Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 184 of 343
Found at i:61099740 original size:60 final size:60
Alignment explanation
Indices: 61099656--61099775 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
61099646 CAAAGGATCC
*
61099656 GAAATGCAAATAGTGGCAAGAAAGTGCAATC-AGAGGCACCGA-AGTGC-AATAAGGGGCAT
1 GAAATGCAAATAGGGGCAAGAAAGTGCAATCAAG-GGCACC-ATAGTGCAAATAAGGGGCAT
* * *
61099715 GAAAGTGCAATTAGGGGCATGAAAGTGCAATCAAGGGCACCATAGTGCAAATTAGGGGCAT
1 GAAA-TGCAAATAGGGGCAAGAAAGTGCAATCAAGGGCACCATAGTGCAAATAAGGGGCAT
61099776 CGACATTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
59 5 0.09
60 35 0.66
61 13 0.25
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.16
Consensus pattern (60 bp):
GAAATGCAAATAGGGGCAAGAAAGTGCAATCAAGGGCACCATAGTGCAAATAAGGGGCAT
Found at i:61099741 original size:40 final size:39
Alignment explanation
Indices: 61099670--61099775 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 39
61099660 TGCAAATAGT
* * *
61099670 GGCAAGAAAGTGCAATCAGAGGCACCGAAGTGCAAT-AAGG
1 GGCAAGAAAGTGCAATTAGGGGCA-TGAAGTGCAATCAA-G
*
61099710 GGCATGAAAGTGCAATTAGGGGCATGAAAGTGCAATCAAG
1 GGCAAGAAAGTGCAATTAGGGGCATG-AAGTGCAATCAAG
** *
61099750 GGCACCATAGTGCAAATTAGGGGCAT
1 GGCAAGAAAGTGC-AATTAGGGGCAT
61099776 CGACATTTCT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.02
40 41 0.73
41 14 0.25
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.15
Consensus pattern (39 bp):
GGCAAGAAAGTGCAATTAGGGGCATGAAGTGCAATCAAG
Found at i:61107139 original size:20 final size:20
Alignment explanation
Indices: 61107114--61107154 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
61107104 CTTCTAGGAG
61107114 TTAGTTCTTTGGATATTGAC
1 TTAGTTCTTTGGATATTGAC
61107134 TTAGTTCTTTGGATATTGAC
1 TTAGTTCTTTGGATATTGAC
61107154 T
1 T
61107155 CAAGAACTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (20 bp):
TTAGTTCTTTGGATATTGAC
Found at i:61116987 original size:19 final size:20
Alignment explanation
Indices: 61116965--61117010 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
61116955 GAAATTGATG
61116965 AAAAATGTAGAATGAG-AAA
1 AAAAATGTAGAATGAGTAAA
* *
61116984 AAAAAT-AAGAATGAGTTAA
1 AAAAATGTAGAATGAGTAAA
61117003 AAAAATGT
1 AAAAATGT
61117011 TGTAATAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (20 bp):
AAAAATGTAGAATGAGTAAA
Found at i:61116994 original size:18 final size:19
Alignment explanation
Indices: 61116973--61117008 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
61116963 TGAAAAATGT
61116973 AGAATGAG-AAAAAAAATA
1 AGAATGAGTAAAAAAAATA
*
61116991 AGAATGAGTTAAAAAAAT
1 AGAATGAGTAAAAAAAAT
61117009 GTTGTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (19 bp):
AGAATGAGTAAAAAAAATA
Found at i:61128116 original size:93 final size:93
Alignment explanation
Indices: 61127951--61128121 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
61127941 CCCATAAGAA
* *
61127951 AACTCAGACTCAACCCAATGAGCTCAGGCGTTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
1 AACTCAGACTCAACCCAACGAGCTCAGGCATTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
*
61128016 GAGCTCGGATGCCTAGTTACATCTCACG
66 GACCTCGGATGCCTAGTTACATCTCACG
* * * *
61128044 AACTCGGACTCAACTCAACGAGCTC-GGACATTCGTATCCATAAGTGAACTT-GGACTCGACTCA
1 AACTCAGACTCAACCCAACGAGCTCAGG-CATTCGCATCCATAAGTGAA-TTCGGACTCAACTCA
*
61128107 ATGACCTCGGATGCC
64 ACGACCTCGGATGCC
61128122 CAAATATCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 2 0.03
93 64 0.94
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCAGACTCAACCCAACGAGCTCAGGCATTCGCATCCATAAGTGAATTCGGACTCAACTCAAC
GACCTCGGATGCCTAGTTACATCTCACG
Found at i:61139964 original size:13 final size:13
Alignment explanation
Indices: 61139926--61139955 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
61139916 TCACCAATCA
61139926 AATTGTAATAATT
1 AATTGTAATAATT
61139939 AATTGTAATAATT
1 AATTGTAATAATT
61139952 AATT
1 AATT
61139956 TTCAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
AATTGTAATAATT
Found at i:61142986 original size:18 final size:18
Alignment explanation
Indices: 61142965--61143016 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
61142955 TCCACCTTTG
61142965 CCAAATCCACCACCAACT
1 CCAAATCCACCACCAACT
* *
61142983 CCAAATCCTCCCCCAACT
1 CCAAATCCACCACCAACT
*
61143001 CCACCA-CCACCACCAA
1 CCA-AATCCACCACCAA
61143017 ACCCTCCTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.56, G:0.00, T:0.10
Consensus pattern (18 bp):
CCAAATCCACCACCAACT
Found at i:61143006 original size:30 final size:30
Alignment explanation
Indices: 61142965--61143033 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
61142955 TCCACCTTTG
* * *
61142965 CCAAATCCACCACCAACTCCAAATCCTCCC
1 CCAACTCCACCACCAACACCAAACCCTCCC
* *
61142995 CCAACTCCACCACCACCACCAAACCCTCCT
1 CCAACTCCACCACCAACACCAAACCCTCCC
*
61143025 CCACCTCCA
1 CCAACTCCA
61143034 AAACCTCCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.30, C:0.58, G:0.00, T:0.12
Consensus pattern (30 bp):
CCAACTCCACCACCAACACCAAACCCTCCC
Found at i:61143028 original size:18 final size:18
Alignment explanation
Indices: 61143004--61143051 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
61142994 CCCAACTCCA
*
61143004 CCACCACCACCAAACCCT
1 CCACCACCACCAAAACCT
* *
61143022 CCTCCACCTCCAAAACCT
1 CCACCACCACCAAAACCT
*
61143040 CCACCAGCACCA
1 CCACCACCACCA
61143052 CCAACTCCAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.58, G:0.02, T:0.08
Consensus pattern (18 bp):
CCACCACCACCAAAACCT
Found at i:61143044 original size:30 final size:30
Alignment explanation
Indices: 61142983--61143045 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
61142973 ACCACCAACT
* **
61142983 CCAAATCCTCCCCCAACTCCACCACCACCA
1 CCAAACCCTCCCCCAACTCCAAAACCACCA
* * *
61143013 CCAAACCCTCCTCCACCTCCAAAACCTCCA
1 CCAAACCCTCCCCCAACTCCAAAACCACCA
61143043 CCA
1 CCA
61143046 GCACCACCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.59, G:0.00, T:0.11
Consensus pattern (30 bp):
CCAAACCCTCCCCCAACTCCAAAACCACCA
Found at i:61143070 original size:48 final size:47
Alignment explanation
Indices: 61142981--61143123 Score: 143
Period size: 48 Copynumber: 3.1 Consensus size: 47
61142971 CCACCACCAA
* * * * *
61142981 CTCCAAATCCTCCCCCAACTCCACCACCACCACCAAACCCTCCTCCAC
1 CTCCAAA-CCTCCACCAGCACCACCACCTCCACCAAGCCCTCCTCCAC
* *
61143029 CTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCTCCTCCAG
1 CTCC-AAACCTCCACCAGCACCACCACCTCCACCAAGCCCTCCTCCAC
* * *
61143077 CT-----CCTCCTCCAGCACCACCACCTCCACCGAGCCCTACTCCAC
1 CTCCAAACCTCCACCAGCACCACCACCTCCACCAAGCCCTCCTCCAC
61143119 CTCCA
1 CTCCA
61143124 CCACCTGCAC
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
42 37 0.47
48 39 0.49
49 3 0.04
ACGTcount: A:0.25, C:0.58, G:0.04, T:0.13
Consensus pattern (47 bp):
CTCCAAACCTCCACCAGCACCACCACCTCCACCAAGCCCTCCTCCAC
Found at i:61143074 original size:42 final size:42
Alignment explanation
Indices: 61143028--61143117 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
61143018 CCCTCCTCCA
61143028 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
1 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
*** * * *
61143070 CCTCCAGCTCCTCCTCCAGCACCACCACCTCCACCGAGCCCT
1 CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
*
61143112 ACTCCA
1 CCTCCA
61143118 CCTCCACCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.57, G:0.07, T:0.12
Consensus pattern (42 bp):
CCTCCAAAACCTCCACCAGCACCACCAACTCCACCAAGCCCT
Found at i:61143134 original size:42 final size:42
Alignment explanation
Indices: 61143040--61143141 Score: 141
Period size: 42 Copynumber: 2.4 Consensus size: 42
61143030 TCCAAAACCT
* * * *
61143040 CCACCAGCACCACCAACTCCACCAAGCCCTCCTCCAGCTCCT
1 CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
* *
61143082 CCTCCAGCACCACCACCTCCACCGAGCCCTACTCCACCTCCA
1 CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
*
61143124 CCACCTGCACCACCACCT
1 CCACCAGCACCACCACCT
61143142 AATCCGCCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.23, C:0.59, G:0.07, T:0.12
Consensus pattern (42 bp):
CCACCAGCACCACCACCTCCACCAAGCCCTACTCCACCTCCA
Found at i:61143152 original size:30 final size:30
Alignment explanation
Indices: 61143091--61143155 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
61143081 TCCTCCAGCA
* *
61143091 CCACCACCTCCACCGAGCCCTACTCCACCT
1 CCACCACCTCCACCGACCCCTAATCCACCT
* *
61143121 CCACCACCTGCACC-ACCACCTAATCCGCCT
1 CCACCACCTCCACCGACC-CCTAATCCACCT
61143151 CCACC
1 CCACC
61143156 TCCCAGCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.22, C:0.60, G:0.06, T:0.12
Consensus pattern (30 bp):
CCACCACCTCCACCGACCCCTAATCCACCT
Found at i:61143236 original size:60 final size:60
Alignment explanation
Indices: 61143157--61143516 Score: 549
Period size: 60 Copynumber: 6.0 Consensus size: 60
61143147 GCCTCCACCT
* * * * * *
61143157 CCCAGCCCATGGCCACCACCTAGTCCTCCACCCCCTCCTAGTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* * * * *
61143217 CCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCCCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
*
61143277 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* *
61143337 CCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCT
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* *
61143397 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTGCACCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
* * *
61143457 CCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTGCTCCTCCA
1 CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
61143517 AGCTTGTGAC
Statistics
Matches: 274, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 274 1.00
ACGTcount: A:0.20, C:0.57, G:0.10, T:0.13
Consensus pattern (60 bp):
CCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCTCCA
Found at i:61143278 original size:30 final size:30
Alignment explanation
Indices: 61143241--61143516 Score: 111
Period size: 30 Copynumber: 9.2 Consensus size: 30
61143231 CCCACCGAGT
61143241 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
61143271 CCCCCA-C-CCAGCCC-ATGGCCACCGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
*
61143301 CCTCCACCACCACCCACTCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* *
