Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 204 of 290
Found at i:65958232 original size:27 final size:27
Alignment explanation
Indices: 65958148--65958423 Score: 155
Period size: 27 Copynumber: 10.2 Consensus size: 27
65958138 ATTACTGTTC
* * ***
65958148 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * *****
65958175 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
*
65958202 TACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
65958229 TACCCTTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
65958256 TACCC-CATGATTTGTAAAATTACTGAAA
1 TACCCTC--GATTTATAAAATTACTAAAA
* *
65958284 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACTAAAA
* ***
65958312 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * ***
65958339 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * ***
65958366 TACCC-CAGATTTACAAAATTACCATTT
1 TACCCTC-GATTTATAAAATTACTAAAA
* *
65958393 TACCCTCGA-TTGTGAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
65958419 TACCC
1 TACCC
65958424 CTATAGGGTA
Statistics
Matches: 205, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
26 18 0.09
27 140 0.68
28 45 0.22
29 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:65958270 original size:28 final size:28
Alignment explanation
Indices: 65958216--65958288 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
65958206 CTCGATTTAA
* *
65958216 AAAATTACTAAAATA-CCCTTGGTTTGT
1 AAAATTACTAAAATACCCCATGATTTGT
65958243 AAAATTACTAAAATACCCCATGATTTGT
1 AAAATTACTAAAATACCCCATGATTTGT
*
65958271 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
65958289 TCGACTTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 15 0.36
28 27 0.64
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCATGATTTGT
Found at i:65958323 original size:55 final size:54
Alignment explanation
Indices: 65958202--65958335 Score: 153
Period size: 55 Copynumber: 2.4 Consensus size: 54
65958192 ATTACCGTTT
* * ** *
65958202 TACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAA
* * *
65958256 TACCC-CATGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAG
1 TACCCTC--GATTTATAAAATTACTAAAATACCCTCGACTTGT-AAAATTACCAAAA
*
65958312 TACCCTCGATTTATAGAATTACTA
1 TACCCTCGATTTATAAAATTACTA
65958336 TTTTACCCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
53 1 0.02
54 5 0.08
55 42 0.65
56 16 0.25
57 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAA
Found at i:65958378 original size:54 final size:54
Alignment explanation
Indices: 65958121--65958403 Score: 196
Period size: 54 Copynumber: 5.2 Consensus size: 54
65958111 ATTACCAAAG
* * * * *
65958121 TACCCCCGATTTACAGAATTACTGTTCTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACTATTT
* * ** * ***
65958175 TACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAAAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACTATTT
* * ** * *** * **
65958229 TACCCTTGGTTTGTAAAATTACTAAAATACCC-CATGATTTGTAAAATTACTGA-AA
1 TACCCTCGATTTACAGAATTACTATTTTACCCTC--GATTTATAAAATTACT-ATTT
* * *** *
65958284 TACCCTCGACTTGTA-AAAATTACCAAAGTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGA-TT-TACAGAATTACTATTTTACCCTCGATTTATAAAATTACTATTT
* *
65958339 TACCCTCGATTTACAGAATTACTATTTTACCC-CAGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTC-GATTTATAAAATTACTATTT
65958393 TACCCTCGATT
1 TACCCTCGATT
65958404 GTGAAATTAC
Statistics
Matches: 182, Mismatches: 38, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
53 4 0.02
54 111 0.61
55 46 0.25
56 19 0.10
57 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACTATTT
Found at i:65958397 original size:137 final size:135
Alignment explanation
Indices: 65958175--65958423 Score: 293
Period size: 137 Copynumber: 1.8 Consensus size: 135
65958165 ATTACCATTT
* * ** *
65958175 TACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTAAAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCCAGATT
** * *
65958240 TGTAAAATTACTAAAATACCC-CATGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAAT
66 TACAAAATTACCAAAATACCCTC--GA-TTGTAAAATTACTAAAATACCCTCGACTTGTAAAAAT
65958304 TACCAAAG
128 TACCAAAG
* * * ***
65958312 TACCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACTATTTTACCCCAGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCCAGATT
*** *
65958377 TACAAAATTACCATTTTACCCTCGATTGTGAAATTACTAAAATACCC
66 TACAAAATTACCAAAATACCCTCGATTGTAAAATTACTAAAATACCC
65958424 CTATAGGGTA
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
135 20 0.22
136 2 0.02
137 69 0.75
138 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (135 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAAAAAATTACTAAAATACCCCAGATT
TACAAAATTACCAAAATACCCTCGATTGTAAAATTACTAAAATACCCTCGACTTGTAAAAATTAC
CAAAG
Found at i:65959721 original size:26 final size:27
Alignment explanation
Indices: 65959686--65959964 Score: 151
Period size: 27 Copynumber: 10.4 Consensus size: 27
65959676 AAATTACCAA
*
65959686 ACCC-CGATTTACAGAATTA-C-TTTCT
1 ACCCTCGATTTATAGAATTACCATTT-T
65959711 ACCCTCGATTTATAGAATTACCATTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* *
65959738 ACCCTTGA-TTATAGAATTACCGTTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* * * * ***
65959764 ACGCTCGATTTAAAAAATTACTAAAAT
1 ACCCTCGATTTATAGAATTACCATTTT
* * * * * ***
65959791 ACCCTTGGTTTGTAAAATTACTAAAAT
1 ACCCTCGATTTATAGAATTACCATTTT
* * * **
65959818 ACCC-CATGATTTGTAAAATTACTGA-AAT
1 ACCCTC--GATTTATAGAATTAC-CATTTT
* ***
65959846 ACCCTCGACTTGTA-AAAATTACCAAAGT
1 ACCCTCGA-TT-TATAGAATTACCATTTT
*
65959874 ACCCTCGATTTATAGAATTACTATTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* *
65959901 ACCCTCGATTTACAGAATTACTATTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* *
65959928 ACCC-CAGATTTACAAAATTACCATTTT
1 ACCCTC-GATTTATAGAATTACCATTTT
65959955 ACCCTCGATT
1 ACCCTCGATT
65959965 GTGAAATTAC
Statistics
Matches: 209, Mismatches: 31, Indels: 26
0.79 0.12 0.10
Matches are distributed among these distances:
25 4 0.02
26 40 0.19
27 117 0.56
28 45 0.22
29 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (27 bp):
ACCCTCGATTTATAGAATTACCATTTT
Found at i:65959831 original size:28 final size:28
Alignment explanation
Indices: 65959777--65959849 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
65959767 CTCGATTTAA
* *
65959777 AAAATTACTAAAATA-CCCTTGGTTTGT
1 AAAATTACTAAAATACCCCATGATTTGT
65959804 AAAATTACTAAAATACCCCATGATTTGT
1 AAAATTACTAAAATACCCCATGATTTGT
*
65959832 AAAATTACTGAAATACCC
1 AAAATTACTAAAATACCC
65959850 TCGACTTGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 15 0.36
28 27 0.64
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (28 bp):
AAAATTACTAAAATACCCCATGATTTGT
Found at i:65959863 original size:28 final size:27
Alignment explanation
Indices: 65959767--65960089 Score: 167
Period size: 27 Copynumber: 12.0 Consensus size: 27
65959757 CCGTTTTACG
**
65959767 CTCGATTTAAAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACTAAAATACC
* *
65959794 CTTGGTTTGTAAAATTACTAAAATACC
1 CTCGATTTGTAAAATTACTAAAATACC
*
65959821 C-CATGATTTGTAAAATTACTGAAATACC
1 CTC--GATTTGTAAAATTACTAAAATACC
* * *
65959849 CTCGACTTGTAAAAATTACCAAAGTACC
1 CTCGATTTGT-AAAATTACTAAAATACC
* * ***
65959877 CTCGATTTATAGAATTACTATTTTACC
1 CTCGATTTGTAAAATTACTAAAATACC
** * ***
65959904 CTCGATTTACAGAATTACTATTTTACC
1 CTCGATTTGTAAAATTACTAAAATACC
** * ***
65959931 C-CAGATTTACAAAATTACCATTTTACC
1 CTC-GATTTGTAAAATTACTAAAATACC
*
65959958 CTCGA-TTGTGAAATTACT-AAATACC
1 CTCGATTTGTAAAATTACTAAAATACC
* ** * * *
65959983 C-CTATAGGTAGAATTACCAAAACACC
1 CTCGATTTGTAAAATTACTAAAATACC
* *
65960009 C-CTAGTTTGTAAAATTACCAAAATACC
1 CTCGA-TTTGTAAAATTACTAAAATACC
* * **
65960036 ACT-GGTTTGTGAAATTACCGAAATACC
1 -CTCGATTTGTAAAATTACTAAAATACC
** *
65960063 CTTAATTTGT-AAATTACCAAAATACC
1 CTCGATTTGTAAAATTACTAAAATACC
65960089 C
1 C
