Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 230 of 311
Found at i:77938678 original size:23 final size:20
Alignment explanation
Indices: 77938629--77938666 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
77938619 TACCAATTTG
*
77938629 CAAACATTTTAAAATACATT
1 CAAACATTATAAAATACATT
77938649 CAAACATTATAAAATACA
1 CAAACATTATAAAATACA
77938667 CAATTCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (20 bp):
CAAACATTATAAAATACATT
Found at i:77940837 original size:20 final size:20
Alignment explanation
Indices: 77940812--77940851 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
77940802 TGCGTGGGGT
*
77940812 GAATGTCTCCGATGGGACAA
1 GAATGTCTACGATGGGACAA
*
77940832 GAATGTCTATGATGGGACAA
1 GAATGTCTACGATGGGACAA
77940852 ATCCTGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.23
Consensus pattern (20 bp):
GAATGTCTACGATGGGACAA
Found at i:77941869 original size:19 final size:21
Alignment explanation
Indices: 77941832--77941872 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
77941822 TTTAGATTTT
77941832 AAAAAGGAAAACATAATTAAA
1 AAAAAGGAAAACATAATTAAA
*
77941853 AAAAAGGTAAAC-T-ATTAAA
1 AAAAAGGAAAACATAATTAAA
77941872 A
1 A
77941873 TAGTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 1 0.05
21 11 0.58
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAAAGGAAAACATAATTAAA
Found at i:77947590 original size:12 final size:12
Alignment explanation
Indices: 77947583--77947621 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
77947573 TGCACCTGCT
77947583 CCAACACCTCCA
1 CCAACACCTCCA
* *
77947595 CCAACACCACCT
1 CCAACACCTCCA
*
77947607 CCAGCACCTCCA
1 CCAACACCTCCA
77947619 CCA
1 CCA
77947622 CCTCCTACCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.59, G:0.03, T:0.08
Consensus pattern (12 bp):
CCAACACCTCCA
Found at i:77947614 original size:9 final size:9
Alignment explanation
Indices: 77947599--77947639 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
77947589 CCTCCACCAA
77947599 CACCACCTC
1 CACCACCTC
*
77947608 CAGCACCTC
1 CACCACCTC
77947617 CACCACCTC
1 CACCACCTC
77947626 CTACC-CCTC
1 C-ACCACCTC
77947635 CACCA
1 CACCA
77947640 GCCCCAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 22 0.79
10 3 0.11
ACGTcount: A:0.22, C:0.63, G:0.02, T:0.12
Consensus pattern (9 bp):
CACCACCTC
Found at i:77947652 original size:30 final size:30
Alignment explanation
Indices: 77947618--77947695 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
77947608 CAGCACCTCC
*
77947618 ACCACCTCCTACCCCTCCACCAGCCCCAAT
1 ACCACCTCCTACACCTCCACCAGCCCCAAT
* * * * *
77947648 ACCACCACCAACACCTGCACCCGCTCCAAT
1 ACCACCTCCTACACCTCCACCAGCCCCAAT
*
77947678 ACCTCCTCCTACACCTCC
1 ACCACCTCCTACACCTCC
77947696 GCCAACACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.24, C:0.58, G:0.04, T:0.14
Consensus pattern (30 bp):
ACCACCTCCTACACCTCCACCAGCCCCAAT
Found at i:77947784 original size:27 final size:27
Alignment explanation
Indices: 77947754--77947873 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 27
77947744 ACCAGTACCT
*
77947754 CCACCAACACCACCTCCTACACTTCCA
1 CCACCAACACCACCTCCTACACCTCCA
* *
77947781 CCACCACCACCACCTCCTACTCCTCCA
1 CCACCAACACCACCTCCTACACCTCCA
* * * * *
77947808 CCAGCCCTAGCCCCAGCC-CCAACCCCAGCACCA
1 CCA--CC-AACACCA-CCTCCTA---CACCTCCA
77947841 CCACCAACACCACCTCCTACACCTCCA
1 CCACCAACACCACCTCCTACACCTCCA
77947868 CCACCA
1 CCACCA
77947874 GCAGCTCTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
27 39 0.55
29 4 0.06
30 16 0.23
31 4 0.06
33 8 0.11
ACGTcount: A:0.27, C:0.60, G:0.03, T:0.10
Consensus pattern (27 bp):
CCACCAACACCACCTCCTACACCTCCA
Found at i:77947868 original size:24 final size:24
Alignment explanation
Indices: 77947836--77947953 Score: 69
Period size: 24 Copynumber: 4.9 Consensus size: 24
77947826 CCAACCCCAG
*
77947836 CACCACCACCAACACCACCTCCTA
1 CACCTCCACCAACACCACCTCCTA
* * * *
77947860 CACCTCCACCACCAGCAGCTCTTA
1 CACCTCCACCAACACCACCTCCTA
* * * * *
77947884 CTCCTCCACCAGCCCCAACACC-A
1 CACCTCCACCAACACCACCTCCTA
** * *
77947907 CCACCAACACCAGCACC-CGCTCCAA
1 -CACCTCCACCAACACCAC-CTCCTA
*
77947932 CACCTCCACCAACACTACCTCC
1 CACCTCCACCAACACCACCTCC
77947954 ACCACCCCTA
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
23 1 0.01
24 65 0.96
25 2 0.03
ACGTcount: A:0.29, C:0.57, G:0.04, T:0.10
Consensus pattern (24 bp):
CACCTCCACCAACACCACCTCCTA
Found at i:77947932 original size:102 final size:101
Alignment explanation
Indices: 77947826--77948191 Score: 306
Period size: 102 Copynumber: 3.5 Consensus size: 101
77947816 AGCCCCAGCC
* * * *
77947826 CCAACCCCAGCACCACCACCAACACCACCTCCTACACCTCCACCACCAGCAGCTCTTACTCCTCC
1 CCAACCCCACCACCACCACCAACACCACCTCCTACACCACCACCACCACCAGCTCCTACTCCTCC
* * *
77947891 ACCAGCCCCAACACCACCACCAACACCAGCACCCGCT
66 ACCAACCCCACCACCACCACCAACACCTGCACCC-CT
* * *
77947928 CCAACACCTCCACCAACACTACCTCCACCACC-CCTAGCACCTCCACCACCACCACCACCAGCTC
1 CC-A-ACC-CCACC-AC-C-ACCACCAACACCACCT----CCTACACCACCACCACCACCAGCTC
* *
77947992 CTACTCCTCCACCAACCCCACCACCACCACCAACACTTGTACCCCCT
56 CTACTCCTCCACCAACCCCACCACCACCACCAACACCTGCA-CCCCT
* * * * * * * * *
77948039 CCAGCACCTCCACCAACACC-ACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTACTCCTT
1 CCAACCCCACCACCACCACCAACACC-ACCTCCTACACCACCACCACCACCAGCTCCTACTCCTC
* *
77948103 CACCAACCCCACCACCACCACCACCACCTGCACCTACT
65 CACCAACCCCACCACCACCACCAACACCTGCACC-CCT
* ** *
77948141 CCAGCACCTCCACCAACACCACCTCCAGCACCTCC-ACCACCACCACCACCA
1 CCA--ACC-CCACCACCACCACCAACACCACCTCCTA-CACCACCACCACCA
77948192 ATACCTGCAC
Statistics
Matches: 208, Mismatches: 37, Indels: 35
0.74 0.13 0.12
Matches are distributed among these distances:
101 2 0.01
102 69 0.33
103 1 0.00
104 7 0.03
105 37 0.18
106 6 0.03
107 6 0.03
108 14 0.07
109 1 0.00
110 1 0.00
111 61 0.29
112 3 0.01
ACGTcount: A:0.28, C:0.58, G:0.04, T:0.10
Consensus pattern (101 bp):
CCAACCCCACCACCACCACCAACACCACCTCCTACACCACCACCACCACCAGCTCCTACTCCTCC
ACCAACCCCACCACCACCACCAACACCTGCACCCCT
Found at i:77947956 original size:63 final size:63
Alignment explanation
Indices: 77947886--77948022 Score: 168
Period size: 63 Copynumber: 2.2 Consensus size: 63
77947876 AGCTCTTACT
* *
77947886 CCTCCACCAGCCCC-AACACCACCACCAACACCAGCACCCGCTCCAACACCTCCACCAACACTA
1 CCTCCACCA-CCCCTAACACCACCACCAACACCACCACCAGCTCCAACACCTCCACCAACACTA
* * * * * * *
77947949 CCTCCACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCA
1 CCTCCACCACCCCTAACACCACCACCAACACCACCACCAGCTCCAACACCTCCACCAACACTA
*
77948012 CCACCACCACC
1 CCTCCACCACC
77948023 AACACTTGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 4 0.06
63 59 0.94
ACGTcount: A:0.28, C:0.61, G:0.04, T:0.08
Consensus pattern (63 bp):
CCTCCACCACCCCTAACACCACCACCAACACCACCACCAGCTCCAACACCTCCACCAACACTA
Found at i:77947956 original size:84 final size:84
Alignment explanation
Indices: 77947611--77948027 Score: 230
Period size: 84 Copynumber: 5.0 Consensus size: 84
77947601 CCACCTCCAG
* * * * *
77947611 CACCTCCACCACCTCCTACCCCTCCACCAGCCCCAATACCA-CCACCAACACCTGCACC-CGCTC
1 CACCACCACCACCTCCTACTCCTCCACCAGCCCCAACACCAGCC-CCAACACCAGCACCAC-CAC
* * * *
77947674 CAATACCTCCTCCTACACCTC
64 CAACACCACCACCAACACCTC
* * * * * * * * ** * *
77947695 CGCCAACACCACCTTC-AGCACCTCCACC-TCCACTAACTCCTA-CTCCTCCACCAGTACCTCCA
1 CACCACCACCACCTCCTA-CTCCTCCACCAGCC-CCAACACC-AGCCCCAACACCAGCACCACCA
* * *
77947757 CCAACACCACCTCCTACACTTCCAC
63 CCAACACCACCACC-A-AC-ACCTC
* * * *
77947782 CACCACCACCACCTCCTACTCCTCCACCAGCCCTAGCCCCAGCCCCAACCCCAGCACCACCACCA
1 CACCACCACCACCTCCTACTCCTCCACCAGCCCCAACACCAGCCCCAACACCAGCACCACCACCA
* *
77947847 ACACCACCTCCTACACCTC
66 ACACCACCACCAACACCTC
* * * *
77947866 CACCACCAGCAGCTCTTACTCCTCCACCAGCCCCAACACCA-CCACCAACACCAGCACC-CGCTC
1 CACCACCACCACCTCCTACTCCTCCACCAGCCCCAACACCAGCC-CCAACACCAGCACCAC-CAC
*
77947929 CAACACCTCCACCAACA-CT-
64 CAACACCACCACCAACACCTC
* * * * * * **
77947948 -ACCTCCACCACC-CCTAGCACCTCCACCA-CCACCACCACCAGCTCCTACTCCTCCACCAACC-
1 CACCACCACCACCTCCTA-CTCCTCCACCAGCC-CCAACACCAGCCCCAACACCAGCACC-ACCA
*
77948009 CCACCACCACCACCAACAC
63 CCAACACCACCACCAACAC
77948028 TTGTACCCCC
Statistics
Matches: 255, Mismatches: 60, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
80 5 0.02
81 53 0.21
82 2 0.01
83 9 0.04
84 116 0.45
85 5 0.02
86 3 0.01
87 59 0.23
88 3 0.01
ACGTcount: A:0.26, C:0.58, G:0.04, T:0.12
Consensus pattern (84 bp):
CACCACCACCACCTCCTACTCCTCCACCAGCCCCAACACCAGCCCCAACACCAGCACCACCACCA
ACACCACCACCAACACCTC
Found at i:77947979 original size:24 final size:24
Alignment explanation
Indices: 77947952--77948085 Score: 101
Period size: 24 Copynumber: 5.3 Consensus size: 24
77947942 AACACTACCT
77947952 CCACCACCCCTAGCACCTCCACCA
1 CCACCACCCCTAGCACCTCCACCA
* * * *
77947976 CCACCACCACC-AGCTCCTACTCCT
1 CCACCACC-CCTAGCACCTCCACCA
* *
77948000 CCACCAACCCC-ACCACCACCACCA
1 CCACC-ACCCCTAGCACCTCCACCA
* *
77948024 ACACTTGTACCCCCTCCAGCACCTCCACCA
1 CCAC---CA-CCCCT--AGCACCTCCACCA
*
77948054 ACACCACCCCTAGCACCTCCACCA
1 CCACCACCCCTAGCACCTCCACCA
77948078 CCACCACC
1 CCACCACC
77948086 ACCAGCTCCT
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
24 54 0.64
25 5 0.06
26 6 0.07
27 5 0.06
30 15 0.18
ACGTcount: A:0.26, C:0.60, G:0.04, T:0.10
Consensus pattern (24 bp):
CCACCACCCCTAGCACCTCCACCA
Found at i:77948001 original size:30 final size:31
Alignment explanation
Indices: 77947889--77948027 Score: 126
Period size: 30 Copynumber: 4.5 Consensus size: 31
77947879 TCTTACTCCT
*
77947889 CCACCAGCCCCAACACCACCACCAA-CACCA
1 CCACCAGCCCCAACACCTCCACCAACCACCA
* * * *
77947919 GCACCCGCTCCAACACCTCCACCAACACTACCT
1 CCACCAGCCCCAACACCTCCACCAAC-C-ACCA
*
77947952 CCACCA-CCCCTAGCACCTCCACC-ACCACCA
1 CCACCAGCCCC-AACACCTCCACCAACCACCA
* * *
77947982 CCACCAGCTCCTACTCCTCCACCAACC-CCA
1 CCACCAGCCCCAACACCTCCACCAACCACCA
77948012 CCACCA-CCACCAACAC
1 CCACCAGCC-CCAACAC
77948028 TTGTACCCCC
Statistics
Matches: 85, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
29 1 0.01
30 53 0.62
31 7 0.08
32 6 0.07
33 18 0.21
ACGTcount: A:0.29, C:0.60, G:0.04, T:0.07
Consensus pattern (31 bp):
CCACCAGCCCCAACACCTCCACCAACCACCA
Found at i:77948002 original size:48 final size:48
Alignment explanation
Indices: 77947948--77948191 Score: 181
Period size: 48 Copynumber: 4.8 Consensus size: 48
77947938 CACCAACACT
77947948 ACCTCCACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTAC
1 ACCTCCACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTAC
* * * * * * *
77947996 TCCTCCACCAACCCC-ACCACCACCACCAACACTTGTACCCCCTCCAGCACCTCC
1 ACCTCCACC-ACCCCTAGCACCTCCACC-AC-C----ACCACCACCAGCTCCTAC
**
77948050 ACCAACACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTAC
1 ACCTCCACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTAC
* * * * **
77948098 TCCTTCACCAACCCC-ACCACCACCACCACCACCTGCACCTA-CTCC-AGC
1 ACCTCCACC-ACCCCTAGCACCTCCACCACCACCACCACC-AGCTCCTA-C
77948146 ACCTCCACCAACACCACCTCCAGCACCTCCACCACCACCACCACCA
1 ACCTCCA-C--CACC-CCT--AGCACCTCCACCACCACCACCACCA
77948192 ATACCTGCAC
Statistics
Matches: 149, Mismatches: 29, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
47 1 0.01
48 68 0.46
49 14 0.09
50 4 0.03
51 3 0.02
52 1 0.01
53 8 0.05
54 50 0.34
ACGTcount: A:0.27, C:0.59, G:0.04, T:0.10
Consensus pattern (48 bp):
ACCTCCACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTAC
Found at i:77948013 original size:36 final size:36
Alignment explanation
Indices: 77947973--77948125 Score: 117
Period size: 36 Copynumber: 4.4 Consensus size: 36
77947963 AGCACCTCCA
77947973 CCACCACCACCACCAGCTCCTACTCCTCCACCAACC
1 CCACCACCACCACCAGCTCCTACTCCTCCACCAACC
* ** * * *
77948009 CCACCACCACCACCAACACTTGTAC-CC-CCTCCAGCA
1 CCACCACCACCACC-A-GCTCCTACTCCTCCACCAACC
