*
25854363 AATATAAAACAAAGCAAAGG
1 AATATAAAACAAAGCAAAGT
* * *
25854383 AATATAAAGCAAAACAAACT
1 AATATAAAACAAAGCAAAGT
*
25854403 AATAAAAAGCCAAACAAAGCAAAGT
1 AAT--ATA---AAACAAAGCAAAGT
* * *
25854428 AATATAAAGCAAAACAAAAT
1 AATATAAAACAAAGCAAAGT
* * *
25854448 AGTATAAAACAATA-TAAAGC
1 AATATAAAACAA-AGCAAAGT
* * *
25854468 AA-AGTAAAATATA--AAA-C
1 AATA-TAAAACAAAGCAAAGT
* *
25854485 AATATAAAGCAAAGCAAAGG
1 AATATAAAACAAAGCAAAGT
*
25854505 AATATAAAATAAAGCAAAGT
1 AATATAAAACAAAGCAAAGT
* * * **
25854525 AA-AGCAAAGCAATA-TAAAAC
1 AATA-TAAAACAA-AGCAAAGT
* *
25854545 AATATAAAGCAAAGCAAAGG
1 AATATAAAACAAAGCAAAGT
* * **
25854565 AATATAAAGCAAAACAAAAC
1 AATATAAAACAAAGCAAAGT
*
25854585 AATATAAAATAAAGCAAAGT
1 AATATAAAACAAAGCAAAGT
25854605 AATATAAAACAA
1 AATATAAAACAA
25854617 TATAAAGCAA
Statistics
Matches: 173, Mismatches: 46, Indels: 30
0.69 0.18 0.12
Matches are distributed among these distances:
17 9 0.05
18 4 0.02
19 7 0.04
20 132 0.76
21 3 0.02
22 2 0.01
23 2 0.01
25 14 0.08
ACGTcount: A:0.65, C:0.11, G:0.10, T:0.14
Consensus pattern (20 bp):
AATATAAAACAAAGCAAAGT
Found at i:25854462 original size:30 final size:29
Alignment explanation
Indices: 25854428--25854572 Score: 143
Period size: 30 Copynumber: 4.9 Consensus size: 29
25854418 AAAGCAAAGT
* *
25854428 AATATAAAGCAAAACAAAATAGTATAAAAC
1 AATATAAAGCAAAGCAAAA-AATATAAAAC
*
25854458 AATATAAAGCAAAG--TAAAATATAAAAC
1 AATATAAAGCAAAGCAAAAAATATAAAAC
* *
25854485 AATATAAAGCAAAGCAAAGGAATATAAAAT
1 AATATAAAGCAAAGCAAA-AAATATAAAAC
* * *
25854515 AA-AGCAAAGTAAAGCAAAGCAATATAAAAC
1 AATA-TAAAGCAAAGCAAA-AAATATAAAAC
*
25854545 AATATAAAGCAAAGCAAAGGAATATAAA
1 AATATAAAGCAAAGCAAA-AAATATAAA
25854573 GCAAAACAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.24
28 2 0.02
29 2 0.02
30 69 0.71
31 1 0.01
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.15
Consensus pattern (29 bp):
AATATAAAGCAAAGCAAAAAATATAAAAC
Found at i:25854467 original size:45 final size:44
Alignment explanation
Indices: 25854369--25854474 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 44
25854359 ACACAATATA
* *
25854369 AAACAAAGCAAAGGAATATAAAGCAAAACAAACTAATAAAAAGCC
1 AAACAAAGCAAAGTAATATAAAGCAAAACAAAATAATAAAAA-CC
*
25854414 AAACAAAGCAAAGTAATATAAAGCAAAACAAAATAGTATAAAA-C
1 AAACAAAGCAAAGTAATATAAAGCAAAACAAAATAATA-AAAACC
*
25854458 AATATAAAGCAAAGTAA
1 AA-ACAAAGCAAAGTAA
25854475 AATATAAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
44 3 0.05
45 48 0.87
46 4 0.07
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (44 bp):
AAACAAAGCAAAGTAATATAAAGCAAAACAAAATAATAAAAACC
Found at i:25854609 original size:40 final size:40
Alignment explanation
Indices: 25854485--25854612 Score: 159
Period size: 40 Copynumber: 3.2 Consensus size: 40
25854475 AATATAAAAC
* **
25854485 AATATAAAGCAAAGCAAAGGAATATAAAATAAAGCAAAGT
1 AATATAAAGCAAAACAAAACAATATAAAATAAAGCAAAGT
* * * ** *
25854525 AA-AGCAAAGCAATATAAAACAATATAAAGCAAAGCAAAGG
1 AATA-TAAAGCAAAACAAAACAATATAAAATAAAGCAAAGT
25854565 AATATAAAGCAAAACAAAACAATATAAAATAAAGCAAAGT
1 AATATAAAGCAAAACAAAACAATATAAAATAAAGCAAAGT
25854605 AATATAAA
1 AATATAAA