65960090 CTAATTTACA
Statistics
Matches: 238, Mismatches: 46, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.01
25 13 0.05
26 38 0.16
27 137 0.58
28 47 0.20
29 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
CTCGATTTGTAAAATTACTAAAATACC
Found at i:65960080 original size:80 final size:79
Alignment explanation
Indices: 65959963--65960115 Score: 193
Period size: 80 Copynumber: 1.9 Consensus size: 79
65959953 TTACCCTCGA
* * **
65959963 TTGTGAAATTACTAAATACCCCTATAGGTAGAATTACCAAAACACCCCTAGTTTGTAAAATTACC
1 TTGTGAAATTACGAAATACCCCTATAGGTAGAATTACCAAAACACCCCTAATTTACAAAATTA-C
65960028 A-AAATACCACTGGT
65 AGAAATACCACTGGT
* ** *
65960042 TTGTGAAATTACCGAAATACCCTTAATTTGTA-AATTACCAAAATACCCCTAATTTACAAAATTA
1 TTGTGAAATTA-CGAAATACCCCT-ATAGGTAGAATTACCAAAACACCCCTAATTTACAAAATTA
65960106 CAGAAATACC
64 CAGAAATACC
65960116 TTGATTGTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
79 13 0.21
80 45 0.71
81 5 0.08
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (79 bp):
TTGTGAAATTACGAAATACCCCTATAGGTAGAATTACCAAAACACCCCTAATTTACAAAATTACA
GAAATACCACTGGT
Found at i:65960091 original size:27 final size:27
Alignment explanation
Indices: 65959963--65960115 Score: 134
Period size: 27 Copynumber: 5.8 Consensus size: 27
65959953 TTACCCTCGA
* *
65959963 TTGTGAAATTA-CTAAATACCCCT-AT
1 TTGTAAAATTACCAAAATACCCCTAAT
** * * *
65959988 AGGTAGAATTACCAAAACACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAAT
* **
65960015 TTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTAAT
* * *
65960042 TTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTAAT
65960069 TTGT-AAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAAT
**
65960095 TTACAAAATTA-CAGAAATACC
1 TTGTAAAATTACCA-AAATACC
65960116 TTGATTGTTG
Statistics
Matches: 101, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
25 7 0.07
26 34 0.34
27 60 0.59
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAAT
Found at i:65960104 original size:53 final size:54
Alignment explanation
Indices: 65959994--65960115 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 54
65959984 CTATAGGTAG
* * * ** ***
65959994 AATTACCAAAACACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
* *
65960048 AATTACCGAAATACCCTTAATTTGT-AAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
*
65960101 AATTACAGAAATACC
1 AATTACCGAAATACC
65960116 TTGATTGTTG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 36 0.63
54 21 0.37
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (54 bp):
AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCACTAATTTACAA
Found at i:65960942 original size:20 final size:20
Alignment explanation
Indices: 65960917--65960983 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
65960907 ATATGATATA
*
65960917 ACATGA-ATGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
65960937 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
65960957 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
65960977 ACATGAT
1 ACATGAT
65960984 GTATCATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 40 0.93
21 3 0.07
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:65960994 original size:20 final size:19
Alignment explanation
Indices: 65960933--65960997 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
65960923 ATGATATGAT
65960933 ATGCACATGATATGTATA-AA
1 ATGCACATG--ATGTATATAA
* *
65960953 ATGCACATGATATGTATGAA
1 ATGCACATGATGTATAT-AA
65960973 ATGCACATGATGTATCATAA
1 ATGCACATGATGTAT-ATAA
65960993 ATGCA
1 ATGCA
65960998 TTGGGTTGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 5 0.13
20 31 0.82
21 2 0.05
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGCACATGATGTATATAA
Found at i:65960995 original size:40 final size:39
Alignment explanation
Indices: 65960917--65960997 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 39
65960907 ATATGATATA
*
65960917 ACATGAATGATATGATATGCACATGATATGTATAAAATGC
1 ACATGAATGATATGAAATGCACATGA-ATGTATAAAATGC
65960957 ACATGATATG-TATGAAATGCACATG-ATGTATCATAAATGC
1 ACATGA-ATGATATGAAATGCACATGAATGTAT-A-AAATGC
65960997 A
1 A
65960998 TTGGGTTGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 6 0.16
39 1 0.03
40 27 0.73
41 3 0.08
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (39 bp):
ACATGAATGATATGAAATGCACATGAATGTATAAAATGC
Found at i:65961129 original size:25 final size:26
Alignment explanation
Indices: 65961032--65961131 Score: 175
Period size: 26 Copynumber: 3.9 Consensus size: 26
65961022 GAGGAAGTGC
65961032 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
65961058 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
65961084 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
65961110 AAAAGGGCTT-TGCCCCAGTTTA
1 AAAAGGGCTTATGCCCCAGTTTA
65961132 CGAAAGTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
25 12 0.17
26 58 0.83
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:65961400 original size:31 final size:31
Alignment explanation
Indices: 65961365--65961443 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
65961355 TGTTTACAGT
65961365 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* * *
65961396 AAAGGATTCGGCCCACTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
65961427 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
65961444 AACCGGTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:65963670 original size:27 final size:27
Alignment explanation
Indices: 65963650--65963752 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
65963640 ATTACCAAAG
* * *
65963650 TACCCCCGATTTACAGAATTACCGTTC
1 TACCCTCGATTTATAGAATTACCATTC
* *
65963677 TACCCTCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTC
* *
65963704 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTC
*
65963731 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTATAGAATTAC
65963753 TAAAATACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTC
Found at i:65963761 original size:27 final size:27
Alignment explanation
Indices: 65963677--65964094 Score: 163
Period size: 27 Copynumber: 15.4 Consensus size: 27
65963667 ATTACCGTTC
* ***
65963677 TACCCTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACT-AAAA
* *****
65963704 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTAAAA
65963731 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * *
65963758 TACCCTTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
** * * *
65963785 TACCCCTTAATTTGTAAAATTATTGAAA
1 TA-CCCTCGATTTATAAAATTACTAAAA
* *
65963813 TACCCTCGACTTGTA-AAAATTACCAAAG
1 TACCCTCGA-TT-TATAAAATTACTAAAA
***
65963841 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * * ***
65963868 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTAAAA
* * ***
65963895 TACCC-CTAATTTACAAAATTAAC-ATTT
1 TACCCTC-GATTTATAAAATT-ACTAAAA
* * *
65963922 TACCCTCGA-TTGTGAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *** * *
65963948 TACCC-CTATAGGGTAGAATTACCAAAA
1 TACCCTCGAT-TTATAAAATTACTAAAA
* * *
65963975 CACCC-CTAGTTTATAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * **
65964002 TACCACTAG-TTTGTAAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
* * *
65964029 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* *
65964056 TACCC-CTAATTTACAAAATTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
*
65964083 TACCCTTGATTT
1 TACCCTCGATTT
65964095 GTGTCATACA
Statistics
Matches: 309, Mismatches: 64, Indels: 36
0.76 0.16 0.09
Matches are distributed among these distances:
25 4 0.01
26 18 0.06
27 238 0.77
28 48 0.16
29 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:65963762 original size:54 final size:54
Alignment explanation
Indices: 65963638--65963899 Score: 168
Period size: 54 Copynumber: 4.8 Consensus size: 54
65963628 TTAGTTTACC
* * * * *