* * * *
77948045 CCTCCACCAACACCA-CCCCTAGCACCT---CC-A--
1 CCACCACCACCACCAGCTCCTA-CTCCTCCACCAACC
*
77948075 CCACCACCACCACCAGCTCCTACTCCTTCACCAACC
1 CCACCACCACCACCAGCTCCTACTCCTCCACCAACC
77948111 CCACCACCACCACCA
1 CCACCACCACCACCA
77948126 CCACCTGCAC
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
30 17 0.19
31 5 0.06
33 7 0.08
34 2 0.02
35 3 0.03
36 47 0.53
37 3 0.03
38 5 0.06
ACGTcount: A:0.27, C:0.59, G:0.03, T:0.10
Consensus pattern (36 bp):
CCACCACCACCACCAGCTCCTACTCCTCCACCAACC
Found at i:77948040 original size:39 final size:39
Alignment explanation
Indices: 77947965--77948061 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
77947955 CCACCCCTAG
* *
77947965 CACCTCCACCACCACCACCACCAGCTCCTACTCCTCCAC
1 CACCTCCACCACCACCACCAACAGCTCCTACCCCTCCAC
** *
77948004 CAACC-CCACCACCACCACCAACA-CTTGTACCCCCTCCAG
1 C-ACCTCCACCACCACCACCAACAGCTCCTA-CCCCTCCAC
*
77948043 CACCTCCACCAACACCACC
1 CACCTCCACCACCACCACC
77948062 CCTAGCACCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 7 0.14
39 39 0.80
40 3 0.06
ACGTcount: A:0.27, C:0.60, G:0.03, T:0.10
Consensus pattern (39 bp):
CACCTCCACCACCACCACCAACAGCTCCTACCCCTCCAC
Found at i:77948161 original size:42 final size:42
Alignment explanation
Indices: 77948073--77948178 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
77948063 CTAGCACCTC
* * ** *
77948073 CACCACCACCACCACCAGCTCCTACTCCTTCACCAACCCCAC
1 CACCACCACCACCACCTGCACCTACTCCAGCACCAACCCCAA
*
77948115 CACCACCACCACCACCTGCACCTACTCCAGCACC-TCCACCAA
1 CACCACCACCACCACCTGCACCTACTCCAGCACCAACC-CCAA
* * *
77948157 CACCACCTCCAGCACCTCCACC
1 CACCACCACCACCACCTGCACC
77948179 ACCACCACCA
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 2 0.04
42 52 0.96
ACGTcount: A:0.26, C:0.59, G:0.04, T:0.10
Consensus pattern (42 bp):
CACCACCACCACCACCTGCACCTACTCCAGCACCAACCCCAA
Found at i:77948197 original size:24 final size:24
Alignment explanation
Indices: 77948043--77948202 Score: 90
Period size: 24 Copynumber: 6.4 Consensus size: 24
77948033 CCCCCTCCAG
*
77948043 CACCTCCACCAACACCACC-CCTAG
1 CACCTCCACCAACACCACCACC-AA
*
77948067 CACCTCCACCACCACCACCACCAGCTCCTA
1 CACCTCCACCA--A-CACCACCA---CCAA
* * * *
77948097 CTCCTTCACCAACCCCACCACCAC
1 CACCTCCACCAACACCACCACCAA
* ** * *
77948121 CACCACCACCTGCACCTA-CTCCAG
1 CACCTCCACCAACACC-ACCACCAA
* *
77948145 CACCTCCACCAACACCACCTCCAG
1 CACCTCCACCAACACCACCACCAA
*
77948169 CACCTCCACCACCACCACCACCAA
1 CACCTCCACCAACACCACCACCAA
* *
77948193 TACCTGCACC
1 CACCTCCACC
77948203 CACTCCAGCT
Statistics
Matches: 104, Mismatches: 23, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.01
24 75 0.72
25 1 0.01
26 1 0.01
27 14 0.13
28 1 0.01
30 9 0.09
31 2 0.02
ACGTcount: A:0.28, C:0.59, G:0.04, T:0.10
Consensus pattern (24 bp):
CACCTCCACCAACACCACCACCAA
Found at i:77948346 original size:102 final size:101
Alignment explanation
Indices: 77947953--77948191 Score: 361
Period size: 102 Copynumber: 2.3 Consensus size: 101
77947943 ACACTACCTC
*
77947953 CACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCACCACCA
1 CACCACACCT-GCACCTCCACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCACCACCA
* * *
77948018 CCACCAACACTTGTACCCCCTCCAGCACCTCCACCAA
65 CCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* *
77948055 CACCACCCCTAGCACCTCCACCACCACCACCACCAGCTCCTACTCCTTCACCAACCCCACCACCA
1 CACCACACCT-GCACCTCCACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCACCACCA
* *
77948120 CCACCACCACCTGCACCTACTCCAGCACCTCCACCAA
65 CCACCAACACCTGCACCCACTCCAGCACCTCCACCAA
* *
77948157 CACCACCTCCAGCACCTCCACCACCACCACCACCA
1 CACCA-CACCTGCACCTCCACCACCACCACCACCA
77948192 ATACCTGCAC
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
102 125 0.98
103 3 0.02
ACGTcount: A:0.27, C:0.59, G:0.04, T:0.10
Consensus pattern (101 bp):
CACCACACCTGCACCTCCACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCACCACCAC
CACCAACACCTGCACCCACTCCAGCACCTCCACCAA
Found at i:77948349 original size:12 final size:12
Alignment explanation
Indices: 77948334--77948391 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 12
77948324 CCTGCACCCA
77948334 CTCCAGCACCTC
1 CTCCAGCACCTC
*
77948346 CTCCTGCACCTC
1 CTCCAGCACCTC
* * *
77948358 CGCCAACACCAC
1 CTCCAGCACCTC
*
77948370 CTCCACCACC-C
1 CTCCAGCACCTC
77948381 CT--AGCACCTC
1 CTCCAGCACCTC
77948391 C
1 C
77948392 ACCTCCAGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 5 0.14
10 2 0.05
11 3 0.08
12 27 0.73
ACGTcount: A:0.19, C:0.60, G:0.07, T:0.14
Consensus pattern (12 bp):
CTCCAGCACCTC
Found at i:77948477 original size:9 final size:9
Alignment explanation
Indices: 77948463--77948514 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
77948453 CCTCCGCCAA
77948463 CACCACCTC
1 CACCACCTC
*
77948472 CACCACTTC
1 CACCACCTC
77948481 CACCACC-C
1 CACCACCTC
*
77948489 CTAGCACCTC
1 C-ACCACCTC
* *
77948499 CACCTCCAC
1 CACCACCTC
77948508 CACCACC
1 CACCACC
77948515 AGCTCTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.23, C:0.63, G:0.02, T:0.12
Consensus pattern (9 bp):
CACCACCTC
Found at i:77948489 original size:108 final size:108
Alignment explanation
Indices: 77947860--77948641 Score: 421
Period size: 111 Copynumber: 7.3 Consensus size: 108
77947850 CCACCTCCTA
* * * *
77947860 CACCTCCACCACCAGCAGCTCTTACTCCTCCACCAGCCCCAACACCACCACCAACACCAGCACC-
1 CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCT
* * *
77947924 CGCTCCAACACCTCCACCAACACTACCTCCACCACCCCTAGCACCTC
66 C-CGCCAACACCACCTCC-AC-C-ACCTCCACCACCCCTAGCACCTC
* * * * * ** *
77947971 CACCACCACCACCACCAGCTCCTACTCCTCCACCAACCCCACCACCACCACCAACACTTGTACC-
1 CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCT
* *
77948035 CC-CTC--CAGCACCTCCACCA---ACACCACCCCTAGCACCTC
66 CCGC-CAACACCACCTCCACCACCTCCACCACCCCTAGCACCTC
* * * *
77948073 CACCACCACCACCACCAGCTCCTACTCCTTCACCAACCCCACCACCACCACCACCACCTGCACCT
1 CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCA--A-CACCACCACCA-----A--T
* * * **
77948138 ACTCCAGCACCTCCACCAACACCACCTCCAGCACCTCCACCACCACC-ACCACCAA
56 A--CCAGCACCTCCGCCAACACCACCTCCACCACCTCCACCACC-CCTAGCACCTC
* * * * * * * * *
77948193 TACCTGCACC-CACTCCAGCTCCTCCTCCTACACC-TCCGCCAACACCACCTCC---ACCA-CCC
1 CACCTCCACCAC-CACCAACTCCTACTCCTCCACCAGCC-CCAACACCACCACCAATACCAGCAC
* * ** * * * * *
77948252 CT-AG-CACCTGCACCT---GCACCTCCACCTCCACTAGCTCCTA
64 CTCCGCCAACACCACCTCCACCACCTCCACCACCCCTAGCACCTC
* * ** *
77948292 CTCCTCCACCAGCC-CCAA---C-A---CT--ACCA---CCAATACCTGCACCCACT-CCAGCAC
1 CACCTCCACCA-CCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCA-CCAATACCAGCAC
* ** * *
77948343 CTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCCCTAGCACCTC
64 CTCCGCCAACACCACC-TC--CACCACCTCCACCACCCCTAGCACCTC
* *
77948391 CACCTCCAGCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCTGCACCT
1 CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCT
*
77948456 CCGCCAACACCACCTCCACCACTTCCACCACCCCTAGCACCTC
66 CCGCCAACACCACCTCCACCACCTCCACCACCCCTAGCACCTC
* *
77948499 CACCTCCACCACCACCAGCTCTTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACC-
1 CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCT
* * * * * * * *
77948563 CACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCT-CCACCAC
66 C-CGCCAACACCACCT-C--CACCACCTCCACCACC-CCTAGCACCTC
* *
77948610 CGCCACCACCACCACCAACTCCTACTCCTCCA
1 CACCTCCACCACCACCAACTCCTACTCCTCCA
77948642 GCACCTCCAG
Statistics
Matches: 516, Mismatches: 96, Indels: 118
0.71 0.13 0.16
Matches are distributed among these distances:
87 8 0.02
88 2 0.00
90 6 0.01
91 4 0.01
92 2 0.00
93 5 0.01
96 1 0.00
98 3 0.01
99 61 0.12
100 1 0.00
101 1 0.00
102 67 0.13
103 1 0.00
104 4 0.01
105 15 0.03
106 3 0.01
107 4 0.01
108 108 0.21
109 2 0.00
110 8 0.02
111 129 0.25
112 4 0.01
114 5 0.01
115 3 0.01
116 1 0.00
117 21 0.04
118 1 0.00
119 3 0.01
120 41 0.08
121 2 0.00
ACGTcount: A:0.25, C:0.58, G:0.05, T:0.12
Consensus pattern (108 bp):
CACCTCCACCACCACCAACTCCTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCT
CCGCCAACACCACCTCCACCACCTCCACCACCCCTAGCACCTC
Found at i:77948502 original size:123 final size:123
Alignment explanation
Indices: 77948112--77948610 Score: 408
Period size: 123 Copynumber: 4.1 Consensus size: 123
77948102 TCACCAACCC
* * ** * * ** *
77948112 CACCACCACCACCACCACCT-GCACCTACTCCAGCACCTCCACCAACACC-ACCTCCAGCACC-T
1 CACCACCACCACCACC-CCTAGCACCTCCACCTCCACCACCACCAACTCCTA-CTCCTCCACCAG
* * * * * *
77948174 CCACCACCACCACCACCAATACCTGCACCCACTCCAGCTCCTCCTCCTA-CACCTCCGCCAA
64 CC-CCAACACCACCACCAATACCTGCACCCACGCCAACACCACCTCC-ACCACCTCCACCAA
* * * *
77948235 CACCACCTCCACCACCCCTAGCACCTGCACCTGCACCTCCACCTCCACTAGCTCCTACTCCTCCA
1 CACCACCACCACCACCCCTAGCACCT----C--CACCTCCACCACCACCAACTCCTACTCCTCCA
* * * * ** *
77948300 CCAGCCCCAACACTACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAA
60 CCAGCCCCAACACCACCACCAATACCTGCACCCACGCCAACACCACCTCCACCACCTCCACCAA
* *
77948364 CACCACCTCCACCACCCCTAGCACCTCCACCTCCAGCACCACCAACTCCTACTCCTCCACCAGCC
1 CACCACCACCACCACCCCTAGCACCTCCACCTCCACCACCACCAACTCCTACTCCTCCACCAGCC
77948429 CCAACACCACCACCAATACCTGCACCTC-CGCCAACACCACCTCCACCA-CT-------
66 CCAACACCACCACCAATACCTGCACC-CACGCCAACACCACCTCCACCACCTCCACCAA
* * *
77948479 -------TCCACCACCCCTAGCACCTCCACCTCCACCACCACCAGCTCTTACTCCTCCACCAGCC
1 CACCACCACCACCACCCCTAGCACCTCCACCTCCACCACCACCAACTCCTACTCCTCCACCAGCC
* * * * ** *
77948537 CCAACACCACCACCAATACCAGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAA
66 CCAACACCACCACCAATACCTGCACCCACGCCAACACCACCTCCACCACCTCCACCAA
*
77948595 CACCACCTCCACCACC
1 CACCACCACCACCACC
77948611 GCCACCACCA
Statistics
Matches: 315, Mismatches: 34, Indels: 54
0.78 0.08 0.13
Matches are distributed among these distances:
107 1 0.00
108 95 0.30
109 2 0.01
122 5 0.02
123 104 0.33
124 1 0.00
125 1 0.00
129 103 0.33
130 3 0.01
ACGTcount: A:0.25, C:0.58, G:0.05, T:0.12
Consensus pattern (123 bp):
CACCACCACCACCACCCCTAGCACCTCCACCTCCACCACCACCAACTCCTACTCCTCCACCAGCC
CCAACACCACCACCAATACCTGCACCCACGCCAACACCACCTCCACCACCTCCACCAA
Found at i:77948580 original size:12 final size:12
Alignment explanation
Indices: 77948555--77948610 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
77948545 ACCACCAATA
77948555 CCAGCACC-CACT
1 CCAGCACCTC-CT
77948567 CCAGCACCTCCT
1 CCAGCACCTCCT
* *
77948579 CCTGCACCTCCG
1 CCAGCACCTCCT
* *
77948591 CCAACACCACCT
1 CCAGCACCTCCT
*
77948603 CCACCACC
1 CCAGCACC
77948611 GCCACCACCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
12 35 0.97
13 1 0.03
ACGTcount: A:0.21, C:0.61, G:0.07, T:0.11
Consensus pattern (12 bp):
CCAGCACCTCCT
Found at i:77948607 original size:9 final size:9
Alignment explanation
Indices: 77948595--77948723 Score: 75
Period size: 9 Copynumber: 14.0 Consensus size: 9
77948585 CCTCCGCCAA
77948595 CACCACCTC
1 CACCACCTC
*
77948604 CACCACCGC
1 CACCACCTC
*
77948613 CACCACCAC
1 CACCACCTC
*
77948622 CACCAACTC
1 CACCACCTC
*
77948631 CTA-CTCCTC
1 C-ACCACCTC
*
77948640 CAGCACCTC
1 CACCACCTC
*
77948649 CAGCACCTC
1 CACCACCTC
*
77948658 CACCAGCTC
1 CACCACCTC
*
77948667 CTA-CTCCTC
1 C-ACCACCTC
*
77948676 CACCAACCCC
1 CACC-ACCTC
*
77948686 GACACCACCAC
1 --CACCACCTC
*
77948697 CACCACCTA
1 CACCACCTC
77948706 CACC-CACTC
1 CACCAC-CTC
*
77948715 CAGCACCTC
1 CACCACCTC
77948724 TTCCTACACC
Statistics
Matches: 93, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
8 3 0.03
9 76 0.82
10 6 0.06
11 4 0.04
12 4 0.04
ACGTcount: A:0.25, C:0.60, G:0.05, T:0.11
Consensus pattern (9 bp):
CACCACCTC
Found at i:77948615 original size:15 final size:15
Alignment explanation
Indices: 77948583--77948626 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
77948573 CCTCCTCCTG
* *
77948583 CACCTCCGCCAACAC
1 CACCTCCACCACCAC