61143331 CCTCCA-C-CCAGCCC-ATGGCCA-CTGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCT-CC-TGCA
61143361 CCTCCACCACCACCCAATCCACCTCCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* * * *
61143391 CCTCC-TC-CCAGCCC-ATGGCCACCGCCAAG-T
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TGCA
* *
61143421 CCTCCACCACCACCCAATCTACCTTCTGCA
1 CCTCCACCACCACCCAATCCACCTCCTGCA
* *
61143451 CCTCCA-C-CCAGCCC-ATGGCCACCGCCAAGTC-
1 CCTCCACCACCA-CCCAAT--CCACCTCC-TG-CA
* *
61143482 CC-CCACCACCGCCCAATCCACCTCCTGCT
1 CCTCCACCACCACCCAATCCACCTCCTGCA
61143511 CCTCCA
1 CCTCCA
61143517 AGCTTGTGAC
Statistics
Matches: 179, Mismatches: 31, Indels: 72
0.63 0.11 0.26
Matches are distributed among these distances:
28 20 0.11
29 24 0.13
30 92 0.51
31 24 0.13
32 19 0.11
ACGTcount: A:0.20, C:0.57, G:0.09, T:0.13
Consensus pattern (30 bp):
CCTCCACCACCACCCAATCCACCTCCTGCA
Found at i:61143374 original size:36 final size:35
Alignment explanation
Indices: 61143324--61143436 Score: 86
Period size: 36 Copynumber: 3.5 Consensus size: 35
61143314 CCACTCCACC
* *
61143324 TCCTGCACCTCCACCCAGCCCATGGCCACTGCCAAG
1 TCCTCCACCACCACCCAGCCCATGGCCAC-GCCAAG
61143360 TCCTCCACCACCACCCA----AT--CCA--CC---
1 TCCTCCACCACCACCCAGCCCATGGCCACGCCAAG
* * *
61143384 TCCTGCACCTCCTCCCAGCCCATGGCCACCGCCAAG
1 TCCTCCACCACCACCCAGCCCATGGCCA-CGCCAAG
61143420 TCCTCCACCACCACCCA
1 TCCTCCACCACCACCCA
61143437 ATCTACCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 24
0.64 0.09 0.27
Matches are distributed among these distances:
24 14 0.25
27 2 0.04
28 2 0.04
30 6 0.11
32 2 0.04
33 2 0.04
36 29 0.51
ACGTcount: A:0.20, C:0.56, G:0.11, T:0.13
Consensus pattern (35 bp):
TCCTCCACCACCACCCAGCCCATGGCCACGCCAAG
Found at i:61143573 original size:120 final size:118
Alignment explanation
Indices: 61143209--61143578 Score: 343
Period size: 120 Copynumber: 3.1 Consensus size: 118
61143199 CCACCTCCTG
* * * * * *
61143209 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * * ** **
61143274 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTG
64 CCTCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
* *
61143329 CACCTCCACCCAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCT
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTG--CCT
* * * * * ** **
61143394 CCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTG
64 CCTCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
*
61143449 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTG-CTCC
1 CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCCTCC
***
61143513 TCCAAGCTTGTGACCACCACCCAA-TCCACCACCTGCACC-CCCAA-CAACACCAACAC
66 TCCAAGCCCATGACCACC-CCCAAGTCCACCA-C--CACCACCCAATC--CACCAACAC
61143569 CACCTCCACC
1 CACCTCCACC
61143579 ACCTAATCCT
Statistics
Matches: 219, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
117 23 0.11
118 6 0.03
119 5 0.02
120 185 0.84
ACGTcount: A:0.22, C:0.56, G:0.09, T:0.12
Consensus pattern (118 bp):
CACCTCCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCCTCC
TCCAAGCCCATGACCACCCCCAAGTCCACCACCACCACCCAATCCACCAACAC
Found at i:61143575 original size:180 final size:178
Alignment explanation
Indices: 61143209--61143579 Score: 435
Period size: 180 Copynumber: 2.1 Consensus size: 178
61143199 CCACCTCCTG
* *
61143209 CACCTCCACCAAGCCCATGGCCCCCACCGAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
* *
61143274 CCACCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCACTCCACCTCCTGCACCTCCACC
66 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCA--
* ** * ** **
61143339 CAGCCCATGGCCACTGCCAAGTCCTCCACCACCACCCAATCCACCTCCTG
129 CAGCCCATGACCACACCCAAGTCCACCACCACCACCCAATCCACCAACAC
* * * * * *
61143389 CACCTCCTCCCAGCCCATGGCCACCGCCAAGTCCTCCACCACCACCCAATCTACCTTCTGCACCT
1 CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
* *
61143454 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCGCCCAATCCACCTCCTGCTCCTCCA-A
66 CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACA
***
61143518 GCTTGTGACCACCACCCAA-TCCACCACCTGCACC-CCCAA-CAACACCAACAC
131 GCCCATGACCA-CACCCAAGTCCACCA-C--CACCACCCAATC--CACCAACAC
61143569 CACCTCCACCA
1 CACCTCCACCA
61143580 CCTAATCCTC
Statistics
Matches: 160, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
177 14 0.09
178 7 0.04
179 5 0.03
180 134 0.84
ACGTcount: A:0.22, C:0.56, G:0.09, T:0.12
Consensus pattern (178 bp):
CACCTCCACCAAGCCCATGGCCACCACCAAGTCCTCCACCACCACCCAATCCACCTCCTGCACCC
CCACCCAGCCCATGGCCACCGCCAAGTCCCCCACCACCACCCAATCCACCTCCTGCACCTCCACA
GCCCATGACCACACCCAAGTCCACCACCACCACCCAATCCACCAACAC
Found at i:61143640 original size:15 final size:15
Alignment explanation
Indices: 61143560--61143659 Score: 62
Period size: 15 Copynumber: 6.5 Consensus size: 15
61143550 CCCCCAACAA
*
61143560 CACCAACACCACCTC
1 CACCACCACCACCTC
*
61143575 CACCACCTAATCCTCCTC
1 CACCACC--A-CCACCTC
61143593 C-CGCACCACCA-C-C
1 CAC-CACCACCACCTC
* *
61143606 CAGGCCTCCACCAACTC
1 CA--CCACCACCACCTC
*
61143623 CACCACCAGCACCTC
1 CACCACCACCACCTC
**
61143638 CACCAAGACCACCTC
1 CACCACCACCACCTC
61143653 CACCACC
1 CACCACC
61143660 TAATCCTCCT
Statistics
Matches: 64, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.03
14 1 0.02
15 42 0.66
16 3 0.05
17 5 0.08
18 11 0.17
ACGTcount: A:0.27, C:0.59, G:0.05, T:0.09
Consensus pattern (15 bp):
CACCACCACCACCTC
Found at i:61143649 original size:24 final size:24
Alignment explanation
Indices: 61143596--61143660 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
61143586 CCTCCTCCCG
*
61143596 CACCACCACCCAG-GCCTCCACCAA
1 CACCACCA-CCAGCACCTCCACCAA
*
61143620 CTCCACCACCAGCACCTCCACCAA
1 CACCACCACCAGCACCTCCACCAA
* * *
61143644 GACCACCTCCACCACCT
1 CACCACCACCAGCACCT
61143661 AATCCTCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.28, C:0.58, G:0.06, T:0.08
Consensus pattern (24 bp):
CACCACCACCAGCACCTCCACCAA
Found at i:61143691 original size:21 final size:21
Alignment explanation
Indices: 61143674--61143783 Score: 97
Period size: 21 Copynumber: 5.4 Consensus size: 21
61143664 CCTCCTCCCG
61143674 CACCACCACCTAGGCCTCCAC
1 CACCACCACCTAGGCCTCCAC
* * *
61143695 CA-C-CC-CCAAGACCTCCTC
1 CACCACCACCTAGGCCTCCAC
*
61143713 CACCACCTAATCCT---CCTCCCC
1 CACCACC--A-CCTAGGCCTCCAC
61143734 CACCACCACCTAGGCCTCCAC
1 CACCACCACCTAGGCCTCCAC
* *
61143755 CACCGCCACCTAGCCCTCCAC
1 CACCACCACCTAGGCCTCCAC
61143776 CACCACCA
1 CACCACCA
61143784 AAGCCTCCAC
Statistics
Matches: 71, Mismatches: 9, Indels: 18
0.72 0.09 0.18
Matches are distributed among these distances:
18 15 0.21
19 4 0.06
20 3 0.04
21 47 0.66
24 2 0.03
ACGTcount: A:0.23, C:0.60, G:0.06, T:0.11
Consensus pattern (21 bp):
CACCACCACCTAGGCCTCCAC
Found at i:61143695 original size:18 final size:18
Alignment explanation
Indices: 61143674--61143795 Score: 82
Period size: 18 Copynumber: 6.3 Consensus size: 18
61143664 CCTCCTCCCG
61143674 CACCACCACCTAGGCCTC
1 CACCACCACCTAGGCCTC
* * *
61143692 CACCACCCCCAAGACCTC
1 CACCACCACCTAGGCCTC
* **
61143710 CTCCACCACCTAATCCTCCTCCCC
1 CACCACCACCT-A--GGCCT---C
61143734 CACCACCACCTAGGCCTC
1 CACCACCACCTAGGCCTC
*
61143752 CACCACCGCCACCTAGCCCTC
1 CACCA---CCACCTAGGCCTC
* *
61143773 CACCACCACCAAAGCCTC
1 CACCACCACCTAGGCCTC
61143791 CACCA
1 CACCA
61143796 GCAGCCCCAC
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
18 44 0.55
19 1 0.01
21 23 0.29
23 1 0.01
24 11 0.14
ACGTcount: A:0.24, C:0.59, G:0.07, T:0.11
Consensus pattern (18 bp):
CACCACCACCTAGGCCTC
Found at i:61143737 original size:78 final size:78
Alignment explanation
Indices: 61143560--61143719 Score: 230
Period size: 78 Copynumber: 2.1 Consensus size: 78
61143550 CCCCCAACAA
* *
61143560 CACCAACACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACTCCA
1 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
* * *
61143625 CCACCAGCACCTC
66 ACACCACCACCAC
* *
61143638 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCCCCA
1 CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
* * *
61143703 AGACCTCCTCCAC
66 ACACCACCACCAC
61143716 CACC
1 CACC
61143720 TAATCCTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.25, C:0.59, G:0.06, T:0.11
Consensus pattern (78 bp):
CACCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCCAGGCCTCCACCAACCCCA
ACACCACCACCAC
Found at i:61143763 original size:24 final size:24
Alignment explanation
Indices: 61143712--61143783 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
61143702 AAGACCTCCT
** * *
61143712 CCACCACCTAATCCTCCTCCCCCA
1 CCACCACCTAGCCCTCCACCACCA
*
61143736 CCACCACCTAGGCCT---CCACCA
1 CCACCACCTAGCCCTCCACCACCA
*
61143757 CCGCCACCTAGCCCTCCACCACCA
1 CCACCACCTAGCCCTCCACCACCA
61143781 CCA
1 CCA
61143784 AAGCCTCCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 18 0.46
24 21 0.54
ACGTcount: A:0.22, C:0.61, G:0.06, T:0.11
Consensus pattern (24 bp):
CCACCACCTAGCCCTCCACCACCA
Found at i:61143779 original size:60 final size:60
Alignment explanation
Indices: 61143640--61143758 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
61143630 AGCACCTCCA
* *
61143640 CCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
61143700 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
1 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACC
61143759 GCCACCTAGC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.23, C:0.59, G:0.06, T:0.13
Consensus pattern (60 bp):
CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCC
Found at i:61143791 original size:60 final size:59
Alignment explanation
Indices: 61143640--61143791 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 59
61143630 AGCACCTCCA
* * ** *
61143640 CCAAGACCACCTCCACCACCTAATCCTCCTCCCGCACCACCACCTAGGCCTCCACCACCC
1 CCAAGACCTCCACCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCACCC
* **
61143700 CCAAGACCTCCTCCACCACCTAATCCTCCTCCCCCACCACCACCTAGGCCTCCACCACCGCC
1 CCAAGACCTCCACCACCACCTAA-CAGCCTCCCCCACCACCACCTAGGCCTCCACCA-C-CC
* *
61143762 ACCTAGCCCTCCACCACCACC-AA-AGCCTCC
1 -CCAAGACCTCCACCACCACCTAACAGCCTCC
61143792 ACCAGCAGCC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
60 60 0.73
61 1 0.01
62 4 0.05
63 17 0.21
ACGTcount: A:0.23, C:0.59, G:0.07, T:0.12
Consensus pattern (59 bp):
CCAAGACCTCCACCACCACCTAACAGCCTCCCCCACCACCACCTAGGCCTCCACCACCC