65963638 AAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTCTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATA
* *** * *
65963692 GAATTA-TCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATA
1 AAATTACT-AAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATA
* * ** * * *** ** *
65963746 AAATTACTAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTTAATTTGTA
1 AAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTA-CCCTCGATTTATA
* * * ***
65963801 AAATTATTGAAATACCCTCGACTTGTA-AAAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGA-TT-TACAGAATTACCATTTTACCCTCGATTTATA
*** * *
65963856 AAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCC
1 AAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCC
65963900 CTAATTTACA
Statistics
Matches: 157, Mismatches: 45, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
53 2 0.01
54 86 0.55
55 53 0.34
56 15 0.10
57 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATA
Found at i:65964095 original size:54 final size:53
Alignment explanation
Indices: 65963739--65964096 Score: 211
Period size: 54 Copynumber: 6.6 Consensus size: 53
65963729 TTTACCCTCG
* *
65963739 ATTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTTA
1 ATTTATAAAATTAC-AAAATACCCTTGATTTGTAAAATTACCAAAATACCCC-TA
* ** * * * *
65963794 ATTTGTAAAATTATTGAAATACCCTCGACTTGTAAAAATTACCAAAGTA-CCCTCG
1 ATTTATAAAATTA-CAAAATACCCTTGATTTGT-AAAATTACCAAAATACCCCT-A
*** ** * * ***
65963849 ATTTATAAAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCCCTA
1 ATTTATAAAATTAC-AAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTA
* *** * * **
65963903 ATTTACAAAATTAACATTTTACCCTCGA-TTGTGAAATTACTGAAATACCCCT-
1 ATTTATAAAATT-ACAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTA
*** * * * * *
65963955 ATAGGGTAGAATTACCAAAACACCCCT-AGTTTATAAAATTACCAAAATACCACTA
1 AT-TTATAAAATTA-CAAAATACCCTTGA-TTTGTAAAATTACCAAAATACCCCTA
* * * **
65964010 GTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTA-CAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTA
*
65964064 ATTTACAAAATTACAGAAATACCCTTGATTTGT
1 ATTTATAAAATTACA-AAATACCCTTGATTTGT
65964097 GTCATACAAG
Statistics
Matches: 223, Mismatches: 67, Indels: 27
0.70 0.21 0.09
Matches are distributed among these distances:
52 4 0.02
53 28 0.13
54 119 0.53
55 59 0.26
56 13 0.06
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (53 bp):
ATTTATAAAATTACAAAATACCCTTGATTTGTAAAATTACCAAAATACCCCTA
Found at i:65964096 original size:81 final size:80
Alignment explanation
Indices: 65963739--65964096 Score: 231
Period size: 81 Copynumber: 4.4 Consensus size: 80
65963729 TTTACCCTCG
* * * ** *
65963739 ATTTATAAAATTACTAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTTAATTTGTAAAA
1 ATTTACAAAATTAC-AAAATACCCTCGATTTGTAAAATTACCGAAATA-CCCTCAATTTGTAAAA
*** *
65963804 TTATTGAAATACCCTCGA
64 TTACCAAAATACCC-CTA
* * * * ** ** ** *
65963822 CTTGTA-AAAATTACCAAAGTACCCTCGATTTATAAAATTA-CTATTTTACCCTTGATTTACAGA
1 ATT-TACAAAATTA-CAAAATACCCTCGATTTGTAAAATTACCGA-AATACCCTCAATTTGTAAA
* ***
65963885 ATTACTATTTTACCCCTA
63 ATTACCAAAATACCCCTA
*** * * * ** *
65963903 ATTTACAAAATTAACATTTTACCCTCGA-TTGTGAAATTACTGAAATACCC-CTATAGGGTAGAA
1 ATTTACAAAATT-ACAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAAT-TTGTAAAA
*
65963966 TTACCAAAACACCCCTA
64 TTACCAAAATACCCCTA
* * *
65963983 GTTTATAAAATTACCAAAATACCACTAG-TTTGTAAAATTACCGAAATACCCTCAATTTGTAAAA
1 ATTTACAAAATTA-CAAAATACC-CTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAA
65964047 TTACCAAAATACCCCTA
64 TTACCAAAATACCCCTA
*
65964064 ATTTACAAAATTACAGAAATACCCTTGATTTGT
1 ATTTACAAAATTACA-AAATACCCTCGATTTGT
65964097 GTCATACAAG
Statistics
Matches: 206, Mismatches: 56, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
79 3 0.01
80 53 0.26
81 89 0.43
82 26 0.13
83 32 0.16
84 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.34
Consensus pattern (80 bp):
ATTTACAAAATTACAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATT
ACCAAAATACCCCTA
Found at i:65964912 original size:20 final size:20
Alignment explanation
Indices: 65964887--65964953 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
65964877 GATATGATAT
*
65964887 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
65964907 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
65964927 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
65964947 ACATGAT
1 ACATGAT
65964954 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:65965049 original size:25 final size:26
Alignment explanation
Indices: 65965003--65965134 Score: 166
Period size: 25 Copynumber: 5.3 Consensus size: 26
65964993 GAGGAAGTGC
* * *
65965003 AAAAGGTCTTATTCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
65965029 AAAAGGGCTTAT-CCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
65965054 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
65965080 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
65965105 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
65965128 AAAAGGG
1 AAAAGGG
65965135 GCTAGGCCTC
Statistics
Matches: 95, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.07
24 3 0.03
25 53 0.56
26 32 0.34
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:65965079 original size:51 final size:51
Alignment explanation
Indices: 65965003--65965134 Score: 200
Period size: 51 Copynumber: 2.6 Consensus size: 51
65964993 GAGGAAGTGC
* * *
65965003 AAAAGGTCTTATTCCCTAGTTTATTGAAAAGGGCTTAT-CCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
65965054 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
65965105 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGGG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG
65965135 GCTAGGCCTC
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
48 7 0.09
49 5 0.06
50 9 0.12
51 56 0.73
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:65965328 original size:42 final size:42
Alignment explanation
Indices: 65965269--65965360 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
65965259 TAGTCTCCCC
* * *
65965269 AAATGGGCTTGCATACATTCATTGGT-ATTTCGTATGATATTG
1 AAATGGGCTTGCATACATCCATT-GTCATTACATATGATATTG
*
65965311 AAATGGGCTTGCATACATCCATTGTCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGTCATTACATATGATATTG
65965353 AAATGGGC
1 AAATGGGC
65965361 CTATGGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.04
42 43 0.96
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGTCATTACATATGATATTG
Found at i:65965422 original size:31 final size:31
Alignment explanation
Indices: 65965384--65965480 Score: 167
Period size: 31 Copynumber: 3.1 Consensus size: 31
65965374 CGTTTACAGT
* *
65965384 AAGGCTTCGGCACGGTGAAATGATTTATGAA
1 AAGGCTTCGGCACAGTGATATGATTTATGAA
65965415 AAGGCTTCGGCACAGTGATATGATTTATGAA
1 AAGGCTTCGGCACAGTGATATGATTTATGAA
*
65965446 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCACAGTGATATGATTTATGAA
65965477 AAGG
1 AAGG
65965481 ATTCAGCCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (31 bp):
AAGGCTTCGGCACAGTGATATGATTTATGAA
Found at i:65965490 original size:31 final size:31
Alignment explanation
Indices: 65965384--65965492 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
65965374 CGTTTACAGT
* * *
65965384 AAGGCTTCGGCACGGTGAAATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
*
65965415 AAGGCTTCGGCACAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
65965446 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGATATGATTTATGAA
* *
65965477 AAGGATTCAGCCCAGT
1 AAGGCTTCGGCCCAGT
65965493 AATCGGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGATATGATTTATGAA
Found at i:65966498 original size:20 final size:20
Alignment explanation
Indices: 65966473--65966539 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
65966463 GATATGATAT
*