25854613 ACAATATAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.65, C:0.09, G:0.12, T:0.14
Consensus pattern (40 bp):
AATATAAAGCAAAACAAAACAATATAAAATAAAGCAAAGT
Found at i:25854614 original size:30 final size:30
Alignment explanation
Indices: 25854580--25854642 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
25854570 AAAGCAAAAC
* *
25854580 AAAACAATATAAAATAAAGCAAAGTAATAT
1 AAAACAATATAAAACAAAGCAAAGGAATAT
*
25854610 AAAACAATATAAAGCAAAGCAAAGGAATAT
1 AAAACAATATAAAACAAAGCAAAGGAATAT
25854640 AAA
1 AAA
25854643 GTAAAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.16
Consensus pattern (30 bp):
AAAACAATATAAAACAAAGCAAAGGAATAT
Found at i:25854638 original size:20 final size:20
Alignment explanation
Indices: 25854615--25854653 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25854605 AATATAAAAC
25854615 AATATAAAGCAAAGCAAAGG
1 AATATAAAGCAAAGCAAAGG
*
25854635 AATATAAAGTAAAGCAAAG
1 AATATAAAGCAAAGCAAAG
25854654 CAAAACAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.18, T:0.13
Consensus pattern (20 bp):
AATATAAAGCAAAGCAAAGG
Found at i:25854663 original size:20 final size:20
Alignment explanation
Indices: 25854620--25854666 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
25854610 AAAACAATAT
* * * *
25854620 AAAGCAAAGCAAAGGAATAT
1 AAAGTAAAGCAAAGCAAAAC
25854640 AAAGTAAAGCAAAGCAAAAC
1 AAAGTAAAGCAAAGCAAAAC
25854660 AAAGTAA
1 AAAGTAA
25854667 TAAAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.11, G:0.17, T:0.09
Consensus pattern (20 bp):
AAAGTAAAGCAAAGCAAAAC
Found at i:25855053 original size:13 final size:13
Alignment explanation
Indices: 25855035--25855069 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
25855025 ACTACTTAGA
25855035 TTATAAGATAATT
1 TTATAAGATAATT
25855048 TTATAAGATAATT
1 TTATAAGATAATT
25855061 TTATAAGAT
1 TTATAAGAT
25855070 TTACGACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (13 bp):
TTATAAGATAATT
Found at i:25855459 original size:27 final size:27
Alignment explanation
Indices: 25855426--25855481 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
25855416 AAAAATAATT
*
25855426 ATTAAAAATAATAA-TATATATAATTAA
1 ATTAAAAATAATAATTAAATA-AATTAA
*
25855453 ATTAAAAATAGTAATTAAATAAATTAA
1 ATTAAAAATAATAATTAAATAAATTAA
25855480 AT
1 AT
25855482 CCACCTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTAAAAATAATAATTAAATAAATTAA
Found at i:25855754 original size:66 final size:65
Alignment explanation
Indices: 25855680--25855819 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 65
25855670 AAGAAAATGT
* ** ** *
25855680 AAAACAAAGCAAAGTAAAGAAATATAAAGTTATATAAAGCAAAGGAAAGAAAAGTAAATAAAAAG
1 AAAACAAAGCAAAATAAAGAAATATAAAGCAATATAAAGCAAACCAAAGAAAAAT-AATAAAAAG
25855745 C
65 C
* * * * *
25855746 AAAACAAAGTAAAATAGAGGAATATAAAGCAATATAAAGCAGACCAAAGAAAAATAATATAAAGC
1 AAAACAAAGCAAAATAAAGAAATATAAAGCAATATAAAGCAAACCAAAGAAAAATAATAAAAAGC
25855811 AAAACAAAG
1 AAAACAAAG
25855820 TAATATAATG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
65 18 0.29
66 45 0.71
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.13
Consensus pattern (65 bp):
AAAACAAAGCAAAATAAAGAAATATAAAGCAATATAAAGCAAACCAAAGAAAAATAATAAAAAGC
Done.