*
77948598 CACCTCCACCACCGC
1 CACCTCCACCACCAC
*
77948613 CACCACCACCACCA
1 CACCTCCACCACCA
77948627 ACTCCTACTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.64, G:0.05, T:0.05
Consensus pattern (15 bp):
CACCTCCACCACCAC
Found at i:77948643 original size:108 final size:106
Alignment explanation
Indices: 77948364--77948640 Score: 279
Period size: 108 Copynumber: 2.5 Consensus size: 106
77948354 CCTCCGCCAA
* * * * * *
77948364 CACCACCTCCACCACCCCTAGCACCTCCACCTCCAGCACCACCAACTCCTACTCCTCCACCAGCC
1 CACCACCGCCAACACCCCTACCACCACCACCACCACCACCACCAACTCCTACTCCT-C-CCAGCC
*
77948429 CCAACACCACCACCAATACCTGCACCTCCGCCAACACCACCTC
64 CCAACACCACCACCAATACCAGCACCTCCGCCAACACCACCTC
** * * * * * *
77948472 CACCACTTCCACCACCCCTAGCACCTCCACCTCCACCACCACCAGCTCTTACTCCTCCACCAGCC
1 CACCACCGCCAACACCCCTACCACCACCACCACCACCACCACCAACTCCTACTCCT-C-CCAGCC
* * *
77948537 CCAACACCACCACCAATACCAGCACC-CACTCCAGCACCTCCTCC
64 CCAACACCACCACCAATACCAGCACCTC-CGCCAACACCACCT-C
* *
77948581 TGCACCTCCGCCAACACCACCT-CCACCACCGCCACCACCACCACCAACTCCTACTCCTCC
1 --CACCACCGCCAACACC-CCTACCACCACCACCACCACCACCACCAACTCCTACTCCTCC
77948641 AGCACCTCCA
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 97 0.66
109 2 0.01
110 1 0.01
111 42 0.29
112 3 0.02
ACGTcount: A:0.25, C:0.58, G:0.05, T:0.12
Consensus pattern (106 bp):
CACCACCGCCAACACCCCTACCACCACCACCACCACCACCACCAACTCCTACTCCTCCCAGCCCC
AACACCACCACCAATACCAGCACCTCCGCCAACACCACCTC
Found at i:77948667 original size:18 final size:18
Alignment explanation
Indices: 77948598--77948709 Score: 86
Period size: 18 Copynumber: 6.2 Consensus size: 18
77948588 CCGCCAACAC
*
77948598 CACCTCCACCACCGCC-A
1 CACCTCCACCACCTCCTA
* *
77948615 CCACCACCACCAACTCCTA
1 -CACCTCCACCACCTCCTA
* *
77948634 CTCCTCCAGCACCTCC-A
1 CACCTCCACCACCTCCTA
*
77948651 GCACCTCCACCAGCTCCTA
1 -CACCTCCACCACCTCCTA
* *
77948670 CTCCTCCACCAACC-CCGA
1 CACCTCCACC-ACCTCCTA
* *
77948688 CACCACCACCACCACCTA
1 CACCTCCACCACCTCCTA
77948706 CACC
1 CACC
77948710 CACTCCAGCA
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
17 4 0.05
18 65 0.89
19 4 0.05
ACGTcount: A:0.25, C:0.60, G:0.04, T:0.11
Consensus pattern (18 bp):
CACCTCCACCACCTCCTA
Found at i:77948706 original size:36 final size:36
Alignment explanation
Indices: 77948400--77948701 Score: 125
Period size: 36 Copynumber: 8.2 Consensus size: 36
77948390 CCACCTCCAG
*
77948400 CACCACCAACTCCTACTCCTCCACCAGCC-CCAACAC
1 CACCACCAACTCCTACTCCTCCACCA-CCGCCACCAC
* * * * * *
77948436 CACCACCAA-TACCTGCACCTCCGCCAACACCACCTC
1 CACCACCAACT-CCTACTCCTCCACCACCGCCACCAC
*** * * * * * *
77948472 CACCACTTCCACC-ACCCCTAGCACCTCCACCTCCAC
1 CACCACCAACTCCTACTCCT-CCACCACCGCCACCAC
* * *
77948508 CACCACCAGCTCTTACTCCTCCACCAGCC-CCAACAC
1 CACCACCAACTCCTACTCCTCCACCA-CCGCCACCAC
* * * * *
77948544 CACCACCAA-TACCAGCACCCACTCCAGCACCTCCTCCTGCAC
1 CACCACCAACT-CC--TACTC-CTCCACCACCGCC-AC--CAC
* * *
77948586 CTCCGCCAACACC-A--CCTCCACCACCGCCACCAC
1 CACCACCAACTCCTACTCCTCCACCACCGCCACCAC
* * *
77948619 CACCACCAACTCCTACTCCTCCAGCACCTCCAGCAC
1 CACCACCAACTCCTACTCCTCCACCACCGCCACCAC
* * *
77948655 CTCCACCAGCTCCTACTCCTCCACCAACCCCGACACCAC
1 CACCACCAACTCCTACTCCTCCACC-A--CCGCCACCAC
77948694 CACCACCA
1 CACCACCA
77948702 CCTACACCCA
Statistics
Matches: 191, Mismatches: 54, Indels: 39
0.67 0.19 0.14
Matches are distributed among these distances:
33 13 0.07
34 1 0.01
35 8 0.04
36 119 0.62
37 9 0.05
38 5 0.03
39 24 0.13
42 12 0.06
ACGTcount: A:0.25, C:0.58, G:0.05, T:0.12
Consensus pattern (36 bp):
CACCACCAACTCCTACTCCTCCACCACCGCCACCAC
Found at i:77948752 original size:147 final size:147
Alignment explanation
Indices: 77948505--77948771 Score: 394
Period size: 147 Copynumber: 1.8 Consensus size: 147
77948495 CCTCCACCTC
* * *
77948505 CACCACCACCAGCTCTTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGCACCCACTCCA
1 CACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACCAGCACCCACTCCA
* * *
77948570 GCACCTCCTCCTGCACCTCCGCCAACACCACCTCCACCACCGCC-ACCACCACCACCAACTCCTA
66 GCACCTCCTCCTACACCACCACCAACACCACCTCCACCACC-CCTACCACCACCACCAACTCCTA
77948634 CTCCTCCAGCACCTCCAG
130 CTCCTCCAGCACCTCCAG
* * *
77948652 CACCTCCACCAGCTCCTACTCCTCCACCAACCCCGACACCACCACCACCACCTA-CACCCACTCC
1 CACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACC-AGCACCCACTCC
* * *
77948716 AGCACCTCTTCCTACACCACCACCAACACCTCCTCCACCACCCCTAGCACCACCAC
65 AGCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTACCACCACCAC
77948772 TTGCACCTCC
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
146 2 0.02
147 103 0.97
148 1 0.01
ACGTcount: A:0.25, C:0.58, G:0.05, T:0.12
Consensus pattern (147 bp):
CACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACCAGCACCCACTCCA
GCACCTCCTCCTACACCACCACCAACACCACCTCCACCACCCCTACCACCACCACCAACTCCTAC
TCCTCCAGCACCTCCAG
Found at i:77948767 original size:75 final size:74
Alignment explanation
Indices: 77948459--77948771 Score: 235
Period size: 75 Copynumber: 4.2 Consensus size: 74
77948449 TGCACCTCCG
* * * * * * * *
77948459 CCAACACCACCTCCACCACTTCCA-CCACCCCTAGCACCTCCACCTCCACCACCACCAGCTCTTA
1 CCAACACCACCACCACCACCTACACCCACTCC-AGCACCTCCTCCTACACCACCACCAACAC---
77948523 CTCCTCCACCAGCC
62 CTCCTCCACCA-CC
** * * * *
77948537 CCAACACCACCACCAATACC-AGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCAC
1 CCAACACCACCACCACCACCTA-CACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCTC
77948601 CTCCACCACC
65 CTCCACCACC
* * * * ** * * **
77948611 GC--CACCACCACCACCAACTCCTACTC-CTCCAGCACCTCCAGC-ACCTCCACCAGCTCCTA-C
1 CCAACACCACCACCACCACCTAC-ACCCACTCCAGCACCTCCTCCTA-CACCACCACCAAC-ACC
77948671 TCCTCCACCAACC
63 TCCTCCACC-ACC
* *
77948684 CCGACACCACCACCACCACCTACACCCACTCCAGCACCTCTTCCTACACCACCACCAACACCTCC
1 CCAACACCACCACCACCACCTACACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCTCC
77948749 TCCACCACC
66 TCCACCACC
*
77948758 CCTAGCACCACCAC
1 CC-AACACCACCAC
77948772 TTGCACCTCC
Statistics
Matches: 180, Mismatches: 42, Indels: 29
0.72 0.17 0.12
Matches are distributed among these distances:
72 44 0.24
73 8 0.04
74 12 0.07
75 68 0.38
76 1 0.01
78 41 0.23
79 6 0.03
ACGTcount: A:0.25, C:0.58, G:0.04, T:0.12
Consensus pattern (74 bp):
CCAACACCACCACCACCACCTACACCCACTCCAGCACCTCCTCCTACACCACCACCAACACCTCC
TCCACCACC
Found at i:77948770 original size:36 final size:34
Alignment explanation
Indices: 77948591--77948771 Score: 84
Period size: 36 Copynumber: 4.9 Consensus size: 34
77948581 TGCACCTCCG
* *
77948591 CCAACACCACCTCCACCACCGC-CACCACCACCA
1 CCAACACCTCCTCCACCACCCCACACCACCACCA
* * *
77948624 CCAACTCCTACTCCTCCAGCACCTCCAGCACCTCCACCA
1 CCAAC-AC--CTCCTCCACCACC-CCA-CACCACCACCA
* **
77948663 GCTCCTA-CTCCTCCACCAACCCCGACACCACCACCA
1 CCAAC-ACCTCCTCCACC-ACCCC-ACACCACCACCA
*
77948699 CCACCTACACC-CACTCCAGCACCTCTTC-CTA-CACCACCA
1 CCA---ACACCTC-CTCCACCACC-C--CAC-ACCACCACCA
77948738 CCAACACCTCCTCCACCACCCCTAGCACCACCAC
1 CCAACACCTCCTCCACCACCCC-A-CACCACCAC
77948772 TTGCACCTCC
Statistics
Matches: 110, Mismatches: 16, Indels: 41
0.66 0.10 0.25
Matches are distributed among these distances:
33 6 0.05
34 1 0.01
35 2 0.02
36 54 0.49
37 6 0.05
38 5 0.05
39 34 0.31
40 1 0.01
41 1 0.01
ACGTcount: A:0.26, C:0.59, G:0.04, T:0.11
Consensus pattern (34 bp):
CCAACACCTCCTCCACCACCCCACACCACCACCA
Found at i:77948785 original size:129 final size:129
Alignment explanation
Indices: 77948181--77948790 Score: 486
Period size: 129 Copynumber: 4.8 Consensus size: 129
77948171 CCTCCACCAC
* *
77948181 CACCACCACCAATACCTGCACCCACTCCAGCTCCTCCTCCTACACCTCCGCCAACACCACCTCCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCTCCA
** * *
77948246 CCACCCCTAGCACCTGCACCTGCACCTCCACCTCCACTAGCTCCTACTCCTCCACCAGCCCCAA
66 CCACCCCTAGCACCACCACCTGCACCTCCACCTCCACCAGCTCCTACTCCTCCACCAACCCCAA
* * *
77948310 CACTACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTGCACCTCCGCCAACACCACCTCCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCTCCA
* * * * *
77948375 CCACCCCTAG------CACCTCCACCTCCAGCACCACCAACTCCTACTCCTCCACCAGCCCCAA
66 CCACCCCTAGCACCACCACCTGCACCTCCACCTCCACCAGCTCCTACTCCTCCACCAACCCCAA
* * * ** * *
77948433 CACCACCACCAATACCTGCACCTC-CGCCAACACCACCT-C--CACCACTTCCACCACC-CCTAG
1 CACCACCACCAATACCTGCACC-CACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCT-C
* * * * * * * * * * * **
77948493 CACCTCCACCT-CCACCACCACCAGCTCTTACTCCTCCACCAGCCCCAACACCACCACCAATACC
64 CACCACC-CCTAGCACCACCACCTGCACCTCCACCTCCACCAGCTCCTACTCCTCCACCAACCCC
*
77948557 AG
128 AA
* * * * * * * *
77948559 CA-C-CCA-C--T-CCAGCACCTC-CTCCTGCACCTCCGCCAACACCACCTCCACCACCGCCACC
1 CACCACCACCAATACCTGCACC-CACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCTCC
* * * *
77948617 ACCACCACC-AACTCCTACTCCTCCAGCACCTCCAGCACCTCCACCAGCTCCTACTCCTCCACCA
65 ACCACC-CCTAGCACC-A--CCACCTGCACCT-C--CACCTCCACCAGCTCCTACTCCTCCACCA
*
77948681 ACCCCGA
123 ACCCCAA
** * * * *
77948688 CACCACCACCACCACCTACACCCACTCCAGCACCTCTTCCTACACCACCACCAACACCTCCTCCA
1 CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCTCCA
*
77948753 CCACCCCTAGCACCACCACTTGCACCTCCACCTCCACC
66 CCACCCCTAGCACCACCACCTGCACCTCCACCTCCACC
77948791 CCCACCCCAA
Statistics
Matches: 376, Mismatches: 77, Indels: 56
0.74 0.15 0.11
Matches are distributed among these distances:
119 3 0.01
120 36 0.10
121 5 0.01
122 1 0.00
123 103 0.27
124 7 0.02
125 1 0.00
126 42 0.11
129 111 0.30
130 1 0.00
131 4 0.01
132 10 0.03
134 4 0.01
135 48 0.13
ACGTcount: A:0.24, C:0.58, G:0.05, T:0.13
Consensus pattern (129 bp):
CACCACCACCAATACCTGCACCCACTCCAGCACCTCCTCCTACACCACCGCCAACACCACCTCCA
CCACCCCTAGCACCACCACCTGCACCTCCACCTCCACCAGCTCCTACTCCTCCACCAACCCCAA
Found at i:77948808 original size:147 final size:147
Alignment explanation
Indices: 77948432--77948821 Score: 391
Period size: 147 Copynumber: 2.6 Consensus size: 147
77948422 ACCAGCCCCA
* * * * * * *
77948432 ACACCACCACCAATACCTGCACCTCCGCCAACACCACCTCCACCACTTCCACCACC-CCTAGCAC
1 ACACCACCACCAACA-C--CACCTCCACCACCGCCACCACCACCACTT-CACCTCCACCT-CCAC
* * * *
77948496 CTCCACCTCC-ACCACCACCAGCTCTTACTCCTCCACCAGCCCCAACACCACCACCAATACCAGC
61 CACCACCTCCAACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACCAGC
77948560 ACCCACTCCAGCACCTCCTCCT
126 ACCCACTCCAGCACCTCCTCCT
* * * * * *
77948582 GCACCTCCGCCAACACCACCTCCACCACCGCCACCACCACCAC--CAACTCCTA-CTCCTCCAGC
1 ACACCACCACCAACACCACCTCCACCACCGCCACCACCACCACTTCACCTCC-ACCTCCACCACC
* * *
77948644 ACCTCCAGCACCTCCACCAGCTCCTACTCCTCCACCAACCCCGACACCACCACCACCACCTA-CA
65 ACCTCCA--ACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACC-AGCA
*
77948708 CCCACTCCAGCACCTCTTCCT
127 CCCACTCCAGCACCTCCTCCT
* * *
77948729 ACACCACCACCAACACCTCCTCCACCACC-CCTAGCACCACCACTTGCACCTCCACCTCCACCCC
1 ACACCACCACCAACACCACCTCCACCACCGCC-ACCACCACCACTT-CACCTCCACCTCCACCAC
* *
77948793 CACC-CCAACCCCCACCTGCTCCTACTCCT
64 CACCTCCAACCACCACCAGCTCCTACTCCT
77948822 ACTCCTCCAC
Statistics
Matches: 197, Mismatches: 32, Indels: 25
0.78 0.13 0.10
Matches are distributed among these distances:
144 15 0.08
145 2 0.01
146 2 0.01
147 145 0.74
148 1 0.01
149 5 0.03
150 27 0.14
ACGTcount: A:0.24, C:0.58, G:0.05, T:0.13
Consensus pattern (147 bp):
ACACCACCACCAACACCACCTCCACCACCGCCACCACCACCACTTCACCTCCACCTCCACCACCA
CCTCCAACCACCACCAGCTCCTACTCCTCCACCAACCCCAACACCACCACCAACACCAGCACCCA
CTCCAGCACCTCCTCCT
Found at i:77951339 original size:31 final size:31
Alignment explanation
Indices: 77951304--77951364 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
77951294 CAACTCAGTG
77951304 ACTTAAATAAAAAC-TTTATAATAGTTCAATA
1 ACTTAAATAAAAACTTTTA-AATAGTTCAATA
*
77951335 ACTTAAATGAAAACTTTTAAATAGTTCAAT
1 ACTTAAATAAAAACTTTTAAATAGTTCAAT
77951365 GATCATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTAAATAGTTCAATA
Found at i:77959555 original size:21 final size:21
Alignment explanation
Indices: 77959531--77959571 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
77959521 AAATCTTTAG
77959531 ATAGTAATAAAAAGGTCTGCC
1 ATAGTAATAAAAAGGTCTGCC
*
77959552 ATAGTAATAAAAATGTCTGC
1 ATAGTAATAAAAAGGTCTGC
77959572 TAGAGTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (21 bp):
ATAGTAATAAAAAGGTCTGCC
Found at i:77959578 original size:21 final size:21
Alignment explanation
Indices: 77959533--77959578 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
77959523 ATCTTTAGAT
*
77959533 AGTAATAAAAAGGTCTGCCAT
1 AGTAATAAAAAGGTCTGCCAG
* *
77959554 AGTAATAAAAATGTCTGCTAG
1 AGTAATAAAAAGGTCTGCCAG
77959575 AGTA
1 AGTA
77959579 TTTCGAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (21 bp):
AGTAATAAAAAGGTCTGCCAG
Found at i:77969346 original size:15 final size:15
Alignment explanation
Indices: 77969326--77969358 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
77969316 TCTCTATCTC
77969326 CATATATCTCCCCAA
1 CATATATCTCCCCAA
77969341 CATATATCTCCCCAA
1 CATATATCTCCCCAA
77969356 CAT
1 CAT
77969359 CATTTGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.39, G:0.00, T:0.27
Consensus pattern (15 bp):
CATATATCTCCCCAA
Found at i:77969701 original size:3 final size:3
Alignment explanation
Indices: 77969693--77969720 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
77969683 TGACATATAT
77969693 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
77969721 ATACAAGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:77973083 original size:42 final size:42
Alignment explanation
Indices: 77972994--77973167 Score: 176
Period size: 41 Copynumber: 4.0 Consensus size: 42
77972984 CTTCGTTTTC
** ** *
77972994 TCGATGCCATAGTTCAATTATGG-CTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
77973036 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
77973077 TCGATGCCATAG-CCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
77973125 TCGATGCCATAGCCCAGTTATGGTCTTACACA-AATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
77973166 TC
1 TC
77973168 TCACTGATGT
Statistics
Matches: 113, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
41 46 0.41
42 27 0.24
44 2 0.02
46 1 0.01
47 2 0.02
48 18 0.16
49 17 0.15
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:77973135 original size:48 final size:48
Alignment explanation
Indices: 77973063--77973198 Score: 161
Period size: 48 Copynumber: 2.9 Consensus size: 48
77973053 TATGGTCTTA
* *
77973063 CACATATTCATATATCGATGCCATAG-CCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-AAAT
*
77973112 CACATATCACATATCGATGCCATAGCCCAGTTATGGTCTTACACAAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAAAT
* * * * *
77973160 CACATATCTCA-CT-GATGTCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
77973199 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
46 23 0.29
47 1 0.01
48 31 0.40
49 23 0.29
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAAAT
Found at i:77973248 original size:47 final size:47
Alignment explanation
Indices: 77973078--77973245 Score: 171
Period size: 47 Copynumber: 3.6 Consensus size: 47
77973068 ATTCATATAT
* *
77973078 CGATGCCATAG-CCAGCTATGGTCTTACAC-GTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACAGT-ATCACATATCAC--AC
* * *
77973126 CGATGCCATAGCCCAGTTATGGTCTTACACA-AATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
* * * * * *
77973172 TGATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
* *
77973219 CGATGCCATATCCTAGATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
77973246 TACGGAAATC
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
46 27 0.27
47 35 0.35
48 22 0.22
49 17 0.17
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
CGATGCCATAGCCCAGATATGGTCTTACACAGTATCACATATCACAC
Found at i:77973302 original size:31 final size:31
Alignment explanation
Indices: 77973267--77973508 Score: 369
Period size: 31 Copynumber: 7.8 Consensus size: 31
77973257 CTTGTCACTT
77973267 GTAGCCGGAGCTACCA-TTATTCACTGATCAG
1 GTAGCCGGAGCTACCACTT-TTCACTGATCAG
* *
77973298 GTAGCCAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
*
77973329 GTAGCTGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
** *
77973360 GTAGTAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
** *
77973391 GTAGTAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
77973422 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
* *
77973453 GTAGCCAGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTGATCAG
77973484 GTAGCCGGAGCTACCACTTTTCACT
1 GTAGCCGGAGCTACCACTTTTCACT
77973509 TGTTATTTGT
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
31 194 0.99
32 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTGATCAG
Found at i:77973583 original size:50 final size:51
Alignment explanation
Indices: 77973484--77973612 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
77973474 CACTGATCAG
* * * * *
77973484 GTAGCCGGAGCTACCACTTTTCACTTGTTATTTGTCATTGATCATATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
* *
77973535 GTAGCCGAAGCTATTACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
77973585 GCAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
77973613 TGCCATGGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 45 0.66
51 23 0.34
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:77975806 original size:20 final size:19
Alignment explanation
Indices: 77975781--77975825 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
77975771 TAATTTAGCC
*
77975781 ATTTTTTATTTTTATTTTA
1 ATTTTTTATTTTTAATTTA
*
77975800 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
77975820 ATTTTT
1 ATTTTT
77975826 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:77986158 original size:16 final size:18
Alignment explanation
Indices: 77986132--77986164 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
77986122 TTAAATTAAC
77986132 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
77986149 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
77986165 CCCAATTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:77991038 original size:50 final size:50
Alignment explanation
Indices: 77990963--77991085 Score: 237
Period size: 50 Copynumber: 2.5 Consensus size: 50
77990953 TATGGCAACC
*
77990963 AGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
77991013 AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
1 AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
77991063 AGTGATAAGTGATAGCTTCGGCT
1 AGTGATAAGTGATAGCTTCGGCT
77991086 GGTAGCTTCG
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (50 bp):
AGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAGTGAA
Found at i:77991091 original size:13 final size:13
Alignment explanation
Indices: 77991075--77991111 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
77991065 TGATAAGTGA
77991075 TAGCTTCGGCTGG
1 TAGCTTCGGCTGG
77991088 TAGCTTCGGCTGG
1 TAGCTTCGGCTGG
77991101 TAGCTTCGGCT
1 TAGCTTCGGCT
77991112 ACCTGATCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.08, C:0.24, G:0.35, T:0.32
Consensus pattern (13 bp):
TAGCTTCGGCTGG
Found at i:77991136 original size:31 final size:31
Alignment explanation
Indices: 77991098--77991206 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
77991088 TAGCTTCGGC
77991098 TGGTAGCTTCGGCTACCTGATCAGTGAAAAG
1 TGGTAGCTTCGGCTACCTGATCAGTGAAAAG
* * * *
77991129 TGGTAGCTTTGGATACTTGATCAGTGAAAAA
1 TGGTAGCTTCGGCTACCTGATCAGTGAAAAG
* *
77991160 TGGTAGCTCCGGCTACCTGATCAGTGAATAG
1 TGGTAGCTTCGGCTACCTGATCAGTGAAAAG
77991191 TGGTAGCTTCGGCTAC
1 TGGTAGCTTCGGCTAC
77991207 AAGTGACAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
TGGTAGCTTCGGCTACCTGATCAGTGAAAAG
Found at i:77991294 original size:47 final size:46
Alignment explanation
Indices: 77991224--77991395 Score: 175
Period size: 47 Copynumber: 3.7 Consensus size: 46
77991214 AAGTGATTTC
* ** * * *
77991224 CGTATAAAACCATATTTAGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* * * *
77991270 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
* *
77991317 CGTGTAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTA
1 CGTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TA
* *
77991366 CGTGTAAGA-CATAGCTGGGCTATGGCATCG
1 CGTATAAGACCATAGCTGGGATATGGCATCG
77991396 ATATGTGAAT
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
46 28 0.26
47 38 0.36
48 31 0.29
49 10 0.09
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (46 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATA
Found at i:77991351 original size:41 final size:41
Alignment explanation
Indices: 77991275--77991480 Score: 159
Period size: 42 Copynumber: 4.7 Consensus size: 41
77991265 TGCTACTGTA
*
77991275 TAAGACCATATCTGGGATATGGCATCAGTGAGATATGTG-ATTCGTG
1 TAAGACCATAGCTGGGATATGGCATC-----GATATGTGAATT-GTG
77991321 TAAGACCATAGCTGGGATATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTG--A----ATT--GTG
*
77991370 TAAGA-CATAGCTGGGCTATGGCATCGATATGTGAATATGTG
1 TAAGACCATAGCTGGGATATGGCATCGATATGTGAAT-TGTG
* * * *
77991411 TAAGACCATAACTGGGCTGTGGCATC-ATTATGTGAAGATGTG
1 TAAGACCATAGCTGGGATATGGCATCGA-TATGTGAA-TTGTG
*
77991453 TAAGACCATAG-TGGAACTATGGCATCGA
1 TAAGACCATAGCTGGGA-TATGGCATCGA
77991481 GAAAATGAAG
Statistics
Matches: 137, Mismatches: 9, Indels: 31
0.77 0.05 0.18
Matches are distributed among these distances:
41 20 0.15
42 50 0.36
43 2 0.01
46 26 0.19
48 30 0.22
49 9 0.07
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (41 bp):
TAAGACCATAGCTGGGATATGGCATCGATATGTGAATTGTG
Found at i:77991379 original size:48 final size:48
Alignment explanation
Indices: 77991242--77991410 Score: 195
Period size: 48 Copynumber: 3.5 Consensus size: 48
77991232 ACCATATTTA
* * * * *
77991242 GGATATGGCATCG-GTGTGATATATG-CTACTGTATAAGACCATATCTG
1 GGATATGGCATCGAATGTGATATGTGATTAC-GTGTAAGACCATAGCTG
* *
77991289 GGATATGGCATC-AGTGAGATATGTGATT-CGTGTAAGACCATAGCTG
1 GGATATGGCATCGAATGTGATATGTGATTACGTGTAAGACCATAGCTG
77991335 GGATATGGCATCGATATGTGATATGTGATTACGTGTAAGA-CATAGCTG
1 GGATATGGCATCGA-ATGTGATATGTGATTACGTGTAAGACCATAGCTG
*
77991383 GGCTATGGCATCGATATGTGAATATGTG
1 GGATATGGCATCGA-ATGTG-ATATGTG
77991411 TAAGACCATA
Statistics
Matches: 108, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
46 27 0.25
47 24 0.22
48 41 0.38
49 16 0.15
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (48 bp):
GGATATGGCATCGAATGTGATATGTGATTACGTGTAAGACCATAGCTG
Found at i:78009650 original size:22 final size:22
Alignment explanation
Indices: 78009624--78009668 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
78009614 TTTAGCCATG
78009624 ATTGTGGATGTTTGGTTGCCTA
1 ATTGTGGATGTTTGGTTGCCTA
78009646 ATTGTGGATGTTTGGTTGCCTA
1 ATTGTGGATGTTTGGTTGCCTA
78009668 A
1 A
78009669 GTATATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.44
Consensus pattern (22 bp):
ATTGTGGATGTTTGGTTGCCTA
Found at i:78011548 original size:44 final size:45
Alignment explanation
Indices: 78011475--78012050 Score: 476
Period size: 44 Copynumber: 12.8 Consensus size: 45
78011465 TCATGGCGAA
* * * * *
78011475 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAAC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * * *
78011520 T-TTATCTCTCTGAAGTTGCAGTGAAGCAGGTTGAAGTTACATA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * * * *
78011563 TATTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGATA-ACAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACA-AAC
* * * * *
78011608 TCTTATCTCTCTGAAGTTGCAATGGAACAGATTGAAAATAGAAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * * * * *
78011653 TCTTATCTCTCTGATGTTGCAGTAGAGTAGATTAAAGCTATAAAC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * * * *
78011698 -CTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTGAAGTTAC-AAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * *
78011741 TCTCATCT-TCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAAC
* * *
78011786 TCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTAAAGTTATA-AATTAC
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTGAAG--ATACAA--AC
* * * * *
78011834 AAATCTTATCTCCCTGTAGTTACAGTGGAGCAGATTGAAGTTACAGAC
1 ---TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * *
78011882 -CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAAC
* * * *
78011926 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGATGCTACAAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* * *
78011970 TCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTACTAA-
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
* *
78012014 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG
78012051 TGGCAAGTCC
Statistics
Matches: 431, Mismatches: 79, Indels: 43
0.78 0.14 0.08
Matches are distributed among these distances:
43 5 0.01
44 243 0.56
45 141 0.33
46 3 0.01
47 4 0.01
48 2 0.00
49 2 0.00
50 1 0.00
51 29 0.07
52 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (45 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAAC
Found at i:78011702 original size:89 final size:88
Alignment explanation
Indices: 78011473--78012050 Score: 557
Period size: 89 Copynumber: 6.4 Consensus size: 88
78011463 CATCATGGCG
* * * *
78011473 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAACTTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCTCTGAAGTTG
* *
78011538 CAGT-GAAGCAGGTTGAAGTTACA
66 CAGTGGAA-CAGATTGAAGATACA
* * * * * **
78011561 TATATTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGATAACAAGTCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACAAACCTTATCTCTCTGAAGTT
* * *
78011626 GCAATGGAACAGATTGAAAATAGAA
65 GCAGTGGAACAGATTGAAGATA-CA
* * * * * * *
78011651 AATCTTATCTCTCTGATGTTGCAGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCTCTGAAGTTG
* * * *
78011716 TAGTGGAGCAGGTTGAAGTTACA
66 CAGTGGAACAGATTGAAGATACA
* * * * * * * *
78011739 AGTCTCATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAT-TTTCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAACCTTATCTCT-CTGAAGT
*
78011803 TGCAGTGGAACAGATTAAAGTTATAAATTACA
64 TGCAGTGGAACAGATT---G--A-AGA-TACA
* * * * *
78011835 AATCTTATCTCCCTGTAGTTACAGTGGAGCAGATTGAAGTTACAGACCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCTCTGAAGTTG
** *
78011900 CAGTGGAGTAGATCGAAGATAGCA
66 CAGTGGAACAGATTGAAGATA-CA
* * * * *
78011924 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTGATGCTACAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCTCTGAAGTTG
* *
78011989 CAGTGGAACAGATTGAAGCTACT
66 CAGTGGAACAGATTGAAGATACA
*
78012012 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
78012051 TGGCAAGTCC
Statistics
Matches: 383, Mismatches: 93, Indels: 28
0.76 0.18 0.06
Matches are distributed among these distances:
88 106 0.28
89 170 0.44
90 36 0.09
92 2 0.01
94 1 0.00
95 28 0.07
96 40 0.10
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAACCTTATCTCTCTGAAGTTG
CAGTGGAACAGATTGAAGATACA
Found at i:78011818 original size:133 final size:133
Alignment explanation
Indices: 78011475--78012050 Score: 570
Period size: 133 Copynumber: 4.3 Consensus size: 133
78011465 TCATGGCGAA
* * * *
78011475 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTA-TAAA-CTTTATCTCTCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC-TTATCTCTCTGAAGTTG
* * * * * ** * *
78011538 CAGT-GAAGCAGGTTGAAGTTACATATATTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGAT
65 CAGTAG-AGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T
*
78011602 AACAAG
128 TACAAG
* * * * * *
78011608 TCTTATCTCTCTGAAGTTGCAATGGAACAGATTGAAAATAGAAAATCTTATCTCTCTGATGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
* * * * *
78011673 AGTAGAGTAGATTAAAGCTATAAACCTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTGAAGTTAC
66 AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
78011738 AAG
131 AAG
* * * * *
78011741 TCTCATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTAT-TTTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT-CTGAAGTTG
* * * * *
78011805 CAGTGGAACAGATTAAAGTTATAAATTACAAATCTTATCTCCCTGTAGTTACAGTGGAGCAGATT
65 CAGTAGAGCAGATTAAAGCTAT-AA--AC----CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
78011870 GAAGTTAC-AG
123 GAAGTTACAAG
* * * *
78011880 ACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTG
* * * * * * *
78011945 CAGTAGAGCAGATTGATGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTA
65 CAGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
78012010 CTAA-
130 C-AAG
*
78012014 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
78012051 TGGCAAGTCC
Statistics
Matches: 362, Mismatches: 66, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
132 2 0.01
133 177 0.49
134 69 0.19
135 3 0.01
136 2 0.01
137 1 0.00
139 4 0.01
140 102 0.28
141 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
AAG
Found at i:78011929 original size:273 final size:274
Alignment explanation
Indices: 78011556--78012050 Score: 672
Period size: 273 Copynumber: 1.8 Consensus size: 274
78011546 CAGGTTGAAG
* * * * *
78011556 TTACATATATTATCTCCCTGAAGTTGCAATGGAGCAGGTTGAAGATAACAAGTCTTATCTCTCTG
1 TTACAAATATTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGATAACAAGCCTTATCTCCCTG
* * * *
78011621 AAGTTGCAATGGAACAGATTGAAAATAGAAAATCTTATCTCTCTGATGTTGCAGTAGAGTAGATT
66 AAGTTGCAATGGAACAGATCGAAAATAGAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT
* * * * * *
78011686 AAAGCTATAAACCTTATCTCTCTAAAGTTGTAGTGGAGCAGGTTGAAGTTAC-AAGTCTCATCTT
131 AAAGCTACAAACCTTATCTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTACTAA-TCTCATCTC
78011750 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACA
195 CCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACA
78011815 GATTAAAGTTATAAA
260 GATTAAAGTTATAAA
* * * *
78011830 TTACAAATCTTATCTCCCTGTAGTTACAGTGGAGCAGATTGAAG-TTAC-AGACCTTATCTCCCT
1 TTACAAATATTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGATAACAAG-CCTTATCTCCCT
* ** * *
78011893 GAAGTTGCAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGAT
65 GAAGTTGCAATGGAACAGATCGAAAATAGAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGAT
* * * * *
78011958 TGATGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTACTAATCTTATCTC
130 TAAAGCTACAAACCTTATCTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTACTAATCTCATCTC
* *
78012023 CCTGAAGTTGCAGTGGAGTAGATTGAAG
195 CCTGAAGTTGCAGTGGAGCAGACTGAAG
78012051 TGGCAAGTCC
Statistics
Matches: 188, Mismatches: 31, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
272 2 0.01
273 146 0.78
274 40 0.21
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (274 bp):
TTACAAATATTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGATAACAAGCCTTATCTCCCTG
AAGTTGCAATGGAACAGATCGAAAATAGAAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATT
AAAGCTACAAACCTTATCTCTCTAAAGTTGCAGTGGAACAGATTGAAGCTACTAATCTCATCTCC
CTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACAG
ATTAAAGTTATAAA
Found at i:78013730 original size:4 final size:4
Alignment explanation
Indices: 78013721--78013748 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
78013711 ATTGTGCATT
78013721 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
78013749 CTACTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:78013791 original size:3 final size:3
Alignment explanation
Indices: 78013785--78013889 Score: 174
Period size: 3 Copynumber: 35.0 Consensus size: 3
78013775 GATTTTATTA
* *
78013785 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TGG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
* *
78013833 TTG TGG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TGG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
78013881 TTG TTG TTG
1 TTG TTG TTG
78013890 ATATTATCAT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 94 1.00
ACGTcount: A:0.01, C:0.00, G:0.35, T:0.64
Consensus pattern (3 bp):
TTG
Found at i:78018065 original size:10 final size:10
Alignment explanation
Indices: 78018050--78018076 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
78018040 AAAATCTTTG
78018050 AATATAATTT
1 AATATAATTT
78018060 AATATAATTT
1 AATATAATTT
78018070 AATATAA
1 AATATAA
78018077 AAATTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AATATAATTT
Found at i:78020179 original size:74 final size:74
Alignment explanation
Indices: 78020058--78020206 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
78020048 AAAATATAGG
*
78020058 ATTTCGAGTGAATTTCGGTGAATTGATTAGTGTTTACCTTAAAATTAAGGTATCGGTACATTTTG
1 ATTTCGAGTGAATTTCGGTGAATTGATTAGTGTTTACCCTAAAATTAAGGTATCGGTACATTTTG
78020123 TATGGCTAA
66 TATGGCTAA
*
78020132 ATTTCGAGTGAATTTCGGTGAATTGGTTAGTGTTTACCCTAAAATTAAGGTATCGGTACATTTTG
1 ATTTCGAGTGAATTTCGGTGAATTGATTAGTGTTTACCCTAAAATTAAGGTATCGGTACATTTTG
78020197 TATGGCTAA
66 TATGGCTAA
78020206 A
1 A
78020207 ACTCGCACGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (74 bp):
ATTTCGAGTGAATTTCGGTGAATTGATTAGTGTTTACCCTAAAATTAAGGTATCGGTACATTTTG
TATGGCTAA
Found at i:78020441 original size:21 final size:21
Alignment explanation
Indices: 78020411--78020488 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
78020401 TACTGATACG
* *
78020411 CCCGAGTCACCCGATTCCACA
1 CCCGAATCACCTGATTCCACA
78020432 CCCGAATCACCTGATTCCACA
1 CCCGAATCACCTGATTCCACA
78020453 CCCGAATCACCTGATTCCACA
1 CCCGAATCACCTGATTCCACA
**
78020474 CCCGAGGCACCTGAT
1 CCCGAATCACCTGAT
78020489 GATGACTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.26, C:0.44, G:0.14, T:0.17
Consensus pattern (21 bp):
CCCGAATCACCTGATTCCACA
Found at i:78024218 original size:172 final size:172
Alignment explanation
Indices: 78023932--78024275 Score: 634
Period size: 172 Copynumber: 2.0 Consensus size: 172
78023922 AGATATAGAA
*
78023932 ATATCACTGAGTTTTACTCAGCGTACAGTTTTGCTTTTCGTGCACAGGTTAGGTACTTCTCTTTT
1 ATATCACTGAGTTTTACTCAGCGTACAGTTTTCCTTTTCGTGCACAGGTTAGGTACTTCTCTTTT
* *
78023997 GATCGTCGATTCAGCATTTAGCAACAATCCCGAACTCAAATGTGGTGATGTTTATCTTTTGTGTC
66 GATCGTCGATTCAACATTTAGCAACAATCCCAAACTCAAATGTGGTGATGTTTATCTTTTGTGTC
*
78024062 GGCATGTACCTAGGATGTCTAATTGATAGTTATTTTGTGGAT
131 AGCATGTACCTAGGATGTCTAATTGATAGTTATTTTGTGGAT
*
78024104 ATATCACTGAGTTTTACTCAGCGTACAGTTTTCCTTTTTGTGCACAGGTTAGGTACTTCTCTTTT
1 ATATCACTGAGTTTTACTCAGCGTACAGTTTTCCTTTTCGTGCACAGGTTAGGTACTTCTCTTTT
*
78024169 GATCGTCGATTCAACATTTAGCAACGATCCCAAACTCAAATGTGGTGATGTTTATCTTTTGTGTC
66 GATCGTCGATTCAACATTTAGCAACAATCCCAAACTCAAATGTGGTGATGTTTATCTTTTGTGTC
78024234 AGCATGTACCTAGGATGTCTAATTGATAGTTATTTTGTGGAT
131 AGCATGTACCTAGGATGTCTAATTGATAGTTATTTTGTGGAT
78024276 GAATTGTAAA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 166 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (172 bp):
ATATCACTGAGTTTTACTCAGCGTACAGTTTTCCTTTTCGTGCACAGGTTAGGTACTTCTCTTTT
GATCGTCGATTCAACATTTAGCAACAATCCCAAACTCAAATGTGGTGATGTTTATCTTTTGTGTC
AGCATGTACCTAGGATGTCTAATTGATAGTTATTTTGTGGAT
Found at i:78026842 original size:16 final size:17
Alignment explanation
Indices: 78026821--78026853 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78026811 TTTAAAAGGG
78026821 TCAAA-CTTTTTTTTAC
1 TCAAACCTTTTTTTTAC
78026837 TCAAACCCTTTTTTTTA
1 TCAAA-CCTTTTTTTTA
78026854 TTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (17 bp):
TCAAACCTTTTTTTTAC
Found at i:78030659 original size:14 final size:14