65966473 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
65966493 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
65966513 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
65966533 ACATGAT
1 ACATGAT
65966540 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:65966618 original size:26 final size:26
Alignment explanation
Indices: 65966596--65966720 Score: 161
Period size: 25 Copynumber: 5.0 Consensus size: 26
65966586 TGCAAAACGT
*
65966596 CTTATTCCCCAGTTTATTGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
* **
65966622 CCTAT-CCCCAGTTTACCGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
65966647 CTTATGCCCCAGTTTATTGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
**
65966673 CTT-TGCCCCAGTTTACCGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
65966698 CTT-TGCCCCAG-TTATT-AAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
65966721 GCTAGGCCTC
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
23 7 0.08
24 3 0.03
25 53 0.60
26 25 0.28
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (26 bp):
CTTATGCCCCAGTTTATTGAAAAGGG
Found at i:65966672 original size:51 final size:51
Alignment explanation
Indices: 65966596--65966720 Score: 195
Period size: 51 Copynumber: 2.5 Consensus size: 51
65966586 TGCAAAACGT
*
65966596 CTTATTCCCCAGTTTATTGAAAAGGGCCTAT-CCCCAGTTTACCGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG-CTATGCCCCAGTTTACCGAAAAGGG
*
65966647 CTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCGAAAAGGG
65966698 CTT-TGCCCCAG-TTATT-AAAAGGG
1 CTTATGCCCCAGTTTATTGAAAAGGG
65966721 GCTAGGCCTC
Statistics
Matches: 71, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
48 7 0.10
49 5 0.07
50 11 0.15
51 48 0.68
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (51 bp):
CTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCGAAAAGGG
Found at i:65966914 original size:42 final size:42
Alignment explanation
Indices: 65966855--65966946 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
65966845 TAGTCTCCCC
* ** * *
65966855 AAATGGGCTTGCATACATTCATTGGTATTTCGTATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
65966897 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
65966939 AAATGGGC
1 AAATGGGC
65966947 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:65967005 original size:31 final size:31
Alignment explanation
Indices: 65966970--65967079 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
65966960 CGTTTACAGT
* *
65966970 AAAGGCTTCGGCCCGGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
65967001 AAAGGCTTCGGCACAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
65967032 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
65967063 AATGGATTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
65967080 AATCGGTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:65969325 original size:27 final size:27
Alignment explanation
Indices: 65969294--65969768 Score: 137
Period size: 27 Copynumber: 17.6 Consensus size: 27
65969284 TAGTTTACCA
* *
65969294 AATTACCAAAGTACCCCCGATTTATAG
1 AATTACCAAAATACCCTCGATTTATAG
****
65969321 AATTACCGTTCTACCCTCGATTTATAG
1 AATTACCAAAATACCCTCGATTTATAG
*** *
65969348 AATTACCATTTTACCCTCAATTTATAG
1 AATTACCAAAATACCCTCGATTTATAG
*** * * *
65969375 AATTACC-GTTTTCCCTCGATTTAAAA
1 AATTACCAAAATACCCTCGATTTATAG
* * * *
65969401 AATTACTAAAATACACAT-GGTTTGTA-
1 AATTACCAAAATAC-CCTCGATTTATAG
* * * * *
65969427 AATTACTAAAATACCCCCTAATTTGTAA
1 AATTACCAAAATACCCTC-GATTTATAG
* *
65969455 AATTACTAAAATACCCTCGACTTGTA-AA
1 AATTACCAAAATACCCTCGA-TT-TATAG
*
65969483 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAAATACCCTCGATTTATAG
***** *
65969510 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCAAAATACCCTCGATTTATAG
* *** * *
65969537 AATTACTATTTTACCC-CTGATTTACAA
1 AATTACCAAAATACCCTC-GATTTATAG
*** *
65969564 AATTACCATTTTACCCTCGA-TTGT-G
1 AATTACCAAAATACCCTCGATTTATAG
* * ***
65969589 AAATTACTAAAATACCC-CTATAGGGTAG
1 -AATTACCAAAATACCCTCGAT-TTATAG
* * * *
65969617 AATTACCAAAACACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTATAG
* *
65969644 AATTACCAAAATACCACT-GGTTTGT-G
1 AATTACCAAAATACC-CTCGATTTATAG
* * * * *
65969670 AAATTACCGAAATACCTTCAATTTGTAA
1 -AATTACCAAAATACCCTCGATTTATAG
** * *
65969698 AATTACCAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTCGATTTATAG
* * * *
65969725 AATTA-TAGAAATACCTTTGATTTGTAG
1 AATTACCA-AAATACCCTCGATTTATAG
* *
65969752 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
65969769 TGTAGGATGA
Statistics
Matches: 346, Mismatches: 80, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
25 3 0.01
26 53 0.15
27 243 0.70
28 46 0.13
29 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTATAG
Found at i:65969429 original size:26 final size:27
Alignment explanation
Indices: 65969399--65969468 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
65969389 CTCGATTTAA
**
65969399 AAAATTACTAAAATACACATGGTTTGT
1 AAAATTACTAAAATACACATAATTTGT
* *
65969426 -AAATTACTAAAATACCCCCTAATTTGT
1 AAAATTACTAAAATA-CACATAATTTGT
65969453 AAAATTACTAAAATAC
1 AAAATTACTAAAATAC
65969469 CCTCGACTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 14 0.38
27 9 0.24
28 14 0.38
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACACATAATTTGT
Found at i:65969484 original size:28 final size:27
Alignment explanation
Indices: 65969399--65969516 Score: 96
Period size: 28 Copynumber: 4.3 Consensus size: 27
65969389 CTCGATTTAA
* **
65969399 AAAATTACTAAAATACACAT-GGTTTGT
1 AAAATTACTAAAATAC-CCTCGACTTGT
* * *
65969426 -AAATTACTAAAATACCCCCTAATTTGT
1 AAAATTACTAAAATACCCTC-GACTTGT
65969453 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACTAAAATACCCTCGACTTGT
* * * *
65969480 AAAAATTACCAAAGTACCCTCGATTTAT
1 -AAAATTACTAAAATACCCTCGACTTGT
*
65969508 AGAATTACT
1 AAAATTACT
65969517 GTTTTACCCT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.01
26 15 0.20
27 17 0.23
28 41 0.55
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGACTTGT
Found at i:65969643 original size:189 final size:186
Alignment explanation
Indices: 65969293--65969658 Score: 479
Period size: 189 Copynumber: 1.9 Consensus size: 186
65969283 TTAGTTTACC
*
65969293 AAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTATAGAATTACCATT
1 AAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTACAGAATTACCATT
* * *
65969358 TTACCCTCAATTTATAGAATTACCGTTTTCCCTCGATTTAAAAAATTACTAAAATACACATGGTT
66 TTACCCTCAATTTACAAAATTACCATTTTCCCTCGATTT-AAAAATTACTAAAATACACATGG--
* * *
65969423 TGTAAATTACTAAAATACCCCCTAATTTGTAAAATTACTAAAATACCCTCGACTTGTAA
128 TGTAAATTACCAAAACACCCCCTAATTTGTAAAATTACCAAAATACCCTCGACTTGTAA
* * * *
65969482 AAATTACCAAAGTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATT
1 AAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTACAGAATTACCATT
* * *
65969547 TTACCC-CTGATTTACAAAATTACCATTTTACCCTCGATTGT-GAAATTACTAAAATACCCCTAT
66 TTACCCTC-AATTTACAAAATTACCATTTT-CCCTCGATT-TAAAAATTACTAAAATA-CAC-AT
*
65969610 AGG-GTAGAATTACCAAAACA-CCCCTAGTTTGTAAAATTACCAAAATACC
126 -GGTGTA-AATTACCAAAACACCCCCTAATTTGTAAAATTACCAAAATACC
65969659 ACTGGTTTGT
Statistics
Matches: 155, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
188 1 0.01
189 127 0.82
190 22 0.14
191 3 0.02
192 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (186 bp):
AAATTACCAAAGTACCCCCGATTTATAGAATTACCGTTCTACCCTCGATTTACAGAATTACCATT
TTACCCTCAATTTACAAAATTACCATTTTCCCTCGATTTAAAAATTACTAAAATACACATGGTGT
AAATTACCAAAACACCCCCTAATTTGTAAAATTACCAAAATACCCTCGACTTGTAA
Found at i:65969644 original size:162 final size:161
Alignment explanation
Indices: 65969332--65969658 Score: 367
Period size: 162 Copynumber: 2.0 Consensus size: 161
65969322 ATTACCGTTC
* *
65969332 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTCCCTCGATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTCCCTCGATTT
* * * ** *
65969397 AAAAAATTACTAAAATACACATGGTTTGTAAATTACTAAAATACCCCCTAATTTGTAAAATTACT
66 AAAAAATTACCAAAATACACATCGATTGTAAATTACTAAAATACCCCCTAATGGGTAAAATTACC
* * *
65969462 AAAATACCCTCGACTTGTAAAAATTACCAAAG
131 AAAACACCCTAGACTTGT-AAAATTACCAAAA
** * *
65969494 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCC-CTGAT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTT-CCCTC-GAT
* *** * *
65969558 TTACAAAATTACCATTTTAC-CCTCGATTGTGAAATTACTAAAATA-CCCCT-ATAGGGTAGAAT
64 TTAAAAAATTACCAAAATACACATCGATTGT-AAATTACTAAAATACCCCCTAAT-GGGTAAAAT
*
65969620 TACCAAAACACCCCTAG-TTTGTAAAATTACCAAAA
127 TACCAAAACA-CCCTAGACTTGTAAAATTACCAAAA
65969655 TACC
1 TACC
65969659 ACTGGTTTGT
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
161 18 0.13
162 80 0.58
163 40 0.29
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (161 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCATTTTCCCTCGATTT
AAAAAATTACCAAAATACACATCGATTGTAAATTACTAAAATACCCCCTAATGGGTAAAATTACC
AAAACACCCTAGACTTGTAAAATTACCAAAA
Found at i:65970361 original size:42 final size:42
Alignment explanation
Indices: 65970297--65970387 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
65970287 AGTCTCCCCG
* ** *
65970297 AATGGGCTTGCATACATTCATTGGTATTTCATATGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
*
65970339 AATGGGCTTGCATACATCCATTGACATTACATGTGATATTGA
1 AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
65970381 AATGGGC
1 AATGGGC
65970388 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (42 bp):
AATGGGCTTGCATACATCCATTGACATTACATATGATATTGA
Found at i:65977792 original size:63 final size:65
Alignment explanation
Indices: 65977722--65977856 Score: 147
Period size: 67 Copynumber: 2.1 Consensus size: 65
65977712 CTAACTTAAA
65977722 TAAATGAA-TTAACACTT-ATGCATCA-T-TTAATCC-AGCAACTAGTTTAATTAATAGAAGCAT
1 TAAATGAACTTAA-A-TTCATGCATCACTATT-ATCCTAGCAACTAGTTTAATTAA-AGAAGCAT
65977782 -TAT
62 CTAT
* * *
65977785 TAAATGAACTTTAATTCATGCATCACTAAATTATCCTAGTAACTAGTTTATTTAAAGAAGCATCT
1 TAAATGAACTTAAATTCATGCATCACT--ATTATCCTAGCAACTAGTTTAATTAAAGAAGCATCT
65977850 AT
64 AT
65977852 TAAAT
1 TAAAT
65977857 CAAGTTCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
62 2 0.03
63 17 0.28
64 4 0.07
66 12 0.20
67 26 0.43
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (65 bp):
TAAATGAACTTAAATTCATGCATCACTATTATCCTAGCAACTAGTTTAATTAAAGAAGCATCTAT
Found at i:65980118 original size:30 final size:28
Alignment explanation
Indices: 65980064--65980120 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
65980054 TTTCTTCCAC
* *
65980064 ACTTTCTTTTTGCTCACTCTCTTTTTCA
1 ACTTTCTTTTTGCACACACTCTTTTTCA
65980092 ACTTTACTTTCTTGCACACACTCTTTTTC
1 ACTTT-CTTT-TTGCACACACTCTTTTTC
65980121 TTTTTCGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 4 0.16
30 16 0.64
ACGTcount: A:0.14, C:0.30, G:0.04, T:0.53
Consensus pattern (28 bp):
ACTTTCTTTTTGCACACACTCTTTTTCA
Found at i:65981173 original size:12 final size:11
Alignment explanation
Indices: 65981156--65981211 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
65981146 CAATGTTCAA
*
65981156 AATTTTTTTCT
1 AATTTTTTTTT
65981167 AATTTTTTTTT
1 AATTTTTTTTT
65981178 AATTTTTTTTT
1 AATTTTTTTTT
*
65981189 AAATTTTTTTTCA
1 -AATTTTTTTT-T
65981202 AATTTTTTTT
1 AATTTTTTTT
65981212 GAAACTTACT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
11 21 0.51
12 20 0.49
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (11 bp):
AATTTTTTTTT
Found at i:65983326 original size:14 final size:14
Alignment explanation
Indices: 65983275--65983330 Score: 76
Period size: 14 Copynumber: 4.0 Consensus size: 14
65983265 AAGGAATGGT
*
65983275 CGAAATGGAATGAA
1 CGAAATGGTATGAA
65983289 CGAAATGGTATGAA
1 CGAAATGGTATGAA
*
65983303 TGAAATGGTATGAA
1 CGAAATGGTATGAA
**
65983317 CGAAGGGGTATGAA
1 CGAAATGGTATGAA
65983331 TGAATTGGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.43, C:0.05, G:0.32, T:0.20
Consensus pattern (14 bp):
CGAAATGGTATGAA
Found at i:65983339 original size:28 final size:28
Alignment explanation
Indices: 65983276--65983339 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
65983266 AGGAATGGTC
* *
65983276 GAAATGGAATGAACGAAATGGTATGAAT
1 GAAATGGTATGAACGAAAGGGTATGAAT
*
65983304 GAAATGGTATGAACGAAGGGGTATGAAT
1 GAAATGGTATGAACGAAAGGGTATGAAT
*
65983332 GAATTGGT
1 GAAATGGT
65983340 CGGTTTAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.33, T:0.23
Consensus pattern (28 bp):
GAAATGGTATGAACGAAAGGGTATGAAT
Found at i:65988294 original size:39 final size:37
Alignment explanation
Indices: 65988214--65988321 Score: 89
Period size: 38 Copynumber: 2.8 Consensus size: 37
65988204 AAATCATGTG
65988214 TTAAAGATGT-CTAAAACTAAGACACATTAAAAGGCCTAT
1 TTAAA-ATGTACT-AAACTAAGACACATTAAAA-GCCTAT
* *
65988253 TTAATATGTACTAAACTAAGACATATTTAAAA-CCTACAT
1 TTAAAATGTACTAAACTAAGACACA-TTAAAAGCCT--AT
* *
65988292 TTAAAATGT--TTAGCTTAAGACACATTAAAA
1 TTAAAATGTACTAAAC-TAAGACACATTAAAA
65988322 TGCTGTACTA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
37 12 0.21
38 24 0.41
39 22 0.38
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (37 bp):
TTAAAATGTACTAAACTAAGACACATTAAAAGCCTAT
Found at i:65994845 original size:20 final size:20
Alignment explanation
Indices: 65994822--65994868 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
65994812 AGCTCCGTCC
*
65994822 AGCTCAATTCAGCTCATTTG
1 AGCTCAATTCAGCTCATTTA
** *
65994842 AGCTCGTTTCAGCTCGTTTA
1 AGCTCAATTCAGCTCATTTA
65994862 AGCTCAA
1 AGCTCAA
65994869 CCGAGCTTAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (20 bp):
AGCTCAATTCAGCTCATTTA
Found at i:65995426 original size:20 final size:21
Alignment explanation
Indices: 65995403--65995449 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
65995393 AGCTCCAATC
65995403 AGCTCACCTGAGCTTG-ATTT
1 AGCTCACCTGAGCTTGAATTT
*
65995423 AGCTCACTTGAGCTTGAATTT
1 AGCTCACCTGAGCTTGAATTT
65995444 AGCTCA
1 AGCTCA
65995450 TTTCAGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (21 bp):
AGCTCACCTGAGCTTGAATTT
Found at i:65995457 original size:21 final size:20
Alignment explanation
Indices: 65995403--65995457 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
65995393 AGCTCCAATC
* *
65995403 AGCTCACCTGAGCTTGATTT
1 AGCTCACTTCAGCTTGATTT
*
65995423 AGCTCACTTGAGCTTGAATTT
1 AGCTCACTTCAGCTTG-ATTT
*
65995444 AGCTCATTTCAGCT
1 AGCTCACTTCAGCT
65995458 CATTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (20 bp):
AGCTCACTTCAGCTTGATTT
Found at i:65995690 original size:13 final size:13
Alignment explanation
Indices: 65995672--65995706 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
65995662 ATTATATGAA
*
65995672 TAATTATTTTATT
1 TAATTATGTTATT
65995685 TAATTATGTTATT
1 TAATTATGTTATT
65995698 TAATTATGT
1 TAATTATGT
65995707 AGGTTAGCCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:65996922 original size:31 final size:30
Alignment explanation
Indices: 65996901--65996961 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
65996891 AAAAAGTGAA
* *
65996901 GTACGAAATTTCAAAAAAAAAAAGAAAAAAT
1 GTACGAAA-TTAAAAAAAAAAAAAAAAAAAT
65996932 GTACGAAATTAAAAAAAAAAGAAAAAAAAA
1 GTACGAAATTAAAAAAAAAA-AAAAAAAAA
65996962 GTGAAGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.72, C:0.05, G:0.10, T:0.13
Consensus pattern (30 bp):
GTACGAAATTAAAAAAAAAAAAAAAAAAAT
Found at i:66003456 original size:23 final size:20
Alignment explanation
Indices: 66003399--66003465 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
66003389 CATGATTCAA
*
66003399 TTAATTTGTCTTAGCCGCAT
1 TTAATTTGTCTTAGCAGCAT
* * *
66003419 TTAAGTTATCATAGCAGCCAAAT
1 TTAATTTGTCTTAGCAG-C--AT
66003442 TTAATTTGTCTTAGCTAGC-T
1 TTAATTTGTCTTAGC-AGCAT
66003462 TTAA
1 TTAA
66003466 ACTTGTTTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
20 18 0.50
21 1 0.03