Found at i:61143849 original size:12 final size:12
Alignment explanation
Indices: 61143834--61143868 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
61143824 CAATACCTCC
61143834 ACCACCACCAAA
1 ACCACCACCAAA
* *
61143846 ACCACCACCTAG
1 ACCACCACCAAA
61143858 ACCACCACCAA
1 ACCACCACCAA
61143869 TGCCATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.43, C:0.51, G:0.03, T:0.03
Consensus pattern (12 bp):
ACCACCACCAAA
Found at i:61145930 original size:2 final size:2
Alignment explanation
Indices: 61145923--61145955 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61145913 TGGTATGGAG
61145923 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61145956 AAAGATACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61147934 original size:42 final size:42
Alignment explanation
Indices: 61147826--61147938 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
61147816 AACGTATAGA
* * *
61147826 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCC-ATGTCCCAGACATGGTCTTATATGAAATCAAATATCG
* *
61147869 ATGCCACTGTCCCAGACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTATATGAAATCAAATATCG
*
61147911 ATGCCGATGTCCCAAACATGGTCTTATA
1 ATGCC-ATGTCCCAGACATGGTCTTATA
61147939 CATAAAATAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTATATGAAATCAAATATCG
Found at i:61150969 original size:12 final size:12
Alignment explanation
Indices: 61150950--61150991 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
61150940 TCCTACACGT
61150950 CCGTGTGCTAGA
1 CCGTGTGCTAGA
* *
61150962 CTGTGTGCTAGG
1 CCGTGTGCTAGA
*
61150974 CCGTGTGCTAGG
1 CCGTGTGCTAGA
61150986 CCGTGT
1 CCGTGT
61150992 AACTCACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGA
Found at i:61151624 original size:40 final size:40
Alignment explanation
Indices: 61151509--61151738 Score: 173
Period size: 40 Copynumber: 5.8 Consensus size: 40
61151499 AGGGTTACCA
* ** *
61151509 AAGTACAAACAGCGGCACGTATGTAAACTT-AGGGGTACTA-
1 AAGTACAAACAGGGGCACGTATGTGCA-TTCAAGGGTAC-AG
* * * * *
61151549 AAGTATAAATAGGGGCAC-TATGTGTATTTAGGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * *
61151588 AAGTAGAAACAGGGACACGCATGTGCATTCAAGGGTATC-G
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTA-CAG
* * * * *
61151628 AAGTACAAATAGGGGTACGTAGGTGCATTTAGGGGTACAG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
* * * *
61151668 AAGTACAAACAGGGGCACATATATGTATTCAAGGGTACTG
1 AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
** *
61151708 AAGTACAAACAGGGGCATATATGTGCTTTCA
1 AAGTACAAACAGGGGCACGTATGTGCATTCA
61151739 TACAATAATT
Statistics
Matches: 152, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
38 2 0.01
39 29 0.19
40 121 0.80
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (40 bp):
AAGTACAAACAGGGGCACGTATGTGCATTCAAGGGTACAG
Found at i:61151678 original size:80 final size:79
Alignment explanation
Indices: 61151541--61151724 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 79
61151531 GTAAACTTAG
* * * * *
61151541 GGGTACTAAAGTATAAATAGGGGCACTATGTGTATTTAGGGGTATCGAAGTAGAAACAGGGACAC
1 GGGTACTGAAGTACAAATAGGGGCACTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACAC
* *
61151606 GCATGTGCATTCAA
66 ACATATGCATTCAA
* *
61151620 GGGTA-TCGAAGTACAAATAGGGGTACGTAGGTGCATTTAGGGGTA-CAGAAGTACAAACAGGGG
1 GGGTACT-GAAGTACAAATAGGGGCAC-TAGGTGCATTTAGGGGTATC-GAAGTACAAACAGGGA
* *
61151683 CACATATATGTATTCAA
63 CACACATATGCATTCAA
*
61151700 GGGTACTGAAGTACAAACAGGGGCA
1 GGGTACTGAAGTACAAATAGGGGCA
61151725 TATATGTGCT
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 22 0.25
80 64 0.73
81 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (79 bp):
GGGTACTGAAGTACAAATAGGGGCACTAGGTGCATTTAGGGGTATCGAAGTACAAACAGGGACAC
ACATATGCATTCAA
Found at i:61156883 original size:27 final size:27
Alignment explanation
Indices: 61156853--61156944 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
61156843 ATTATCAAAG
* * *
61156853 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
61156880 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTT
*
61156907 TACCC-CTAATTTACAAAATTACCGTTT
1 TACCCTC-GATTTACAAAATTACCGTTT
61156934 TACCCTCGATT
1 TACCCTCGATT
61156945 GTGAAATTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGTTT
Found at i:61156898 original size:54 final size:54
Alignment explanation
Indices: 61156826--61156944 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 54
61156816 ATTACTGAAA
* ** * * * * *
61156826 TACCCTCGACTTGTAAAATTATCAAAGTA-CCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCAAAGTACCCCT-AATTTACAAAATTACCGTTT
***
61156880 TACCCTCGATTTACAAAATTACCATTTTACCCCTAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCAAAGTACCCCTAATTTACAAAATTACCGTTT
61156934 TACCCTCGATT
1 TACCCTCGATT
61156945 GTGAAATTAC
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 49 0.92
55 4 0.08
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAGTACCCCTAATTTACAAAATTACCGTTT
Found at i:61157006 original size:27 final size:27
Alignment explanation
Indices: 61156976--61157073 Score: 92
Period size: 27 Copynumber: 3.6 Consensus size: 27
61156966 TGTAGGATAG
**
61156976 AATTACCAAAATACCACT-GGTTTG-AGA
1 AATTACCAAAATACC-CTCAATTTGTA-A
*
61157003 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
** **
61157030 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTCAATTTGTAA
*
61157057 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
61157074 TGACTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 57 0.95
28 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:61157228 original size:27 final size:27
Alignment explanation
Indices: 61157198--61157249 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
61157188 TAGGTAAAAA
61157198 GACCATAA-AGCCCTTGTAGGGTAAAGT
1 GACCATAATA-CCCTTGTAGGGTAAAGT
* *
61157225 GACCGTAATACCCTTGTATGGTAAA
1 GACCATAATACCCTTGTAGGGTAAA
61157250 ATGATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GACCATAATACCCTTGTAGGGTAAAGT
Found at i:61159691 original size:27 final size:27
Alignment explanation
Indices: 61159644--61159830 Score: 241
Period size: 27 Copynumber: 7.0 Consensus size: 27
61159634 ATATATACAT
* * * *
61159644 CACAT-AGGGTAAAACATTCATCTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
61159670 CAAATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* * *
61159697 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
*
61159724 CACATAAGGGAAAAATAGTCATCTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
61159751 CACATAAGGGAAAAATAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
61159778 CACATAATGGAAAAACAGTCATTTTAC
1 CACATAAGGGAAAAATAGTCATTTTAC
* *
61159805 CACATAAGGGCAAAATGGTCATTTTA
1 CACATAAGGGAAAAATAGTCATTTTA
61159831 TCAATTAGGG
Statistics
Matches: 142, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 4 0.03
27 138 0.97
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGAAAAATAGTCATTTTAC
Found at i:61159796 original size:81 final size:81
Alignment explanation
Indices: 61159644--61159826 Score: 269
Period size: 81 Copynumber: 2.3 Consensus size: 81
61159634 ATATATACAT
* * * * * *
61159644 CACAT-AGGGTAAAACATTCATCTTACCAAATAAGGGCAAAATAGTCATTTTACCATATAAGGGC
1 CACATAAGGGAAAAATAGTCATCTTACCAAATAAGGGAAAAATAGTCATTTTACCACATAAGGGA
61159708 AAAACAGTCATTTTAC
66 AAAACAGTCATTTTAC
* *
61159724 CACATAAGGGAAAAATAGTCATCTTACCACATAAGGGAAAAATAGTCATTTTACCACATAATGGA
1 CACATAAGGGAAAAATAGTCATCTTACCAAATAAGGGAAAAATAGTCATTTTACCACATAAGGGA
61159789 AAAACAGTCATTTTAC
66 AAAACAGTCATTTTAC
* *
61159805 CACATAAGGGCAAAATGGTCAT
1 CACATAAGGGAAAAATAGTCAT
61159827 TTTATCAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 5 0.05
81 87 0.95
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (81 bp):
CACATAAGGGAAAAATAGTCATCTTACCAAATAAGGGAAAAATAGTCATTTTACCACATAAGGGA
AAAACAGTCATTTTAC
Found at i:61161328 original size:93 final size:93
Alignment explanation
Indices: 61161169--61161340 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
61161159 CGCCCATAAG
*
61161169 CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
61161234 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
61161262 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
61161326 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
61161341 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:61161337 original size:46 final size:46
Alignment explanation
Indices: 61161162--61161337 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
61161152 TGTAACCCGC
* * *
61161162 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * *
61161208 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
61161258 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
61161301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
61161338 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 59 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:61161356 original size:46 final size:45
Alignment explanation
Indices: 61161170--61161357 Score: 145
Period size: 46 Copynumber: 4.1 Consensus size: 45
61161160 GCCCATAAGC
* * * * * *
61161170 GAACTCGGACTCAACTCAACAAGCTCAGGCATTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGCATGCTCAACCATTAGT
*
61161216 GAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGCATGCTC-A---ACCAT-T-AGT
* * *
61161263 GAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG-CATGCT-CAACCATTAGT
61161309 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGCATGCTCAACCAT--TAGT
61161355 GAA
1 GAA
61161358 ATGTCACTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 4 0.04
46 61 0.54
47 31 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGCATGCTCAACCATTAGT
Found at i:61165761 original size:27 final size:27
Alignment explanation
Indices: 61165721--61165831 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
61165711 AGGAAGCATC
* * *
61165721 CTGGTAGCTATGCCCCAATTATCTGA-T
1 CTGGTGGCTCTGCCACAATTATCT-ATT
61165748 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTATT
61165775 CTGGTGGCTCTGCCACAATTATCTATT
1 CTGGTGGCTCTGCCACAATTATCTATT
* * * *
61165802 CTGGTGACTCTGTCAC-ATTATTTGTT
1 CTGGTGGCTCTGCCACAATTATCTATT
61165828 CTGG
1 CTGG