Alignment explanation
Indices: 78030640--78030673 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
78030630 TGTTTTACTG
78030640 AAAATGGTTTCTGA
1 AAAATGGTTTCTGA
* *
78030654 AAAATGTTTTTTGA
1 AAAATGGTTTCTGA
78030668 AAAATG
1 AAAATG
78030674 ACTTAGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
AAAATGGTTTCTGA
Found at i:78031129 original size:41 final size:41
Alignment explanation
Indices: 78031067--78031151 Score: 161
Period size: 41 Copynumber: 2.1 Consensus size: 41
78031057 AAAGTAGAAG
*
78031067 TATAGAGACTAAATTGTAAATTTGTGAAGAGCACATAGATT
1 TATAGAGACTAAATTGCAAATTTGTGAAGAGCACATAGATT
78031108 TATAGAGACTAAATTGCAAATTTGTGAAGAGCACATAGATT
1 TATAGAGACTAAATTGCAAATTTGTGAAGAGCACATAGATT
78031149 TAT
1 TAT
78031152 GACATATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (41 bp):
TATAGAGACTAAATTGCAAATTTGTGAAGAGCACATAGATT
Found at i:78031231 original size:19 final size:17
Alignment explanation
Indices: 78031177--78031226 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
78031167 TTATACTATA
78031177 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
78031194 --ATATTTATAATTGTAAT
1 AAATATTTATTA-T-TAAT
78031211 AAATATTTATTATTAA
1 AAATATTTATTATTAA
78031227 AATAATTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 9 0.33
16 1 0.04
17 7 0.26
18 1 0.04
19 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:78033615 original size:45 final size:45
Alignment explanation
Indices: 78033552--78033647 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
78033542 ATCTCTAAAT
78033552 GAAG-TTTGCTTAGTAAACTACACCATTAGTTATTAAAATATAGA
1 GAAGTTTTGCTTAGTAAACTACACCATTAGTTATTAAAATATAGA
78033596 GAAGTTTTGCTTAGTAAACTACACCATTAGTTATTAAAATATAGA
1 GAAGTTTTGCTTAGTAAACTACACCATTAGTTATTAAAATATAGA
78033641 GAAGTTT
1 GAAGTTT
78033648 CCGTCACTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 4 0.08
45 47 0.92
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (45 bp):
GAAGTTTTGCTTAGTAAACTACACCATTAGTTATTAAAATATAGA
Found at i:78033907 original size:18 final size:18
Alignment explanation
Indices: 78033880--78033914 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
78033870 AAAATTTCTT
78033880 TTTCAGATTCAATTTAAAA
1 TTTCAGATTC-ATTTAAAA
78033899 TTTCA-ATTCATTTAAA
1 TTTCAGATTCATTTAAA
78033915 TTAATTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTCAGATTCATTTAAAA
Found at i:78036774 original size:17 final size:17
Alignment explanation
Indices: 78036734--78036774 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
78036724 TCAATTTAGT
*
78036734 AAAAAGGACTAAATTGA
1 AAAAAGTACTAAATTGA
*
78036751 AAAAAGTACTAAATTGC
1 AAAAAGTACTAAATTGA
78036768 AAAAAGT
1 AAAAAGT
78036775 GCAAAACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (17 bp):
AAAAAGTACTAAATTGA
Found at i:78039730 original size:28 final size:28
Alignment explanation
Indices: 78039674--78039732 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
78039664 TAACGTGCTC
* *
78039674 TCTATTATTATATGCACTACAGTGTTGT
1 TCTATTATTATAAGCACTACAGTGCTGT
78039702 TCTATT-TTGATAAGCACTAC-GTTGCTGT
1 TCTATTATT-ATAAGCACTACAG-TGCTGT
78039730 TCT
1 TCT
78039733 GTTCTGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (28 bp):
TCTATTATTATAAGCACTACAGTGCTGT
Found at i:78040396 original size:20 final size:20
Alignment explanation
Indices: 78040372--78040429 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
78040362 TACCTTGTAT
**
78040372 AGAGTATTGATACTTTGAGG
1 AGAGTATTGATACTTTGACA
* ** *
78040392 GGAGTATCAATACTTTAACA
1 AGAGTATTGATACTTTGACA
78040412 AGAGTATTGATACTTTGA
1 AGAGTATTGATACTTTGA
78040430 ATTTTGCTGA
Statistics
Matches: 28, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (20 bp):
AGAGTATTGATACTTTGACA
Found at i:78043674 original size:16 final size:16
Alignment explanation
Indices: 78043653--78043684 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78043643 ATTTAGGGTT
78043653 TTTTTTTAATATTTGA
1 TTTTTTTAATATTTGA
*
78043669 TTTTTTTAATTTTTGA
1 TTTTTTTAATATTTGA
78043685 GTTAAATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTTTTTAATATTTGA
Found at i:78051526 original size:28 final size:29
Alignment explanation
Indices: 78051482--78051558 Score: 86
Period size: 28 Copynumber: 2.6 Consensus size: 29
78051472 TTTATTAGTT
*
78051482 TATATATTTATAATTTTTAA-AGAATTAAAT
1 TATA-ATTTAT-ATTTTTAAGAGAATTAAAA
* *
78051512 TA-AATTTTTATTTTTAAGAGAGTTAAAA
1 TATAATTTATATTTTTAAGAGAATTAAAA
78051540 TATAATTTATATTTATTAA
1 TATAATTTATATTT-TTAA
78051559 TTTTAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 8 0.20
28 15 0.38
29 11 0.28
30 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (29 bp):
TATAATTTATATTTTTAAGAGAATTAAAA
Found at i:78057793 original size:132 final size:131
Alignment explanation
Indices: 78057552--78057950 Score: 532
Period size: 132 Copynumber: 3.0 Consensus size: 131
78057542 ATTATTCATT
* *
78057552 TAAAAACTCTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCG-GGAATCGTGCCCTATCGT
* * * *
78057617 GTTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTCATGTTT
65 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
78057682 TC
130 TC
* * *
78057684 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCAGGGAGTCGTGCCCTATCAT
1 TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGT
*
78057749 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTCT
65 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTT
78057814 T-
130 TC
* * * ** *
78057815 TAAAAACTCTTT-AAAGGAAAGGCAATATTCGATGTTTGGAAATTCGGGGAATAATGTCCTATCG
1 TAAAAACTCTTTAAAACG-AAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCG
* * * * * * *
78057879 TGCTGGGTTTCGATTTTCCGTTTGTTCAAAATAATCAAATATTCCTTTGGAATTTCACTCGTGTT
64 TGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTT
78057944 ATTC
129 -TTC
78057948 TAA
1 TAA
78057951 GGCGAGGCAA
Statistics
Matches: 235, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
130 4 0.02
131 106 0.45
132 121 0.51
133 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TAAAAACTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTG
CTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTTT
C
Found at i:78061866 original size:12 final size:12
Alignment explanation
Indices: 78061849--78061896 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
78061839 TGTCATTAAC
78061849 ATATAAAACCAA
1 ATATAAAACCAA
*
78061861 ATATAAAACTTTAA
1 ATATAAAAC--CAA
78061875 CATATAAAACCAA
1 -ATATAAAACCAA
78061888 ATATAAAAC
1 ATATAAAAC
78061897 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:78061882 original size:27 final size:27
Alignment explanation
Indices: 78061844--78061900 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
78061834 CAGTATGTCA
78061844 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
78061871 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
78061898 TTA
1 TTA
78061901 CTCCCACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:78066621 original size:29 final size:29
Alignment explanation
Indices: 78066588--78066663 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
78066578 GAAATGCAGA
* *
78066588 AAAACGCTTCCAGTTGGAAACGTTTATGG
1 AAAACGCTTCCAGCTGGAAACATTTATGG
*
78066617 AAAACGTTTCCAGCTGGAAACATTTATGG
1 AAAACGCTTCCAGCTGGAAACATTTATGG
*
78066646 AAAATGCATT-CAGCTGGA
1 AAAACGC-TTCCAGCTGGA
78066664 TGCGTTCCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 39 0.95
30 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (29 bp):
AAAACGCTTCCAGCTGGAAACATTTATGG
Found at i:78070293 original size:23 final size:23
Alignment explanation
Indices: 78070222--78070293 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
78070212 AGTTAGATTT
*
78070222 TTTTAAAATATTATTATTAAATAA
1 TTTT-AAATATTATTAATAAATAA
**
78070246 TCCTAAATATTATTAATAAATAA
1 TTTTAAATATTATTAATAAATAA
* *
78070269 TTTTAAATATTATCACTAAATAA
1 TTTTAAATATTATTAATAAATAA
78070292 TT
1 TT
78070294 CAAAATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 39 0.95
24 2 0.05
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTAAATATTATTAATAAATAA
Found at i:78070709 original size:20 final size:20
Alignment explanation
Indices: 78070656--78070710 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
78070646 TACAAAATAT
78070656 TTATATTAAAAACACTATTATA
1 TTATATTAAAAA-A-TATTATA
* * *
78070678 -AATA-TAATAAATATTTTA
1 TTATATTAAAAAATATTATA
78070696 TTATATTAAAAAATA
1 TTATATTAAAAAATA
78070711 CAAATAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 13 0.50
21 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
TTATATTAAAAAATATTATA
Found at i:78074508 original size:15 final size:15
Alignment explanation
Indices: 78074488--78074517 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
78074478 AGTTATCATC
78074488 ATATTCCATATTTAA
1 ATATTCCATATTTAA
78074503 ATATTCCATATTTAA
1 ATATTCCATATTTAA
78074518 TTTTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTCCATATTTAA
Found at i:78081762 original size:6 final size:6
Alignment explanation
Indices: 78081751--78081782 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
78081741 ATCCTCAATT
78081751 TCACCA TCACCA TCACCA TCACCA TCACCA TC
1 TCACCA TCACCA TCACCA TCACCA TCACCA TC
78081783 TTCTACAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
TCACCA
Found at i:78087451 original size:26 final size:26
Alignment explanation
Indices: 78087415--78087471 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
78087405 ATGATGAAAC
78087415 TATGACTTCATAAAATGCTTAAAAGT
1 TATGACTTCATAAAATGCTTAAAAGT
78087441 TATGACTTCATAAAATGCTTAAAAGT
1 TATGACTTCATAAAATGCTTAAAAGT
78087467 T-TGAC
1 TATGAC
78087472 CATCAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 27 0.87
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (26 bp):
TATGACTTCATAAAATGCTTAAAAGT
Found at i:78088782 original size:135 final size:138
Alignment explanation
Indices: 78088504--78088822 Score: 436
Period size: 135 Copynumber: 2.3 Consensus size: 138
78088494 CGGGACACGG
* ***
78088504 TATTTAACTCCGATT---ACACTCTCTAAATCAAATTCAAAATTAAGTTAATATTTTTTTTCAAA
1 TATTTAACTCCGATTGCAACACTCTCTAAATCAAATTCAAAATTAAATTAATA-TTTTTAAAAAA
* **
78088566 GTTAATAACTTGGAACTGAAATTAAAAGTTCAAAATTCGGCACAAAAGAAACTAAAATCAAATTC
65 GATAATAACTTGGAACTGAAATTAAAAGTTCAAAATTCACCACAAAAGAAACTAAAATCAAATTC
78088631 AAATTTTGA
130 AAATTTTGA
*
78088640 TAGTTAACTCCGATTGCAACACTCTCTAAATCAAATTCAAAATTAAATT-A-A-TTTTAAAAAAG
1 TATTTAACTCCGATTGCAACACTCTCTAAATCAAATTCAAAATTAAATTAATATTTTTAAAAAAG
* *
78088702 ATACTAACTTGGAACTGAAATTAAAAGTTCAAAATTCACCACAAAAGAAGCT-AAATCAAATTCA
66 ATAATAACTTGGAACTGAAATTAAAAGTTCAAAATTCACCACAAAAGAAACTAAAATCAAATTCA
78088766 AATTTTGA
131 AATTTTGA
* * * *
78088774 TATTTTAACTCCGATTGCAACCCTTTATAAATCAAACATCAAAATTAAA
1 TA-TTTAACTCCGATTGCAACACTCTCTAAATCAAA-TTCAAAATTAAA
78088823 ACCTTTTAAG
Statistics
Matches: 163, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
134 22 0.13
135 84 0.52
136 25 0.15
137 1 0.01
138 1 0.01
139 30 0.18
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (138 bp):
TATTTAACTCCGATTGCAACACTCTCTAAATCAAATTCAAAATTAAATTAATATTTTTAAAAAAG
ATAATAACTTGGAACTGAAATTAAAAGTTCAAAATTCACCACAAAAGAAACTAAAATCAAATTCA
AATTTTGA
Found at i:78092925 original size:29 final size:31
Alignment explanation
Indices: 78092854--78092931 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 31
78092844 ATTAATGCTT
* *
78092854 AGTGACTAAAATATTACAACACGATAATGTA
1 AGTGACTAAAATATAACAACACGATAATATA
* * *
78092885 AATGACTAAAATGTAACAATAC-A-AATATA
1 AGTGACTAAAATATAACAACACGATAATATA
78092914 AGTGACTAAAATATAACA
1 AGTGACTAAAATATAACA
78092932 TGAAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.54, C:0.12, G:0.10, T:0.24