23 15 0.42
24 2 0.06
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TTAATTTGTCTTAGCAGCAT
Found at i:66011997 original size:19 final size:19
Alignment explanation
Indices: 66011973--66012024 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
66011963 ATCTAAGATT
66011973 ATTAACTAAGATGAACTCA
1 ATTAACTAAGATGAACTCA
*
66011992 ATTAACTAAAATGAACTCA
1 ATTAACTAAGATGAACTCA
66012011 ATTAACTAAGATGA
1 ATTAACTAAGATGA
66012025 GTAATTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (19 bp):
ATTAACTAAGATGAACTCA
Found at i:66015325 original size:26 final size:27
Alignment explanation
Indices: 66015296--66015351 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
66015286 GCAGCAACTA
66015296 ATTAAATTTG-TGT-CTAAACTAGACAC
1 ATTAAA-TTGATGTCCTAAACTAGACAC
66015322 ATTAAATTGATGTCCTAAACTAGACAC
1 ATTAAATTGATGTCCTAAACTAGACAC
66015349 ATT
1 ATT
66015352 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.11
26 9 0.32
27 16 0.57
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (27 bp):
ATTAAATTGATGTCCTAAACTAGACAC
Found at i:66020651 original size:12 final size:11
Alignment explanation
Indices: 66020625--66020697 Score: 71
Period size: 11 Copynumber: 6.7 Consensus size: 11
66020615 TTCCAATCAC
*
66020625 TTTTATTTGAA
1 TTTTTTTTGAA
66020636 TTTTTTTTGAA
1 TTTTTTTTGAA
*
66020647 -TTTTTTCGAA
1 TTTTTTTTGAA
*
66020657 ATTTTTTTGAA
1 TTTTTTTTGAA
*
66020668 TTTTTTTCG-A
1 TTTTTTTTGAA
66020678 TTTTGTTTTCG-A
1 TTTT-TTTT-GAA
66020690 TTTTTTTT
1 TTTTTTTT
66020698 TTCAACTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
10 14 0.26
11 33 0.62
12 6 0.11
ACGTcount: A:0.16, C:0.04, G:0.10, T:0.70
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:66020686 original size:22 final size:22
Alignment explanation
Indices: 66020625--66020697 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 22
66020615 TTCCAATCAC
66020625 TTTTATTT-GAATTTTTTTTGAA
1 TTTT-TTTCGAATTTTTTTTGAA
*
66020647 -TTTTTTCGAAATTTTTTTGAA
1 TTTTTTTCGAATTTTTTTTGAA
*
66020668 TTTTTTTCG-ATTTTGTTTTCGAT
1 TTTTTTTCGAATTTT-TTTT-GAA
66020691 TTTTTTT
1 TTTTTTT
66020698 TTCAACTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 3 0.07
21 20 0.45
22 12 0.27
23 9 0.20
ACGTcount: A:0.16, C:0.04, G:0.10, T:0.70
Consensus pattern (22 bp):
TTTTTTTCGAATTTTTTTTGAA
Found at i:66020698 original size:12 final size:12
Alignment explanation
Indices: 66020635--66020697 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
66020625 TTTTATTTGA
*
66020635 ATTTTTTTTGA-
1 ATTTTTTTCGAT
*
66020646 A-TTTTTTCGAA
1 ATTTTTTTCGAT
66020657 ATTTTTTT-GA-
1 ATTTTTTTCGAT
66020667 ATTTTTTTCGAT
1 ATTTTTTTCGAT
66020679 -TTTGTTTTCGAT
1 ATTT-TTTTCGAT
66020691 -TTTTTTT
1 ATTTTTTT
66020698 TTCAACTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
10 16 0.35
11 13 0.28
12 17 0.37
ACGTcount: A:0.16, C:0.05, G:0.10, T:0.70
Consensus pattern (12 bp):
ATTTTTTTCGAT
Found at i:66020778 original size:75 final size:78
Alignment explanation
Indices: 66020689--66020835 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 78
66020679 TTTGTTTTCG
* * *
66020689 ATTTTTTTTTTCAACTT-C-TTTTT-TTTTAACTACAAAATGATACTTTCAATGCAATGCTTGAA
1 ATTTTTTTTTTCAACTTACTTTTTTGTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAA
66020751 TTTTCTCGAGATA
66 TTTTCTCGAGATA
* *
66020764 ATTTTTTTTTTCAACTTCGACTTTTTTTGGTTTTGACTACAAAATGAAACTTTTAATGCAATACT
1 ATTTTTTTTTTCAACTT--AC-TTTTTT-GTTTTAACTACAAAATGAAACTTTCAATGCAATACT
66020829 TCAATTT
62 TCAATTT
66020836 CACGAAATGA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
75 17 0.28
78 1 0.02
80 5 0.08
82 37 0.62
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (78 bp):
ATTTTTTTTTTCAACTTACTTTTTTGTTTTAACTACAAAATGAAACTTTCAATGCAATACTTCAA
TTTTCTCGAGATA
Found at i:66021503 original size:22 final size:20
Alignment explanation
Indices: 66021464--66021503 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
66021454 GCTGGAACCT
66021464 TCCTTGAAGATTCTTGAACG
1 TCCTTGAAGATTCTTGAACG
*
66021484 TCCTTGGAAGCTTCCTTGAA
1 TCCTT-GAAGATT-CTTGAA
66021504 GTTTCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (20 bp):
TCCTTGAAGATTCTTGAACG
Found at i:66022169 original size:27 final size:26
Alignment explanation
Indices: 66022122--66022177 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 26
66022112 GCAGCAACTA
66022122 ATTAAATTTGTCTCTAAACTAGACAC
1 ATTAAATTTGTCTCTAAACTAGACAC
66022148 ATTAAATTGATGTC-CTAAACTAGACAC
1 ATTAAATT--TGTCTCTAAACTAGACAC
66022175 ATT
1 ATT
66022178 TAAGCTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 8 0.29
27 16 0.57
28 4 0.14
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (26 bp):
ATTAAATTTGTCTCTAAACTAGACAC
Found at i:66024254 original size:6 final size:6
Alignment explanation
Indices: 66024240--66024279 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
66024230 TTTTCACTTA
*
66024240 TTTCTT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC
66024280 TCTTCTCTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTCAT
Found at i:66027342 original size:27 final size:27
Alignment explanation
Indices: 66027311--66027405 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
66027301 TTAGTTTACC
** *
66027311 AAATTACTGAAATACCCTCGACTTATA
1 AAATTACCCAAATACCCTCGATTTATA
*
66027338 AAATTA-CCAAAGTACCCCCGATTTATA
1 AAATTACCCAAA-TACCCTCGATTTATA
* *
66027365 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCCAAATACCCTCGATTTATA
*
66027392 AAATTACCGAAATA
1 AAATTACCCAAATA
66027406 AGATAGAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.05
27 50 0.86
28 5 0.09
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCCAAATACCCTCGATTTATA
Found at i:66027489 original size:27 final size:26
Alignment explanation
Indices: 66027408--66027482 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 26
66027398 CCGAAATAAG
66027408 ATAGAATTACCATTTTACCCTCGATTT
1 ATAGAATTA-CATTTTACCCTCGATTT
*
66027435 ACAGAATTACAGTTTTACCCTCGATTT
1 ATAGAATTACA-TTTTACCCTCGATTT
66027462 ATAGAATTACGATTTTACCCT
1 ATAGAATTAC-ATTTTACCCT
66027483 TAATTTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.05
27 41 0.93
28 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (26 bp):
ATAGAATTACATTTTACCCTCGATTT
Found at i:66027496 original size:27 final size:26
Alignment explanation
Indices: 66027410--66027497 Score: 104
Period size: 27 Copynumber: 3.3 Consensus size: 26
66027400 GAAATAAGAT
*
66027410 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTA-CATTTTACCCTCGATTTAA
*
66027437 AGAATTACAGTTTTACCCTCGATTTAT
1 AGAATTACA-TTTTACCCTCGATTTAA
**
66027464 AGAATTACGATTTTACCCTTAATTTAA
1 AGAATTAC-ATTTTACCCTCGATTTAA
*
66027491 AAAATTA
1 AGAATTA
66027498 TTGAAATACC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.94
28 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (26 bp):
AGAATTACATTTTACCCTCGATTTAA
Found at i:66027610 original size:27 final size:27
Alignment explanation
Indices: 66027580--66027692 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 27
66027570 GTGAAATGAA
66027580 TGAAATACCCTTGTAGGGTAGAATTAC
1 TGAAATACCCTTGTAGGGTAGAATTAC
*
66027607 TGAAATATCCCTGTAGGGTTGGGTAGAATTA-
1 TGAAATA-CCCT-T---GTAGGGTAGAATTAC
* *
66027638 TCAAAATACCCCTGTAGGGTAGAATTAC
1 T-GAAATACCCTTGTAGGGTAGAATTAC
* * * *
66027666 CGAGATACCCTTGTGGGGTAAAATTAC
1 TGAAATACCCTTGTAGGGTAGAATTAC
66027693 CATTTTGCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
27 41 0.59
28 4 0.06
29 1 0.01
30 1 0.01
31 4 0.06
32 18 0.26
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (27 bp):
TGAAATACCCTTGTAGGGTAGAATTAC
Found at i:66027632 original size:32 final size:32
Alignment explanation
Indices: 66027595--66027657 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
66027585 TACCCTTGTA
* *
66027595 GGGTAGAATTA-CTGAAATATCCCTGTAGGGTT