61165832 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.20
27 57 0.77
28 2 0.03
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTATT
Found at i:61168647 original size:20 final size:20
Alignment explanation
Indices: 61168622--61168687 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
61168612 CTTATATACA
*
61168622 CAGGGGCACGTATGTGCACT
1 CAGGGGCACGTATGTGCAAT
* ** * * *
61168642 CAGGGGTACCAAAGTGTAAA
1 CAGGGGCACGTATGTGCAAT
*
61168662 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCAAT
61168682 CAGGGG
1 CAGGGG
61168688 TACCGAGGTA
Statistics
Matches: 32, Mismatches: 14, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.26, C:0.20, G:0.36, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:61168703 original size:40 final size:40
Alignment explanation
Indices: 61168621--61168724 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 40
61168611 GCTTATATAC
* **
61168621 ACAGGGGCACGTATGTGCACTCAGGGGTACCAAAGTGTAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
* *
61168661 ACAGGGGCACGTATGTGCATTCAGGGGTACCGAGGTACAA
1 ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
** *
61168701 ACAAAGGCACGCATGTGCATTCAG
1 ACAGGGGCACGTATGTGCATTCAG
61168725 ACAATAATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.30, C:0.21, G:0.32, T:0.17
Consensus pattern (40 bp):
ACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAA
Found at i:61172298 original size:24 final size:24
Alignment explanation
Indices: 61172264--61172314 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
61172254 ACAAACGCAA
*
61172264 CTCTTCATGAG-TGTCCTGATATAGG
1 CTCTTCATGAGCT-TCCTGACAT-GG
61172289 CTCTT-ATGAGCTTCCTGACATGG
1 CTCTTCATGAGCTTCCTGACATGG
61172312 CTC
1 CTC
61172315 ACTTGAACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 13 0.54
25 6 0.25
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (24 bp):
CTCTTCATGAGCTTCCTGACATGG
Found at i:61174879 original size:45 final size:45
Alignment explanation
Indices: 61174817--61174985 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
61174807 ACATATCCAT
61174817 GCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTACATCTCG-AG
* * **
61174863 GCTGATGCATGTCCCAGACATGTCGTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAAC-TACATCTCGAG
* * * * *
61174909 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACT-ACATCTCGAG
* *
61174955 GCCAATGCCATGTCCCAAACATGGTCTTACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACA
61174986 ATAGCTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
44 10 0.10
45 16 0.15
46 57 0.55
47 13 0.12
48 8 0.08
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTACATCTCGAG
Found at i:61182551 original size:46 final size:46
Alignment explanation
Indices: 61182333--61182554 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
61182323 GTAAGGTGCA
* * *
61182333 AATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATATCGTGGCC
* * *
61182379 AATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCGTGGCC
* * * * * **
61182425 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-GTT
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATC-GTGGCC
* *
61182471 GATGCCGTGTCCCAGACATGGTCTTACACTAGCTCACATAAT-GTGGCC
1 AATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACAT-ATCGTGGCC
61182519 AATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 AATGCATGTCCCAGACATGTCTTACACTAGCTCACA
61182555 CAAGTGACCC
Statistics
Matches: 148, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 74 0.50
47 27 0.18
48 21 0.14
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
AATGCATGTCCCAGACATGTCTTACACTAGCTCACATATCGTGGCC
Found at i:61184695 original size:48 final size:46
Alignment explanation
Indices: 61184564--61184741 Score: 144
Period size: 48 Copynumber: 3.7 Consensus size: 46
61184554 TTAGGGGATA
* * * *
61184564 CATTGATTTGGATTCGGGCCATGATATTATCTCTTCGAGTGTG-AGTT
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTC-AG-GTGCAGTT
* * ** *
61184611 ACATAGATTTAGCTTCAGGCCATGATATCGGTACTTCAGGTGCAAGCTT
1 -CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* * *
61184660 TATTGATTTGGCTTCAGGCCATGATATTAGCACTTCGGGTGCGAGATA
1 CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGC-AG-TT
* *
61184708 CATTGAGTAGGCTTCAGGCCATGAT-TTGAGCACT
1 CATTGATTTGGCTTCAGGCCATGATATT-AGCACT
61184742 CAATGTGTGA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 3 0.03
47 4 0.04
48 95 0.91
49 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (46 bp):
CATTGATTTGGCTTCAGGCCATGATATTAGCACTTCAGGTGCAGTT
Found at i:61193006 original size:43 final size:43
Alignment explanation
Indices: 61192902--61193008 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
61192892 AACCCAGCTT
* * * *
61192902 TGGTCTTACACGA-ACTCAAATAACGATGTCAATGTCCTACAAA
1 TGGTCTTACAC-ATAATCACATAACGATGCCAATGTCCCACAAA
* * *
61192945 TGGCCTTACACATAATCACATAATGATGCCAATGTCCCAGAAA
1 TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
61192988 TGGTCTTACACATAATCACAT
1 TGGTCTTACACATAATCACAT
61193009 CTCATTACTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.26
Consensus pattern (43 bp):
TGGTCTTACACATAATCACATAACGATGCCAATGTCCCACAAA
Found at i:61195720 original size:86 final size:85
Alignment explanation
Indices: 61195572--61195742 Score: 288
Period size: 86 Copynumber: 2.0 Consensus size: 85
61195562 AAATTGACTC
* * *
61195572 ACACTGAGTTCATTTTGTTTGCAATTCATTATCAAGTTTTTGAGCTTCACAGATCTGTTGTATAA
1 ACACTGAGTTCATTTTGTTTACAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
*
61195637 ACAACGGTCTCGCTTTCCACT
66 ACAACGGTCTAGC-TTCCACT
*
61195658 ACACTGAGTTCATTTTGTTTACAATTCATTATCAAGTTTTTGAGCTTCATAGACCTGCTGTATAA
1 ACACTGAGTTCATTTTGTTTACAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
61195723 ACAACGGTCTAGCTTCCACT
66 ACAACGGTCTAGCTTCCACT
61195743 CAGCTACTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
85 7 0.09
86 73 0.91
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (85 bp):
ACACTGAGTTCATTTTGTTTACAATTCATTATCAAGTTTTTGAGCTTCACAGACCTGCTGTATAA
ACAACGGTCTAGCTTCCACT
Found at i:61198553 original size:46 final size:46
Alignment explanation
Indices: 61198484--61198661 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
61198474 TGTAACCCGC
*
61198484 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* * *
61198530 CCATAAGTGAACTCGGACCCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * * ** *
61198576 ACATCTCTCTAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
*
61198623 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
61198662 CCCAAACATC
Statistics
Matches: 106, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
46 72 0.68
47 34 0.32
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:61198605 original size:93 final size:93
Alignment explanation
Indices: 61198493--61198663 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
61198483 CCCATAAGTG
***
61198493 AACTCGGACTCAACTCAACGAGCTCGGGTGTTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
61198558 GAGCTCGGATGCCTAGTTACATCTCTCT
66 GAGCTCGGATGCCTAGTTACATCTCTCT
* * *
61198586 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
*
61198651 GAGTTCGGATGCC
66 GAGCTCGGATGCC
61198664 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTCGGACCCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCT
Found at i:61201731 original size:76 final size:76
Alignment explanation
Indices: 61201576--61201724 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
61201566 CTTATCATAT
*
61201576 GGAAACAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
61201641 TCCCTTGAACG
66 TCCCTTGAACG
*
61201652 GGAAAAAGGCTTGTTTAACCTCTTTCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
1 GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
61201717 TCCCTTGA
66 TCCCTTGA
61201725 GTGGGAACTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (76 bp):
GGAAAAAGGCTTGTTTAACCTCTTCCTCGTGACCATTCTCATGGGTCTAGATTCAATAGGCGTTG
TCCCTTGAACG
Found at i:61203522 original size:43 final size:43
Alignment explanation
Indices: 61203475--61203625 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
61203465 TAGCCTAGCT
* * * *
61203475 ATGGTCTTACACAAAATCAAAGAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
* * *
61203518 ATGGTCTTACACGTAACCACATAGTGATGCCAATGTCCCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
** * *
61203561 ATGGTCTTACACGCACTCACATAATGATGCCAATGTCTCAGAC
1 ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
61203604 ATGGTCTTACACATAATCACAT
1 ATGGTCTTACACATAATCACAT
61203626 CTCGTTAATC
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 93 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAATGATGCCAATGTCCCAGAC
Found at i:61212984 original size:27 final size:27
Alignment explanation
Indices: 61212947--61213020 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
61212937 AGGGCAAAAT
** *
61212947 AGTCATTTTACCTTACAGGGGTATGTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
61212974 GGTCATTTTACAATACAAGGGTATTTC
1 AGTCATTTTACAATACAAGGGTATGTC
* *
61213001 AGTAATTTTACACTACAAGG
1 AGTCATTTTACAATACAAGG
61213021 ATATTTCGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (27 bp):
AGTCATTTTACAATACAAGGGTATGTC
Found at i:61213025 original size:27 final size:27
Alignment explanation
Indices: 61212978--61213040 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
61212968 TATGTCGGTC
*
61212978 ATTTTACAATACAAGGGTATTTC-AGTA
1 ATTTTACAATACAAGGATATTTCGA-TA
*
61213005 ATTTTACACTACAAGGATATTTCGATA
1 ATTTTACAATACAAGGATATTTCGATA
61213032 ATTTTACAA
1 ATTTTACAA
61213041 ATTAGGGGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (27 bp):
ATTTTACAATACAAGGATATTTCGATA
Found at i:61213036 original size:54 final size:54
Alignment explanation
Indices: 61212978--61213292 Score: 182
Period size: 54 Copynumber: 5.7 Consensus size: 54
61212968 TATGTCGGTC
* *
61212978 ATTTTACAATA-CAAGGGTATTTCAGTAATTTTAC-ACTACAAGGATATTTCGATA
1 ATTTTACAATAGCAAGGGTATTTCAGTAATTTTACAAAT-CGAGG-TATTTCGATA
* * *
61213032 ATTTTACAAATTAGGGGTCTCAAGGGTATTTTAATAATTATACAAATCGAGGGTATTTCGATA
1 ATTTTAC-AA-TA---G---CAAGGGTATTTCAGTAATTTTACAAATCGA-GGTATTTCGATA
* * * * *
61213095 ATTTTACAA-ATCGAGGGTGTTTCGGTAATTTTACAAATCGAGCGTATTTCGGTA