Consensus pattern (31 bp):
AGTGACTAAAATATAACAACACGATAATATA
Found at i:78092943 original size:29 final size:29
Alignment explanation
Indices: 78092887--78092943 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
78092877 ATAATGTAAA
* * *
78092887 TGACTAAAATGTAACAATACAAATATAAG
1 TGACTAAAATATAACAATAAAAAAATAAG
78092916 TGACTAAAATATAAC-ATGAAAAAAATAA
1 TGACTAAAATATAACAAT-AAAAAAATAA
78092944 AAATGACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (29 bp):
TGACTAAAATATAACAATAAAAAAATAAG
Found at i:78095803 original size:39 final size:39
Alignment explanation
Indices: 78095749--78096004 Score: 363
Period size: 39 Copynumber: 6.5 Consensus size: 39
78095739 TAATGGAGAA
*
78095749 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
*
78095788 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTA
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
*
78095827 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
*
78095866 TT-TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
78095904 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
78095943 TTATATCTGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGG-TTAAGTCCCGAAGGCATTCGTGCTGGTG
*
78095982 TTATATCTGGGCTTAAAGTCCCG
1 TTATATCCGGG-TT-AAGTCCCG
78096005 CATGCTTTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
38 38 0.19
39 143 0.71
40 20 0.10
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:78095908 original size:77 final size:78
Alignment explanation
Indices: 78095748--78096004 Score: 392
Period size: 77 Copynumber: 3.3 Consensus size: 78
78095738 ATAATGGAGA
* * *
78095748 ATTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGTTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
78095813 CATTCGTGCTGGT
66 CATTCGTGCTGGT
78095826 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTT-TATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
78095890 CATTCGTGCTGGT
66 CATTCGTGCTGGT
* * * *
78095903 GTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGTTGGTGTTATATCTGGGCTAAAGTCCCGCAG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCT-AAGTCCCGAAG
*
78095968 GC-TTTGTGCTGGT
65 GCATTCGTGCTGGT
*
78095981 ATTATATCTGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
78096005 CATGCTTTGT
Statistics
Matches: 165, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
77 74 0.45
78 70 0.42
79 13 0.08
80 8 0.05
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (78 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
CATTCGTGCTGGT
Found at i:78095956 original size:116 final size:117
Alignment explanation
Indices: 78095748--78096004 Score: 383
Period size: 116 Copynumber: 2.2 Consensus size: 117
78095738 ATAATGGAGA
* *
78095748 ATTATATCCGGGTTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGTTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGG
78095813 CATTCGTGCTGGTATTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGT
66 CATTCGTGCTGGTATTATATCCGGGCTAAAGTCCCGAAGGC-TTCGTGCTGGT
* *
78095865 GTT-TATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGG
1 ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGG
* * * * *
78095929 CATTCGTGTTGGTGTTATATCTGGGCTAAAGTCCCGCAGGCTTTGTGCTGGT
66 CATTCGTGCTGGTATTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCTGGT
*
78095981 ATTATATCTGGGCTTAAAGTCCCG
1 ATTATATCCGGGC-T-AAGTCCCG
78096005 CATGCTTTGT
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
116 94 0.75
117 22 0.18
118 1 0.01
119 8 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (117 bp):
ATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATATCCGGGCTAAGTCCCGAAGG
CATTCGTGCTGGTATTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCTGGT
Found at i:78103818 original size:43 final size:43
Alignment explanation
Indices: 78103746--78104058 Score: 292
Period size: 43 Copynumber: 7.3 Consensus size: 43
78103736 AAATTTTGCG
** *
78103746 GCCGCTAAAGACCATGACCTTT-ACTGGCGCTTTTTTCACAAGC
1 GCCGCTAAAGACCATGACCTTTAAC-GGCGCTTTTCCCACAAAC
*
78103789 GCCGCTAAAGACCATGACTTTTAACGGCGC-TTTCCCTACAAAC
1 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCC-ACAAAC
* * * * * *
78103832 GCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAAC
1 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
* * * * *
78103875 GCCGCTAAAAACCATGACTTTTAGCGACGCTTTTCCCGCAAAC
1 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
* * *
78103918 GCCGCTAAAGACCATGACTTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
* * ***
78103961 GCCGCTAAAGACCATGACCTTTAACGGTGTTTTTTTTACAAAC
1 GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
* * * * ** *
78104004 ACCGCTATAA-AACA-AACCTTTAACGACGCTTTTGTCACAAGC
1 GCCGCTA-AAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
*
78104046 GCAGCTAAAGACC
1 GCCGCTAAAGACC
78104059 TTTAAATATA
Statistics
Matches: 225, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.01
42 32 0.14
43 182 0.81
44 9 0.04
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCCACAAAC
Found at i:78103976 original size:129 final size:129
Alignment explanation
Indices: 78103746--78103983 Score: 370
Period size: 129 Copynumber: 1.8 Consensus size: 129
78103736 AAATTTTGCG
* * ** *
78103746 GCCGCTAAAGACCATGACCTTTACTGGCGCTTTTTTCACAAGCGCCGCTAAAGACCATGACTTTT
1 GCCGCTAAAAACCATGACCTTTACTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTTT
*
78103811 AACGGCGCTTTCCCTACAAACGCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAAC
66 AACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAAC
* *
78103875 GCCGCTAAAAACCATGACTTTTAGC-GACGCTTTTCCCGCAAACGCCGCTAAAGACCATGACTTT
1 GCCGCTAAAAACCATGACCTTTA-CTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTT
* *
78103939 TAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGACCTTTA
65 TAACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTA
78103984 ACGGTGTTTT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 97 0.99
130 1 0.01
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (129 bp):
GCCGCTAAAAACCATGACCTTTACTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTTT
AACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAAC
Found at i:78104003 original size:86 final size:86
Alignment explanation
Indices: 78103746--78104058 Score: 328
Period size: 86 Copynumber: 3.7 Consensus size: 86
78103736 AAATTTTGCG
* *
78103746 GCCGCTAAAGACCATGACCTTTA-CTGGCGCTTTTTTCACAAGCGCCGCTAAAGACCATGACTTT
1 GCCGCTAAAGACCATGACCTTTAGC-GGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACTTT
*
78103810 TAACGGCGCTTTCCCTACAAAC
65 TAACGGCGCTTTTCCTACAAAC
* * * * *
78103832 GCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAACGCCGCTAAAAACCATGACTTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACTTTT
* * **
78103897 AGCGACGCTTTTCCCGCAAAC
66 AACGGCGCTTTTCCTACAAAC
* ** *
78103918 GCCGCTAAAGACCATGACTTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGACCTTT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACTTTT
* * **
78103983 AACGGTGTTTTTTTTACAAAC
66 AACGGCGCTTTTCCTACAAAC
* * * * * * *
78104004 ACCGCTATAA-AACA-AACCTTTAACGACGCTTTTGT-CACAAGCGCAGCTAAAGACC
1 GCCGCTA-AAGACCATGACCTTTAGCGGCGCTTTT-TCCACAAACGCCGCTAAAGACC
78104059 TTTAAATATA
Statistics
Matches: 185, Mismatches: 39, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
85 32 0.17
86 150 0.81
87 3 0.02
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACTTTT
AACGGCGCTTTTCCTACAAAC
Found at i:78104009 original size:129 final size:129
Alignment explanation
Indices: 78103747--78104058 Score: 353
Period size: 129 Copynumber: 2.4 Consensus size: 129
78103737 AATTTTGCGG
* * ** *
78103747 CCGCTAAAGACCATGACCTTTACTGGCGCTTTTTTCACAAGCGCCGCTAAAGACCATGACTTTTA
1 CCGCTAAAAACCATGACCTTTACTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTTTA
* * * *
78103812 ACGGCGCTTTCCCTACAAACGCCACTAAAGACCATGACCTTTAGCGACACTTTTTCCGCAAACG
66 ACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTAACGACACTTTTTCCACAAACA
* *
78103876 CCGCTAAAAACCATGACTTTTAGC-GACGCTTTTCCCGCAAACGCCGCTAAAGACCATGACTTTT
1 CCGCTAAAAACCATGACCTTTA-CTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTTT
* * **** **
78103940 AGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGACCTTTAACGGTGTTTTTTTTACAAACA
65 AACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTAACGACACTTTTTCCACAAACA
* ** * *
78104005 CCGCTATAAAA-CA-AACCTTTAAC-GACGCTTTTGTCACAAGCGCAGCTAAAGACC
1 CCGCTA-AAAACCATGACCTTT-ACTGACGCTTTTCCCACAAACGCCGCTAAAGACC
78104059 TTTAAATATA
Statistics
Matches: 154, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
128 32 0.21
129 117 0.76
130 5 0.03
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (129 bp):
CCGCTAAAAACCATGACCTTTACTGACGCTTTTCCCACAAACGCCGCTAAAGACCATGACTTTTA
ACGGCGCTTTCCCCACAAACGCCACTAAAGACCATGACCTTTAACGACACTTTTTCCACAAACA
Found at i:78104688 original size:24 final size:24
Alignment explanation
Indices: 78104660--78104706 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
78104650 CTTCAACACC
78104660 TGCCTCTTCCTATGTTTCCCTTAT
1 TGCCTCTTCCTATGTTTCCCTTAT
*
78104684 TGCCTCTTCCTATGTTTCTCTTA
1 TGCCTCTTCCTATGTTTCCCTTA
78104707 CTAAGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.32, G:0.09, T:0.51
Consensus pattern (24 bp):
TGCCTCTTCCTATGTTTCCCTTAT
Found at i:78107625 original size:18 final size:17
Alignment explanation
Indices: 78107602--78107635 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78107592 TATCTCTTAA
78107602 ATAATTTAAATTATATTG
1 ATAATTTAAA-TATATTG
*
78107620 ATAATTTTAATATATT
1 ATAATTTAAATATATT
78107636 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATAATTTAAATATATTG
Found at i:78108818 original size:41 final size:41
Alignment explanation
Indices: 78108760--78108882 Score: 158
Period size: 41 Copynumber: 3.0 Consensus size: 41
78108750 CCTCGACCTA
** * *
78108760 TAGCGGCGTTT-TTCCAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
* *
78108800 TAGCGGCGTTTGGGCCAAAAACGCCACTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
** *
78108841 TAGCGGCGTTTGGATAAAAAACACCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
78108882 T
1 T
78108883 TGTAGCGTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 11 0.15
41 61 0.85
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTT
Found at i:78112155 original size:42 final size:43
Alignment explanation
Indices: 78112090--78112179 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
78112080 GTTAATATAT
* * *
78112090 TATTATGGGATATTATTTTTTAGCAATTTGATT-TCTAATG-GA
1 TATTATAGGATATTATCTCTTAGCAATTTGATTCT-TAATGAGA
78112132 TATTATAGGATATTATCTCTTAGCAATTTGATTCTTAATGAGA
1 TATTATAGGATATTATCTCTTAGCAATTTGATTCTTAATGAGA
78112175 TATTA
1 TATTA
78112180 ATACAAAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 35 0.81
43 8 0.19
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (43 bp):
TATTATAGGATATTATCTCTTAGCAATTTGATTCTTAATGAGA
Found at i:78116553 original size:40 final size:40
Alignment explanation
Indices: 78116470--78116596 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
78116460 ATTTGATGTG
**
78116470 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAAA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
78116510 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
* * * * *
78116550 TATCAGGG-ATAAA-TCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
*
78116588 TATTCGGGC
1 TATCCGGGC
78116597 CTTCGTGCCT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 28 0.36
39 4 0.05
40 45 0.58
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
Found at i:78116927 original size:43 final size:43