1 GGGTAGAATTATC-AAAATACCCCTGTAGGGTT
66027627 GGGTAGAATTATCAAAATACCCCTGTAGGGT
1 GGGTAGAATTATCAAAATACCCCTGTAGGGT
66027658 AGAATTACCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (32 bp):
GGGTAGAATTATCAAAATACCCCTGTAGGGTT
Found at i:66028120 original size:6 final size:6
Alignment explanation
Indices: 66028088--66028169 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
66028078 TTGCATTCAC
* * *
66028088 ATTCTG ATTTTG ATTCTG -TTACTTG ATACTG ATTCTG ATTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
66028137 -TCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
66028170 AATATTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 4 0.07
6 48 0.80
7 6 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:66028123 original size:31 final size:31
Alignment explanation
Indices: 66028088--66028160 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
66028078 TTGCATTCAC
* * *
66028088 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
66028119 ATTCTGATTCTGATTTTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
66028150 ATTCTGATTCT
1 ATTCTGATTCT
66028161 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:66030182 original size:10 final size:10
Alignment explanation
Indices: 66030169--66030203 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
66030159 GAGCTCCGTC
66030169 CAGCTCAATT
1 CAGCTCAATT
66030179 CAGCTCAATT
1 CAGCTCAATT
* *
66030189 GAGCTCATTT
1 CAGCTCAATT
66030199 CAGCT
1 CAGCT
66030204 TGTTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:66033993 original size:12 final size:12
Alignment explanation
Indices: 66033976--66034019 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
66033966 CTCTCTTAAA
*
66033976 CTCTTTTTCATT
1 CTCTTTTTCAAT
*
66033988 CTCTTTTTCAAC
1 CTCTTTTTCAAT
* *
66034000 CTCATTTTCACT
1 CTCTTTTTCAAT
66034012 CTCTTTTT
1 CTCTTTTT
66034020 GTTCTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTTTTCAAT
Found at i:66042394 original size:12 final size:13
Alignment explanation
Indices: 66042366--66042398 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66042356 TTATTTCTTT
66042366 TTCTCCATCTACC
1 TTCTCCATCTACC
*
66042379 TTCTCC-TCTTCC
1 TTCTCCATCTACC
66042391 TTCTCCAT
1 TTCTCCAT
66042399 AGCCGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:66043507 original size:28 final size:28
Alignment explanation
Indices: 66043467--66043531 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
66043457 ATGTACTAGA
*
66043467 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
**
66043495 ATACCCCTATGTATGCAAAATGACTTTT
1 ATACCCCTATGTATGCAAAATGACCATT
66043523 ATACCCCTA
1 ATACCCCTA
66043532 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:66043695 original size:27 final size:27
Alignment explanation
Indices: 66043637--66043726 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
66043627 AGGAAGCTTC
66043637 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
66043665 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
66043692 CTGGTGGCACTGACACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
66043721 CTGGTG
1 CTGGTG
66043727 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.41
28 25 0.46
29 7 0.13
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:66043745 original size:55 final size:56
Alignment explanation
Indices: 66043637--66043751 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
66043627 AGGAAGCTTC
* * *
66043637 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
66043692 CTGGTGGC-ACTGACACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGACACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
66043748 CTGG
1 CTGG
66043752 AAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGACACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:66044530 original size:20 final size:20
Alignment explanation
Indices: 66044505--66044557 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
66044495 ATTTCATGTT
*
66044505 TGAATTTTGTTAATTGTAAG
1 TGAATTTTATTAATTGTAAG
66044525 TGAATTTTATTAATTGTAAG
1 TGAATTTTATTAATTGTAAG
66044545 TGAATTTTATTAA
1 TGAATTTTATTAA
66044558 ATAGGACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (20 bp):
TGAATTTTATTAATTGTAAG
Found at i:66046895 original size:28 final size:28
Alignment explanation
Indices: 66046850--66046912 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
66046840 GTACTAGAAG
* *
66046850 ACCCCTGTGTATAAAAAATTACCATTAT
1 ACCCCTATGTATAAAAAATGACCATTAT
** *
66046878 ACCCCTATGTATGCAAAATGACCTTTAT
1 ACCCCTATGTATAAAAAATGACCATTAT
66046906 ACCCCTA
1 ACCCCTA
66046913 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (28 bp):
ACCCCTATGTATAAAAAATGACCATTAT
Found at i:66047058 original size:26 final size:27
Alignment explanation
Indices: 66047017--66047096 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
66047007 GAGAAGCATC
66047017 CTGGTGGCTA-TGCCACAATTATCTGTT
1 CTGGTGGC-ACTGCCACAATTATCTGTT
*
66047044 CTGGT-GCCCTGCCAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAT-TATCTGTT
* *
66047070 CTTGTGGCACTGCCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AATTATCTGT
66047097 ATCTCGTGAC
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
25 2 0.05
26 20 0.45
27 14 0.32
28 7 0.16
29 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAATTATCTGTT
Found at i:66048671 original size:10 final size:10
Alignment explanation
Indices: 66048650--66048693 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
66048640 TAGCGAACAA
66048650 AAAAATT-A-
1 AAAAATTCAG
66048658 AAAAATTCAG
1 AAAAATTCAG
66048668 AAAAATTCAG
1 AAAAATTCAG
*
66048678 AAAGATTCATG
1 AAAAATTCA-G
66048689 AAAAA
1 AAAAA
66048694 AAAAGAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
10 18 0.58
11 5 0.16
ACGTcount: A:0.64, C:0.07, G:0.09, T:0.20
Consensus pattern (10 bp):
AAAAATTCAG
Found at i:66053634 original size:17 final size:18
Alignment explanation
Indices: 66053612--66053650 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
66053602 TGCACATACA
66053612 AATTAATTCAG-CACATT
1 AATTAATTCAGACACATT
*
66053629 AATTAATTTAGACACATT
1 AATTAATTCAGACACATT
66053647 AATT
1 AATT
66053651 TTGGGTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTAATTCAGACACATT
Found at i:66057866 original size:79 final size:82
Alignment explanation
Indices: 66057755--66057939 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
66057745 GCTACTCGTT
* *
66057755 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
66057818 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
66057835 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
66057898 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66057915 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66057940 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66057939 original size:40 final size:40
Alignment explanation
Indices: 66057736--66057939 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
66057726 CGGAATTTAA
** *
66057736 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66057776 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
66057816 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
66057855 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
66057895 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
66057935 CCGGA
1 CCGGA
66057940 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:66065900 original size:38 final size:40
Alignment explanation
Indices: 66065784--66065967 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
66065774 GCTACTCGTT
* *
66065784 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
66065824 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
66065864 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
66065902 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