1 ATTTTACAATAGCAAGGGTATTTCAGTAATTTTACAAATCGAG-GTATTTCGATA
* * * *
61213149 ATTTTACAAT--CGAGGGTGTTTCAGTAATTTTACAAATAGAGGTTATTT-TAGTA
1 ATTTTACAATAGCAAGGGTATTTCAGTAATTTTACAAATCGAGG-TATTTCGA-TA
* * * * * * *
61213202 AATTTGCAA-A-CTGAGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCAATA
1 ATTTTACAATAGC-AAGGGTATTTCAGTAATTTTACAAA-TCGAGGTATTTCGATA
* * **
61213256 ATTTTATAA-ATCGGGGGTATTTC-GATAATTTTACAAA
1 ATTTTACAATAGCAAGGGTATTTCAG-TAATTTTACAAA
61213293 CCGGGGGTAT
Statistics
Matches: 212, Mismatches: 28, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
52 1 0.00
53 46 0.22
54 109 0.51
55 8 0.04
56 2 0.01
60 1 0.00
62 2 0.01
63 39 0.18
64 4 0.02
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
ATTTTACAATAGCAAGGGTATTTCAGTAATTTTACAAATCGAGGTATTTCGATA
Found at i:61213084 original size:27 final size:27
Alignment explanation
Indices: 61213054--61213313 Score: 260
Period size: 27 Copynumber: 9.7 Consensus size: 27
61213044 AGGGGTCTCA
* * *
61213054 AGGGTATTTTAATAATTATACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
61213081 AGGGTATTTC-GATAATTTTACAAATCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
61213108 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61213135 AGCGTATTTCGGTAATTTTAC-AATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61213161 AGGGTGTTTCAGTAATTTTACAAATAG
1 AGGGTATTTCAGTAATTTTACAAATCG
* * * *
61213188 AGGTTATTTTAGTAAATTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
*
61213215 AGGGTATTTCGGTAATTTTACAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
* * *
61213242 GGGGTATTTCAATAATTTTATAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
61213269 GGGGTATTTC-GATAATTTTACAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* *
61213296 GGGGTATTTTAGTAATTT
1 AGGGTATTTCAGTAATTT
61213314 CTCTTTATTA
Statistics
Matches: 197, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.12
27 171 0.87
28 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:61213178 original size:80 final size:80
Alignment explanation
Indices: 61213066--61213293 Score: 262
Period size: 80 Copynumber: 2.8 Consensus size: 80
61213056 GGTATTTTAA
* *
61213066 TAATTATACAAATCGAGGGTATTTC-GATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACA
1 TAATTTTAC-AATCGAGGGTATTTCAG-TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACA
61213130 AA-TCGAGCGTATTTCGG
64 AACT-GAGCGTATTTCGG
* * * ** * *
61213147 TAATTTTACAATCGAGGGTGTTTCAGTAATTTTACAAATAGAGGTTATTTTAGTAAATTTGCAAA
1 TAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAA
*
61213212 CTGAGGGTATTTCGG
66 CTGAGCGTATTTCGG
* * * * * *
61213227 TAATTTTACAAACTGGGGGTATTTCAATAATTTTATAAATCGGGGGTATTTCGATAATTTTACAA
1 TAATTTTACAATC-GAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAA
61213292 AC
65 AC
61213294 CGGGGGTATT
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 70 0.58
81 51 0.42
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (80 bp):
TAATTTTACAATCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAA
CTGAGCGTATTTCGG
Found at i:61213313 original size:107 final size:105
Alignment explanation
Indices: 61213054--61213313 Score: 274
Period size: 107 Copynumber: 2.4 Consensus size: 105
61213044 AGGGGTCTCA
* * * *
61213054 AGGGTATTTTAATAATTATACAAATCGAGGGTA-TTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTA-TTTCATAATTTTACAAATCGAGGGTATTTTAG-TAA-TTTACAAATCGAGGGTATTTC
** *
61213118 GGTAATTTTACAAATCGAGCGTATTTCGGTAATTTTACAATCG
63 GGTAATTTTACAAATCGAGCGTATTTCAATAATTTTAAAATCG
* * * *
61213161 AGGGTGTTTCAGTAATTTTACAAATAGAGGTTATTTTAGTAAATTTGCAAA-CTGAGGGTATTTC
1 AGGGTATTTCA-TAATTTTACAAATCGAGGGTATTTTAGT-AATTTACAAATC-GAGGGTATTTC
* *
61213225 GGTAATTTTACAAA-CTGGGGGTATTTCAATAATTTTATAAATCG
63 GGTAATTTTACAAATC-GAGCGTATTTCAATAATTTTA-AAATCG
* * *
61213269 GGGGTATTTCGATAATTTTACAAACCGGGGGTATTTTAGTAATTT
1 AGGGTATTTC-ATAATTTTACAAATCGAGGGTATTTTAGTAATTT
61213314 CTCTTTATTA
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
106 6 0.05
107 77 0.61
108 43 0.34
109 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (105 bp):
AGGGTATTTCATAATTTTACAAATCGAGGGTATTTTAGTAATTTACAAATCGAGGGTATTTCGGT
AATTTTACAAATCGAGCGTATTTCAATAATTTTAAAATCG
Found at i:61213667 original size:28 final size:28
Alignment explanation
Indices: 61213630--61213693 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
61213620 TGGCCCCTTT
61213630 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
* *
61213658 AGGCCCAATCTTGTTCATATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
61213686 AGGCCCAA
1 AGGCCCAA
61213694 CAACTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:61240638 original size:16 final size:17
Alignment explanation
Indices: 61240617--61240651 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
61240607 GCAGCAACAT
61240617 CAGCCC-CAACTCTGAC
1 CAGCCCACAACTCTGAC
61240633 CAGCCCATCAACTCTGAC
1 CAGCCCA-CAACTCTGAC
61240651 C
1 C
61240652 TTTTTCTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.26, C:0.49, G:0.11, T:0.14
Consensus pattern (17 bp):
CAGCCCACAACTCTGAC
Found at i:61243497 original size:46 final size:45
Alignment explanation
Indices: 61243439--61243610 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
61243429 TGGGCATCCA
61243439 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA-GTCCG
* * * *
61243485 AACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A-G--TCCG
* *
61243532 AACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAAGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AAAGTCCG
*
61243578 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61243611 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.55
47 28 0.26
48 3 0.03
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAGTCCG
Found at i:61243590 original size:93 final size:93
Alignment explanation
Indices: 61243431--61243602 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
61243421 GGGATATTTG
* * *
61243431 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
61243496 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
61243524 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAAA-GCCCGAGCTCGTTGA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-AAATGCCCGAACTCGTTGA
61243588 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
61243603 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 70 0.96
94 3 0.04
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61246546 original size:15 final size:15
Alignment explanation
Indices: 61246526--61246594 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
61246516 GTATCTTGGG
61246526 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
61246541 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
61246556 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
61246571 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
61246586 TTTCTTTAT
1 TTTCTTTAT
61246595 TCGGTTTCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:61246595 original size:30 final size:30
Alignment explanation
Indices: 61246517--61246603 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
61246507 CATAGTATCG
* * * * *
61246517 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
61246547 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
61246577 TATCTTGGATTTCTTTATTC--GGTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
61246604 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.14
29 1 0.02
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:61249028 original size:46 final size:46
Alignment explanation
Indices: 61248975--61249150 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
61248965 TATTTGGGCA
*
61248975 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
61249021 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
61249068 TCTGAATTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
61249114 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
61249151 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:61249087 original size:93 final size:93
Alignment explanation
Indices: 61248971--61249142 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
61248961 GGGATATTTG
* * *
61248971 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61249036 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
61249064 GGCATCTGAATTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
61249129 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
61249143 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:61262466 original size:16 final size:15
Alignment explanation
Indices: 61262442--61262471 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61262432 AACTGTTTTA
61262442 TTACAAATTTCACTC
1 TTACAAATTTCACTC
61262457 TTACATAATTTCACT
1 TTACA-AATTTCACT
61262472 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:61269351 original size:16 final size:15
Alignment explanation
Indices: 61269327--61269356 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61269317 AACTGTTTTA
61269327 TTACAAATTTCACTC
1 TTACAAATTTCACTC
61269342 TTACATAATTTCACT
1 TTACA-AATTTCACT
61269357 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:61269631 original size:49 final size:50
Alignment explanation
Indices: 61269568--61269692 Score: 166
Period size: 50 Copynumber: 2.5 Consensus size: 50
61269558 CTGTTACGCA
*
61269568 TAGTAGCCCGCACTTAGTACTACACAT-TCGACC-AACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCTAACAATCTGATACACG
* * *
61269617 TAGTAGCCTACACTTAGTAC-AGAACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTA-CACATGTGACCTAACAATCTGATACACG
*
61269667 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
61269693 CATGATTGAA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
48 1 0.02
49 26 0.40
50 37 0.57
51 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
Found at i:61269766 original size:33 final size:33
Alignment explanation
Indices: 61269724--61269786 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
61269714 TGCATAGTAA
**
61269724 CCTGCACTTAGTACTACACATGTGACCTAATAG
1 CCTGCACTTAGTACTACACACATGACCTAATAG
61269757 CCTGCACTTAGTACTACACACATGACCTAA
1 CCTGCACTTAGTACTACACACATGACCTAA