Alignment explanation
Indices: 78116588--78116914 Score: 600
Period size: 43 Copynumber: 7.6 Consensus size: 43
78116578 GCTGGTATTA
78116588 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
78116631 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
78116674 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
78116717 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
78116760 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
78116803 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
78116846 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
78116889 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
78116915 GTAATGCCGG
Statistics
Matches: 272, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 272 1.00
ACGTcount: A:0.11, C:0.26, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:78126506 original size:21 final size:21
Alignment explanation
Indices: 78126482--78126521 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78126472 TTTATCAGTA
*
78126482 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATTTATATTAT
*
78126503 ATTCTATATCATTTATATT
1 ATTCCATATCATTTATATT
78126522 TTTAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTCCATATCATTTATATTAT
Found at i:78128269 original size:13 final size:14
Alignment explanation
Indices: 78128251--78128279 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78128241 AATATGTAAC
78128251 ATAAAAGA-AGAAA
1 ATAAAAGATAGAAA
78128264 ATAAAAGATAGAAA
1 ATAAAAGATAGAAA
78128278 AT
1 AT
78128280 CAAATCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
ATAAAAGATAGAAA
Found at i:78130004 original size:6 final size:6
Alignment explanation
Indices: 78129993--78130040 Score: 78
Period size: 6 Copynumber: 8.0 Consensus size: 6
78129983 TTTAATACCA
* *
78129993 TATTCC TATTCC TATTCA TATTCC TTTTCC TATTCC TATTCC TATTCC
1 TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC TATTCC
78130041 CTTAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
TATTCC
Found at i:78131409 original size:21 final size:21
Alignment explanation
Indices: 78131383--78131424 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
78131373 GGAAGCAACG
78131383 CATGTTAGTATTTCTTAAAAC
1 CATGTTAGTATTTCTTAAAAC
78131404 CATGTTAGTATTTCTTAAAAC
1 CATGTTAGTATTTCTTAAAAC
78131425 TCTAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
CATGTTAGTATTTCTTAAAAC
Found at i:78131597 original size:18 final size:18
Alignment explanation
Indices: 78131563--78131603 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
78131553 TAAAATTATT
78131563 TTATAAATTTCTAATTTA
1 TTATAAATTTCTAATTTA
78131581 CTTATAAATTT-TAATTTA
1 -TTATAAATTTCTAATTTA
78131599 TTATA
1 TTATA
78131604 CATCAAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.23
18 7 0.32
19 10 0.45
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATAAATTTCTAATTTA
Found at i:78138327 original size:33 final size:33
Alignment explanation
Indices: 78138290--78138354 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
78138280 CATACGAAGT
78138290 AATAATTAAATAATGCATGATATACAAAAAAGC
1 AATAATTAAATAATGCATGATATACAAAAAAGC
78138323 AATAATTAAATAATGCATGATATACAAAAAAG
1 AATAATTAAATAATGCATGATATACAAAAAAG
78138355 AGTAATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.58, C:0.08, G:0.09, T:0.25
Consensus pattern (33 bp):
AATAATTAAATAATGCATGATATACAAAAAAGC
Found at i:78138589 original size:17 final size:18
Alignment explanation
Indices: 78138545--78138589 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
78138535 ATATAAAAAC
*
78138545 ATAATAACAA-AATATTT
1 ATAATAACAATAATAATT
*
78138562 ATAA-AAGAATAATAATT
1 ATAATAACAATAATAATT
78138579 ATAATAA-AATA
1 ATAATAACAATA
78138590 TATGGGGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAATAACAATAATAATT
Found at i:78138696 original size:19 final size:19
Alignment explanation
Indices: 78138637--78138700 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
78138627 AAAAGAATTT
* *
78138637 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
78138656 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
78138672 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
78138692 AT-AAATAAT
1 ATAAAATAAT
78138701 TAATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 17 0.49
19 4 0.11
20 7 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:78141167 original size:205 final size:200
Alignment explanation
Indices: 78140713--78141211 Score: 764
Period size: 205 Copynumber: 2.5 Consensus size: 200
78140703 AAATCTGCTT
* * * * *
78140713 CTTCAATTTGTTCTCTAACAATACAGAGATGACAAATCATATTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * *
78140778 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
78140843 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATA
131 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATA
78140908 CCAGA
196 CCAGA
* * *
78140913 CTTCGATTTGTTCTCTGACAATACAGAGATACCAAATTATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
78140978 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
78141043 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
* *
78141108 AGATGCTAGA
191 AGATACCAGA
* * *
78141118 CTTCGATTTGTTCTTTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
78141183 GTGAAAGCCAAATCAACTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
78141212 CTGCTCTCCG
Statistics
Matches: 270, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
200 131 0.49
202 1 0.00
205 138 0.51
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (200 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGATA
CCAGA
Found at i:78141255 original size:44 final size:44
Alignment explanation
Indices: 78141204--78141296 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
78141194 ATCAACTATG
* * * *
78141204 TCTTCGATCTGCTCTCCGTCAATACAGATATGCCAAATCTGGTA
1 TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
*
78141248 TCTTCGATCTACTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
78141292 TCTTC
1 TCTTC
78141297 AACTTGTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTCGATCTACTCTCCGACAATACAGAGATGCCAAATCTGCTA
Found at i:78149554 original size:14 final size:14
Alignment explanation
Indices: 78149531--78149560 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78149521 ATTCTGGTTC
78149531 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
78149545 AACTTTATTTAGAA
1 AACTTCATTTAGAA
78149559 AA
1 AA
78149561 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:78167808 original size:10 final size:10
Alignment explanation
Indices: 78167793--78167821 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
78167783 CCTCAATTTT
78167793 CTTTGCTCTG
1 CTTTGCTCTG
78167803 CTTTGCTCTG
1 CTTTGCTCTG
78167813 CTTTGCTCT
1 CTTTGCTCT
78167822 AGTTGAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.17, T:0.52
Consensus pattern (10 bp):
CTTTGCTCTG
Found at i:78173469 original size:2 final size:2
Alignment explanation
Indices: 78173464--78173488 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78173454 TTTACGGTCT
78173464 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
78173489 TACTCTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78187118 original size:25 final size:25
Alignment explanation
Indices: 78187084--78187135 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
78187074 CTTGTAATAG
* *
78187084 ATTACATCATTATTTTTTATACAAA
1 ATTACATCATTATTTCTTAAACAAA
78187109 ATTACATCATTATTTCTTAAACAAA
1 ATTACATCATTATTTCTTAAACAAA
78187134 AT
1 AT
78187136 AAAACTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTACATCATTATTTCTTAAACAAA
Found at i:78190121 original size:80 final size:81
Alignment explanation
Indices: 78189974--78190134 Score: 315
Period size: 80 Copynumber: 2.0 Consensus size: 81
78189964 TGGATTTTCC
78189974 GGTTTGTACCGCAATCTTTCAGATTGAATTATCTTAGCTGGTTGTGCTCTGTCAAAATGGAGCTT
1 GGTTTGTACCGCAATCTTTCAGATTGAATTATCTTAGCTGGTTGTGCTCTGTCAAAATGGAGCTT
78190039 AAAAACTAAATTACCA
66 AAAAACTAAATTACCA
78190055 GGTTTGTACCGCAATCTTTCAGATTGAATTATC-TAGCTGGTTGTGCTCTGTCAAAATGGAGCTT
1 GGTTTGTACCGCAATCTTTCAGATTGAATTATCTTAGCTGGTTGTGCTCTGTCAAAATGGAGCTT
78190119 AAAAACTAAATTACCA
66 AAAAACTAAATTACCA
78190135 TGTATGGCTT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 47 0.59
81 33 0.41
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (81 bp):
GGTTTGTACCGCAATCTTTCAGATTGAATTATCTTAGCTGGTTGTGCTCTGTCAAAATGGAGCTT
AAAAACTAAATTACCA
Found at i:78191410 original size:26 final size:26
Alignment explanation
Indices: 78191381--78191488 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
78191371 TGGTACAAAT
78191381 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
*
78191407 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGATTAGGTAAATATTCCA
* *
78191433 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
78191459 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
78191485 TGAT
1 TGAT
78191489 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:78194765 original size:25 final size:25
Alignment explanation
Indices: 78194737--78194808 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
78194727 AAGCTTAATC
*
78194737 GAGCTATATATTGGGAAGCTCATAA
1 GAGCCATATATTGGGAAGCTCATAA
* * *
78194762 GAGCCATAAATCGGGAAGCTCATGA
1 GAGCCATATATTGGGAAGCTCATAA
*
78194787 GAGCCA-ATTATTGAGAAGCTCA
1 GAGCCATA-TATTGGGAAGCTCA
78194809 AGAGAGTCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (25 bp):
GAGCCATATATTGGGAAGCTCATAA
Found at i:78194799 original size:50 final size:50
Alignment explanation
Indices: 78194744--78194865 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
78194734 ATCGAGCTAT
* * *
78194744 ATATTGGGAAGCTCATAAGAGCCATAAATCGGGAAGCTCATGAGAGCCAA
1 ATATTGGGAAGCTCATAAGAGCCATAAATCAGGAAGCTCACGAAAGCCAA
* * * * *
78194794 TTATTGAGAAGCTCA-AGAGAGTCATTAATCAGTAAGCTCACGAAAGCCAA
1 ATATTGGGAAGCTCATA-AGAGCCATAAATCAGGAAGCTCACGAAAGCCAA
* *
78194844 ATATCGGGATGCTCATAAGAGC
1 ATATTGGGAAGCTCATAAGAGC
78194866 TATGGTATAT
Statistics
Matches: 57, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
49 1 0.02
50 55 0.96
51 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (50 bp):
ATATTGGGAAGCTCATAAGAGCCATAAATCAGGAAGCTCACGAAAGCCAA
Found at i:78196533 original size:36 final size:36
Alignment explanation
Indices: 78196493--78196566 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
78196483 GAGAATTAAG
78196493 TAAGAAAATATTCGAATGAACTAATGAGAGACATAA
1 TAAGAAAATATTCGAATGAACTAATGAGAGACATAA
*
78196529 TAAGAAAATATTCGAATGAACTAATGAGATACATAA
1 TAAGAAAATATTCGAATGAACTAATGAGAGACATAA
78196565 TA
1 TA
78196567 CCCAGGAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.15, T:0.24
Consensus pattern (36 bp):
TAAGAAAATATTCGAATGAACTAATGAGAGACATAA
Found at i:78196716 original size:24 final size:24
Alignment explanation
Indices: 78196689--78196738 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
78196679 GAGTAAAAAT
*
78196689 AACTAACTCTAGGCTGATTAATTG
1 AACTAACTCCAGGCTGATTAATTG
*
78196713 AACTAACTCCAGGTTGATTAATTG
1 AACTAACTCCAGGCTGATTAATTG
78196737 AA
1 AA
78196739 ATCTCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (24 bp):
AACTAACTCCAGGCTGATTAATTG
Found at i:78199773 original size:10 final size:10
Alignment explanation
Indices: 78199754--78199800 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
78199744 TTCTCAATTT
78199754 ATCA-ACCAA
1 ATCATACCAA
78199763 ATCATACCAA
1 ATCATACCAA
*
78199773 ATCTAAACCAAA
1 ATC-ATACC-AA
78199785 ATCATACCAA
1 ATCATACCAA
*
78199795 AGCATA
1 ATCATA
78199801 TGTTTCAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Done.