61269787 AACCATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (33 bp):
CCTGCACTTAGTACTACACACATGACCTAATAG
Found at i:61275677 original size:28 final size:28
Alignment explanation
Indices: 61275644--61275746 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
61275634 ATTGCATGAC
*
61275644 TATGAATGTGATTGGGCCTGACGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
*
61275672 TATGAAAGTGATTGGGCCTGATGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
61275700 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
61275728 TATGAATGAGATTAGGCCT
1 TATGAATGTGATTGGGCCT
61275747 AAATGGGTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCTA
Found at i:61285161 original size:40 final size:40
Alignment explanation
Indices: 61285059--61285292 Score: 258
Period size: 40 Copynumber: 5.8 Consensus size: 40
61285049 TCGAATGATA
* * * *
61285059 TCCGGGCTAACTCCCGAAGGCTTTTGTGCTAGGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAT
* * * *
61285099 AACTGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
61285140 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
61285180 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACCAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
61285220 TCCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
61285259 AACCGAGCTATGTCCCGAAGGCATTTGAGCGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
61285293 AGCTATATCC
Statistics
Matches: 165, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.01
40 138 0.84
41 24 0.15
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:61285224 original size:80 final size:80
Alignment explanation
Indices: 61285058--61285292 Score: 285
Period size: 80 Copynumber: 2.9 Consensus size: 80
61285048 TTCGAATGAT
* * * * * * *
61285058 ATCCGGGCTAACTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAGAT-CCAAAGGCA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCA
*
61285122 TTTGTGCGAGTTACTAA
64 TTTGTGCGAGTTACCAA
* *
61285139 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
*
61285203 TTGTGTGAGTTACCAA
65 TTGTGCGAGTTACCAA
* * * *
61285219 ATCCGGGCTAAGTCCCGAAGGCATTGGTGTGAGTTACTATAACCGAGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
*
61285284 TGAGCGAGT
66 TGTGCGAGT
61285293 AGCTATATCC
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 101 0.77
81 29 0.22
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACCAA
Found at i:61293313 original size:39 final size:40
Alignment explanation
Indices: 61293211--61293361 Score: 200
Period size: 39 Copynumber: 3.8 Consensus size: 40
61293201 TCGAATGATA
* * * *
61293211 TCCGTGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAT
* *
61293251 AACCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
61293292 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
61293331 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
61293362 AGGCATTTGT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
39 40 0.40
40 32 0.32
41 26 0.26
42 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:61293353 original size:79 final size:81
Alignment explanation
Indices: 61293211--61293361 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 81
61293201 TCGAATGATA
* * *
61293211 TCCGTGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTGACTATAACCGGACTAAGATCCGAAGGCATT
61293276 TGTGCGAGTTACTAAT
66 TGTGCGAGTTACTAAT
* * *
61293292 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGA-GTTACTA-ATTCCGGGCTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTGACTATA-ACCGGACTAAGAT-CCGAAGGCA
61293353 TTTGTGCGA
64 TTTGTGCGA
61293362 AGGCATTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 33 0.53
80 16 0.26
81 11 0.18
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGTGACTATAACCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTAAT
Found at i:61293364 original size:14 final size:14
Alignment explanation
Indices: 61293345--61293375 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
61293335 GGCTAAGTCC
61293345 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
61293359 CGAAGGCATTTGTG
1 CGAAGGCATTTGTG
61293373 CGA
1 CGA
61293376 GTTACTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (14 bp):
CGAAGGCATTTGTG
Found at i:61293387 original size:54 final size:54
Alignment explanation
Indices: 61293305--61293415 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
61293295 GGGCTAAGTC
*
61293305 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGACATTTGTG
61293359 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGACATTTGTG
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGACATTTGTG
61293413 CGA
1 CGA
61293416 GTTACCAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (54 bp):
CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGACATTTGTG
Found at i:61293414 original size:40 final size:40
Alignment explanation
Indices: 61293359--61293497 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
61293349 GGCATTTGTG
61293359 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
* * *
61293399 CGAAGACATTTGTGCGAGTTACCAAATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
* * * *
61293439 CGAAGGCATTGGTGCGAGTTACT-ATAACCGAGCTATGTCC
1 CGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGCTAAGTCC
*
61293479 CGAAGGCATTTGAGCGAGT
1 CGAAGGCATTTGTGCGAGT
61293498 AGCTATATCC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
Found at i:61293442 original size:94 final size:93
Alignment explanation
Indices: 61293266--61293455 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 93
61293256 GACTAAGATC
* * *
61293266 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCGAAGACATTTGTGCGAGTTACCAAA
*
61293331 TCCGGGCTAAGTCCCGAAGGCATTTGTG
66 TCCGGGCTAAGTCCCGAAGGCATTGGTG
61293359 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGACATTTGTGCGAGTTACCAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGT-CCGAAGACATTTGTGCGAGTTACCAA
61293424 ATCCGGGCTAAGTCCCGAAGGCATTGGTG
65 ATCCGGGCTAAGTCCCGAAGGCATTGGTG
61293453 CGA
1 CGA
61293456 GTTACTATAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 38 0.41
94 54 0.59
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (93 bp):
CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCGAAGACATTTGTGCGAGTTACCAAA
TCCGGGCTAAGTCCCGAAGGCATTGGTG
Found at i:61299246 original size:18 final size:18
Alignment explanation
Indices: 61299210--61299250 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61299200 AGGCCATTTC
61299210 TGGGCTGTGTGGGCCACA
1 TGGGCTGTGTGGGCCACA
*
61299228 TGGG-TGTGTGGGCTTACA
1 TGGGCTGTGTGGGC-CACA
61299246 TGGGC
1 TGGGC
61299251 CCACATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.17, G:0.46, T:0.27
Consensus pattern (18 bp):
TGGGCTGTGTGGGCCACA
Found at i:61299256 original size:28 final size:28
Alignment explanation
Indices: 61299219--61299279 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
61299209 CTGGGCTGTG
61299219 TGGG-CCACATGGGTGTGTGGGCTTACA
1 TGGGCCCACATGGGTGTGTGGGCTTACA
*
61299246 TGGGCCCACATGGGTGTGTGGGCTTACG
1 TGGGCCCACATGGGTGTGTGGGCTTACA
61299274 TGGGCC
1 TGGGCC
61299280 TAGTTTCACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.11, C:0.21, G:0.43, T:0.25
Consensus pattern (28 bp):
TGGGCCCACATGGGTGTGTGGGCTTACA
Found at i:61302872 original size:29 final size:29
Alignment explanation
Indices: 61302826--61302950 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
61302816 AAAAGCATGT
*
61302826 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
61302855 ATAAGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
61302884 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * * *
61302913 ATATGAATGAGA-TGGGGCGTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
61302941 ATATGCATGT
1 ATATGAATGT
61302951 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 21 0.24
29 66 0.76
ACGTcount: A:0.26, C:0.12, G:0.33, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:61307308 original size:16 final size:15
Alignment explanation
Indices: 61307284--61307313 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61307274 AACTGTTTTA
61307284 TTACAAATTTCACTC
1 TTACAAATTTCACTC
61307299 TTACATAATTTCACT
1 TTACA-AATTTCACT
61307314 TACTCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:61307587 original size:49 final size:50
Alignment explanation
Indices: 61307525--61307649 Score: 175
Period size: 50 Copynumber: 2.5 Consensus size: 50
61307515 CTGTTACGCA
*
61307525 TAGTAGCCCGCACTTAGTACTACACAT-TCGACC-AACAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCTAACAATCTGATACACG
* *
61307574 TAGTAGCCTGCACTTAGTAC-AGAACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTA-CACATGTGACCTAACAATCTGATACACG
*
61307624 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
61307650 CATGATTGAA
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
48 1 0.01
49 27 0.40
50 38 0.57
51 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGATACACG
Found at i:61307723 original size:33 final size:33
Alignment explanation
Indices: 61307681--61307743 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
61307671 TGCATAGTAA
**
61307681 CCTGCACTTAGTACTACACATGTGACCTAATAG
1 CCTGCACTTAGTACTACACACATGACCTAATAG
61307714 CCTGCACTTAGTACTACACACATGACCTAA
1 CCTGCACTTAGTACTACACACATGACCTAA
61307744 AACCATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (33 bp):
CCTGCACTTAGTACTACACACATGACCTAATAG
Found at i:61313520 original size:9 final size:9
Alignment explanation
Indices: 61313500--61313530 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
61313490 TGGCCAATTA
61313500 GGCTAGAATG
1 GGCTA-AATG
61313510 GGCTAAATG
1 GGCTAAATG
61313519 GGCTAAATG
1 GGCTAAATG
61313528 GGC
1 GGC
61313531 CCGTTGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.29, C:0.13, G:0.39, T:0.19
Consensus pattern (9 bp):
GGCTAAATG
Found at i:61313642 original size:28 final size:28
Alignment explanation
Indices: 61313609--61313711 Score: 152
Period size: 28 Copynumber: 3.7 Consensus size: 28
61313599 ATTGCATGAC
*
61313609 TATGAATGTGATTGGGCCTGACGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
*
61313637 TATGAAAGTGATTGGGCCTGATGGGCTA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
61313665 TATGAATGTGATTGGGCCCGATGGGCCA
1 TATGAATGTGATTGGGCCTGATGGGCTA
* *
61313693 TATGAATGAGATTAGGCCT
1 TATGAATGTGATTGGGCCT
61313712 AAATGGGTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 67 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTGATGGGCTA
Found at i:61323804 original size:40 final size:40
Alignment explanation
Indices: 61323660--61323841 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
61323650 TTGAATGATG
* * *
61323660 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
61323699 TCCGGACTAAGAT-CCGAA-GCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
61323738 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61323777 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61323818 -CCGGGCTATGT-CCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61323842 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 9 0.07
39 77 0.63
40 35 0.28
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61323848 original size:79 final size:78
Alignment explanation
Indices: 61323712--61323874 Score: 188
Period size: 79 Copynumber: 2.1 Consensus size: 78
61323702 GGACTAAGAT
* * **
61323712 CCGAA-GCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
61323775 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
* * *
61323790 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCGAAGGCATTTGAACGAGTAGCTA
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTA
* *
61323854 TATCCGGTTAAATT
65 AATCCGGTTAAATC
61323868 CCGAAGG
1 CCGAAGG
61323875 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 23 0.32
79 49 0.68
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:61331661 original size:39 final size:40
Alignment explanation
Indices: 61331567--61331768 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
61331557 TTGAATGATG
*
61331567 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTAC-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTATA
*
61331605 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
* *
61331644 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * *
61331684 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
61331724 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
61331764 TCCGG
1 TCCGG
61331769 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
38 18 0.13
39 49 0.35
40 74 0.52
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:61331771 original size:79 final size:77
Alignment explanation
Indices: 61331568--61331782 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 77
61331558 TGAATGATGT
* * *
61331568 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTAC-ATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTACTATATCCGG-TTAAG-TCCGAAGGCAATTG
*
61331631 TGCGAGATACTAATT
63 TGCGAGATACTAATA
*
61331646 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGTTAAGT-CCGAAGGCAATTG
*
61331710 TGCGAGTTACT-ATAA
63 TGCGAGATACTAAT-A
* ** *
61331725 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGTT-AAGTCCGAAGG
61331783 TACGTGATTT
Statistics
Matches: 117, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
77 11 0.09
78 23 0.20
79 53 0.45
80 30 0.26
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGTTAAGTCCGAAGGCAATTGTGC
GAGATACTAATA
Found at i:61337761 original size:13 final size:13
Alignment explanation
Indices: 61337745--61337775 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
61337735 GCACACGGCA
61337745 ATGGCACATGCCC
1 ATGGCACATGCCC
61337758 ATGGCACATGCCC
1 ATGGCACATGCCC
61337771 ATGGC
1 ATGGC
61337776 CAGAGGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.35, G:0.26, T:0.16
Consensus pattern (13 bp):
ATGGCACATGCCC
Found at i:61344919 original size:13 final size:15
Alignment explanation
Indices: 61344889--61344920 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
61344879 AAAGAAAGGC
61344889 AGATTCAGAGGTAAG
1 AGATTCAGAGGTAAG
61344904 AGATTCA-AGG-AAG
1 AGATTCAGAGGTAAG
61344917 AGAT
1 AGAT
61344921 CGCTGAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 3 0.18
15 7 0.41
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (15 bp):
AGATTCAGAGGTAAG
Found at i:61346685 original size:30 final size:30
Alignment explanation
Indices: 61346640--61346699 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61346630 ATTTAATACG
*
61346640 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
61346670 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
61346700 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:61351063 original size:40 final size:40
Alignment explanation
Indices: 61351002--61351248 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 40
61350992 CGGAATTTAG
* * * *
61351002 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
61351042 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
61351082 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
61351122 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
61351162 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
61351202 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
61351242 CCGGATA
1 CCGGATA
61351249 TCATTCAAAT
Statistics
Matches: 188, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 182 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:61356154 original size:40 final size:41
Alignment explanation
Indices: 61356076--61356295 Score: 182
Period size: 40 Copynumber: 5.5 Consensus size: 41
61356066 CGAATGATAT
* *
61356076 CCGGGCTAAG-TCCGAAGGCTTTTGTGCTAGGTGACTATAA
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACTATAA
* * * *
61356116 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACTATAA
* * * * *
61356156 CCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACTATAA
* * * * * *
61356196 CCGGGCTAAAACCCGAAGGCATTTGTGCTA-GAGATTATAT
1 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACTATAA
* * * * *
61356236 CCGGGCTAAG-TCCCGAAGGCATTTATGCTA-GTGACCACAT
1 CCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGGTGACTATAA
*
61356276 CCGGGCTAAGACCCGAAGGC
1 CCGGGCTAAGATCCGAAGGC
61356296 CTTGTGCAAG
Statistics
Matches: 153, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 133 0.87
41 19 0.12
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (41 bp):
CCGGGCTAAGATCCGAAGGCATTTGTGCGAGGTGACTATAA
Found at i:61356212 original size:80 final size:78
Alignment explanation
Indices: 61356072--61356331 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 78
61356062 TATTCGAATG
* * * * *
61356072 ATATCCGGGCTAAG-TCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
61356136 ATTCGTGCGAGTTGCT
65 ATT-GTGCGAGTTG-T
* * *
61356152 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
61356217 TTTGTGCTAGAGAT-T
66 -TTGTGC--GAGTTGT
* * * * *
61356232 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
61356297 TTGTGCAAGTAGTT
66 TTGTGCGAGTTG-T
61356311 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
61356332 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 21, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
77 2 0.01
78 13 0.09
79 13 0.09
80 101 0.66
81 19 0.12
82 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTGTGCGAGTTGT
Found at i:61356285 original size:120 final size:120
Alignment explanation
Indices: 61356072--61356331 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 120
61356062 TATTCGAATG
** * *
61356072 ATATCCGGGCT-AAGTCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
61356136 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
61356192 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GAGATTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGAT-CCGAAGG
* * *
61356255 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
*
61356311 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAAACCCGAAG
61356332 ATTACTTGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 67 0.56
121 19 0.16
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:61360858 original size:40 final size:40
Alignment explanation
Indices: 61360764--61360988 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
61360754 TATTCGAATG
*
61360764 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
61360805 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
61360845 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * * *
61360885 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTAGAGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
61360925 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
61360965 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
61360989 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:61360944 original size:80 final size:77
Alignment explanation
Indices: 61360764--61361024 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 77
61360754 TATTCGAATG
* * *
61360764 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGG-CTAAGACCCGAAGGC
*
61360829 ATTCGTGC-GAGTTGCT
64 ATTTGTGCAGAG-T--T
* * * *
61360845 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGAGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG-GCTAAGACCCGAAGGCA
61360910 TTTGTGCTAGAGATT
65 TTTGTGC-AGAG-TT
* * *
61360925 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC-GGCTAAGACCCGAAGGCA
*
61360989 CTTGTGCAAGTAGTT
65 TTTGTGC-AG-AGTT
*
61361004 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
61361025 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
78 14 0.09
79 16 0.10
80 88 0.56
81 34 0.22
82 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (77 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCAGAGTT
Found at i:61360981 original size:120 final size:119
Alignment explanation
Indices: 61360764--61361024 Score: 305
Period size: 120 Copynumber: 2.2 Consensus size: 119
61360754 TATTCGAATG
* * *
61360764 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCC-GGCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
61360829 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
65 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * * *
61360885 ATATCCGAGCTAAAACCCGAAGGCATTTGTGCTA-GAGATTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCG-GCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGAT-CCGAAGG
* * *
61360948 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
64 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
61361004 ATATCCGGCTAAATCCCGAAG
1 ATATCCGGCTAAATCCCGAAG
61361025 ATTACTTGAG
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
118 14 0.12
119 20 0.17
120 57 0.47
121 29 0.24
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (119 bp):
ATATCCGGCTAAATCCCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:61370810 original size:24 final size:24
Alignment explanation
Indices: 61370783--61370828 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
61370773 TATAATATGG
* * *
61370783 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
61370807 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
61370829 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:61370890 original size:20 final size:20
Alignment explanation
Indices: 61370865--61370951 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
61370855 ATTCTGATAT
61370865 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61370885 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61370905 AGATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61370925 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61370945 ACATGAT
1 ACATGAT
61370952 GTATTCATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61370892 original size:11 final size:11
Alignment explanation
Indices: 61370876--61370951 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
61370866 CATGATATGT
61370876 ATGATATGCAC
1 ATGATATGCAC
*
61370887 ATGATATG--T
1 ATGATATGCAC
*
61370896 ATGATATGCAG
1 ATGATATGCAC
*
61370907 ATGATATG--T
1 ATGATATGCAC
61370916 ATGATATGCAC
1 ATGATATGCAC
*
61370927 ATGATATG--T
1 ATGATATGCAC
61370936 ATGATATGCAC
1 ATGATATGCAC
61370947 ATGAT
1 ATGAT
61370952 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61370899 original size:9 final size:9
Alignment explanation
Indices: 61370867--61370943 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
61370857 TCTGATATAC
61370867 ATGATATGT
1 ATGATATGT
*
61370876 ATGATATGCAC
1 ATGATATG--T
61370887 ATGATATGT
1 ATGATATGT
*
61370896 ATGATATGCAG
1 ATGATATG--T
61370907 ATGATATGT
1 ATGATATGT
*
61370916 ATGATATGCAC
1 ATGATATG--T
61370927 ATGATATGT
1 ATGATATGT
61370936 ATGATATG
1 ATGATATG
61370944 CACATGATGT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.36
Consensus pattern (9 bp):
ATGATATGT
Found at i:61370965 original size:40 final size:39
Alignment explanation
Indices: 61370865--61370965 Score: 132
Period size: 40 Copynumber: 2.5 Consensus size: 39
61370855 ATTCTGATAT
*
61370865 ACATGATATGTATGATATGCACATGATATGTATGATATGC
1 ACATGA-ATGTATCATATGCACATGATATGTATGATATGC
* *
61370905 AGATGATATGTATGATATGCACATGATATGTATGATATGC
1 ACATGA-ATGTATCATATGCACATGATATGTATGATATGC
61370945 ACATG-ATGTATTCATAATGCA
1 ACATGAATGTA-TCAT-ATGCA
61370966 TTGGGATGGG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 5 0.09
39 3 0.05
40 48 0.86
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (39 bp):
ACATGAATGTATCATATGCACATGATATGTATGATATGC
Found at i:61371068 original size:24 final size:24
Alignment explanation
Indices: 61370998--61371082 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 24
61370988 GAGGAAGTGC
61370998 AAAAAGGGCTTTTGCCCCAGTTTACT
1 AAAAAGGGC-TTTGCCCCAGTTTA-T
*
61371024 AAAAAGGGTTTGTGCCCCAGTTTAT
1 AAAAAGGGCTT-TGCCCCAGTTTAT
*
61371049 CAAAAGGGCTTTGCCCCAG-TTAT
1 AAAAAGGGCTTTGCCCCAGTTTAT
*
61371072 TAAAAGAGGCT
1 AAAAAG-GGCT
61371083 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 12 0.23
26 20 0.38
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAAGGGCTTTGCCCCAGTTTAT
Found at i:61371332 original size:31 final size:31
Alignment explanation
Indices: 61371294--61371353 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
61371284 TATAGTGGAG
*
61371294 GCTTCGGCCCAGTAATATGAAATATGAAAAT
1 GCTTCGGCCCACTAATATGAAATATGAAAAT
**
61371325 GCTTCGGCCCACTGTTATGAAATATGAAA
1 GCTTCGGCCCACTAATATGAAATATGAAA
61371354 TATGAAAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (31 bp):
GCTTCGGCCCACTAATATGAAATATGAAAAT
Found at i:61380332 original size:47 final size:45
Alignment explanation
Indices: 61380263--61380380 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 45
61380253 TGTGTGTGCT
* * *
61380263 AGTGTAAGACATGTCTGAGACATGTATCAACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATG--GCAACCACATTAACGAGAGCC
* * *
61380309 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGGCAACCACATT--AACGAGAGCC
61380357 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
61380381 CATCGGCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
45 8 0.13
46 9 0.15
47 29 0.47
48 16 0.26
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCAACCACATTAACGAGAGCC
Found at i:61380411 original size:46 final size:47
Alignment explanation
Indices: 61380303--61380530 Score: 252
Period size: 46 Copynumber: 4.9 Consensus size: 47
61380293 CCACATTATG
* * *
61380303 AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAAACG-
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGATGT
* *
61380351 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGT
* *
61380398 A-AGCCAATGTAAGACATGTCTGGGACATGCATCGGC-TACGAGATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-TGAGATGT
* * *
61380444 ---GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGGATATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGT
* *
61380488 GAGAGCCAGTGTAATACCATGTCTGGGACATGGCATTGGCATT
1 -AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATT
61380531 ATACCCTATG
Statistics
Matches: 155, Mismatches: 16, Indels: 16
0.83 0.09 0.09
Matches are distributed among these distances:
44 38 0.25
45 2 0.01
46 53 0.34
47 15 0.10
48 24 0.15
49 14 0.09
50 9 0.06
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGT
Found at i:61385400 original size:16 final size:17
Alignment explanation
Indices: 61385369--61385401 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
61385359 GATTAATACA
*
61385369 AAGCAACACTCAAAAAG
1 AAGCAAAACTCAAAAAG
61385386 AAGCAAAAC-CAAAAAG
1 AAGCAAAACTCAAAAAG
61385402 GGAAAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.64, C:0.21, G:0.12, T:0.03
Consensus pattern (17 bp):
AAGCAAAACTCAAAAAG
Found at i:61386912 original size:40 final size:39
Alignment explanation
Indices: 61386854--61386993 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
61386844 ATCGTCACAC
*
61386854 ACTAAGTGACAATACATAGCCGAAGCTATTTTAATCTCCAA
1 ACTAAGTG-CCATACATAGCCGAAGCTATTTTAATCT-CAA
*
61386895 ACTAAGTGCCATACATAGCCGAAGCTATTTTGAATCTCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATTTT-AATCTCAA
* * ** * *
61386935 ACTAAGTGCCATCCATA-CCTAAAGCTATCTCGAATCGCAT
1 ACTAAGTGCCATACATAGCC-GAAGCTAT-TTTAATCTCAA
61386975 ACTAAGTGCCATACATAGC
1 ACTAAGTGCCATACATAGC
61386994 TGTTGTTGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 2 0.02
40 69 0.80
41 15 0.17
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (39 bp):
ACTAAGTGCCATACATAGCCGAAGCTATTTTAATCTCAA
Found at i:61390202 original size:56 final size:56
Alignment explanation
Indices: 61390142--61390278 Score: 204
Period size: 56 Copynumber: 2.4 Consensus size: 56
61390132 TCCCAGACAG
* * * *
61390142 GGTCTTACTCGAACACATATATCGAAGTCACATATGGATGCCAACGTATAAAATAT
1 GGTCTTACTCGAACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACAT
*
61390198 GGTCTTACTC-ACACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACGT
1 GGTCTTACTCGA-ACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACAT
*
61390254 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGAACACATATATCGA
61390279 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
55 1 0.01
56 72 0.99
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGAACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACAT
Found at i:61396890 original size:64 final size:64
Alignment explanation
Indices: 61396809--61396980 Score: 170
Period size: 67 Copynumber: 2.7 Consensus size: 64
61396799 AGACATTATG
* * *
61396809 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAACAGAGCTACGAGATAA
* * * * * *
61396873 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAACAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-T-ATGTACACCATGTAGACAACAGAGCTACGAGAT
61396938 AA
63 AA
* * *
61396940 ACTG--GCTAGGTCACATGGGTGGTACTA-AGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATA-TGTACACCATGT
61396981 GTATAGGAGA
Statistics
Matches: 86, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 9 0.10
64 20 0.23
65 8 0.09
66 15 0.17
67 31 0.36
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATATGTACACCATGTAGACAACAGAGCTACGAGATAA
Found at i:61398607 original size:40 final size:40
Alignment explanation
Indices: 61398537--61398754 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
61398527 AAACCAAGTA
* * * *
61398537 CCTTTGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
61398576 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61398616 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61398656 CCTTCGAGACTTAGCCCGGATATAATAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61398696 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61398736 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61398755 TTATCATCCT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 148 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61402947 original size:55 final size:56
Alignment explanation
Indices: 61402813--61402948 Score: 220
Period size: 56 Copynumber: 2.4 Consensus size: 56
61402803 TCCCAGACAG
* * * *
61402813 GGTCTTACTCGAACACATATATCGAAGTCACATATGGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACGT
*
61402869 GGTCTTACTCACACACATATATCGAAGTCACATATCGATGCCAAAGCAT-AAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACGT
61402924 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
61402949 TGCCATGGTC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
55 30 0.41
56 44 0.59
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAAAGCATAAAACGT
Done.