66065943 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66065968 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 35 0.28
39 2 0.02
40 75 0.60
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:66065910 original size:78 final size:82
Alignment explanation
Indices: 66065784--66065967 Score: 220
Period size: 78 Copynumber: 2.3 Consensus size: 82
66065774 GCTACTCGTT
* *
66065784 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
66065847 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
66065864 CAAATGCCTTC-GG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
66065926 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
66065943 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
66065968 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 51 0.57
79 13 0.15
80 22 0.25
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:66068156 original size:93 final size:93
Alignment explanation
Indices: 66067997--66068168 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
66067987 CGCCCATAAG
*
66067997 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
66068062 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
66068090 CGAACTCGGACTCTACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
66068154 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
66068169 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:66068163 original size:46 final size:46
Alignment explanation
Indices: 66067990--66068165 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
66067980 TGTAACCCGC
* *
66067990 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
66068036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
66068086 -C-TCA-CGAACTCGGACTCTACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
66068129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
66068166 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:66071738 original size:24 final size:22
Alignment explanation
Indices: 66071702--66071754 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
66071692 ATTAAGACCT
*
66071702 AATTAACTAATTTAACTAACAGCA
1 AATTAAATAATTTAA-T-ACAGCA
* * *
66071726 AATTAAATGATTTTATTCAGCA
1 AATTAAATAATTTAATACAGCA
66071748 AATTAAA
1 AATTAAA
66071755 CGAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 12 0.48
23 1 0.04
24 12 0.48
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (22 bp):
AATTAAATAATTTAATACAGCA
Found at i:66073358 original size:20 final size:20
Alignment explanation
Indices: 66073335--66073373 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
66073325 TCTAGCACAA
66073335 TTCAGCTCATTTGAGCTCAT
1 TTCAGCTCATTTGAGCTCAT
* *
66073355 TTCATCTCGTTTGAGCTCA
1 TTCAGCTCATTTGAGCTCA
66073374 ATCGAGCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (20 bp):
TTCAGCTCATTTGAGCTCAT
Found at i:66075820 original size:14 final size:13
Alignment explanation
Indices: 66075798--66075840 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
66075788 ACCTCTTGTA
*
66075798 AAAAGAAAATGAG
1 AAAAGAAAAAGAG
66075811 AAAAGAAAAAGACG
1 AAAAGAAAAAGA-G
66075825 AAAAGAAAAAAGAG
1 AAAAG-AAAAAGAG
66075839 AA
1 AA
66075841 CAAAAGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.02
Consensus pattern (13 bp):
AAAAGAAAAAGAG
Found at i:66077978 original size:10 final size:10
Alignment explanation
Indices: 66077961--66078000 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
66077951 GTCCATCTCA
66077961 ATTT-AGCTC
1 ATTTGAGCTC
66077970 ATTTGAGCTC
1 ATTTGAGCTC
* *
66077980 ATTTAAGCCC
1 ATTTGAGCTC
66077990 ATTTGAGCTC
1 ATTTGAGCTC
66078000 A
1 A
66078001 ACCGAGCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (10 bp):
ATTTGAGCTC
Found at i:66077980 original size:20 final size:21
Alignment explanation
Indices: 66077957--66078001 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
66077947 CTCCGTCCAT
*
66077957 CTCAATTT-AGCTCATTTGAG
1 CTCAATTTAAGCCCATTTGAG
66077977 CTC-ATTTAAGCCCATTTGAG
1 CTCAATTTAAGCCCATTTGAG
66077997 CTCAA
1 CTCAA
66078002 CCGAGCTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (21 bp):
CTCAATTTAAGCCCATTTGAG
Found at i:66080909 original size:37 final size:37
Alignment explanation
Indices: 66080854--66080924 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
66080844 ACCTTTAGCT
* * *
66080854 CAGACGAAATCTCTACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
*
66080891 CAGACAAAATCTCCACACGTAGTCATCGGGTCTT
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTT
66080925 TAGAGCTCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
Found at i:66081122 original size:47 final size:47
Alignment explanation
Indices: 66081043--66081548 Score: 771
Period size: 47 Copynumber: 10.6 Consensus size: 47
66081033 CCCTTCGGGA
* * * *
66081043 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCATTAGGC
* * *
66081090 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
66081137 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
66081184 CTTATCACATATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
66081233 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
66081280 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
66081327 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
66081376 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
66081425 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
66081472 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
66081521 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
66081549 CAATGAATAA
Statistics
Matches: 427, Mismatches: 25, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 243 0.57
48 2 0.00
49 182 0.43
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:66081240 original size:96 final size:96
Alignment explanation
Indices: 66081043--66081548 Score: 806
Period size: 96 Copynumber: 5.3 Consensus size: 96
66081033 CCCTTCGGGA
* * * * * *
66081043 CTTATCACATTTATACACTTTCACA-TCTATCACGTTGGCCACTCGGCCCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTC-ATCACATTGGCCATTAGGCCTTATCACATATATATA
* *
66081105 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATTGGCCATTCGGC
66081137 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
*
66081202 ACCTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
66081233 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
* * *
66081296 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
66081327 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
66081392 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTCGGC
* *
66081425 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
66081490 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
66081521 CTTATCACATATATACACTTTCACATTC
1 CTTATCACATATATACACTTTCACATTC
66081549 CAATGAATAA
Statistics
Matches: 382, Mismatches: 23, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
94 89 0.23
95 2 0.01
96 247 0.65
98 44 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:66081312 original size:143 final size:143
Alignment explanation
Indices: 66081043--66081548 Score: 856
Period size: 143 Copynumber: 3.5 Consensus size: 143
66081033 CCCTTCGGGA
* * * *
66081043 CTTATCACAT-T-TATACACTTTCACA-TCTATCACGTTGGCCACTCGGCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTC-ATCACATTGGCCATTCGGCCTTATCACATATATA
66081105 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
*
66081170 ATTGGCCATTAGGC
130 ATCGGCCATTAGGC
*
66081184 CTTATCACATATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
66081249 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
66081314 TCGGCTATTAGGC
131 TCGGCCATTAGGC
*
66081327 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* * *
66081392 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCATATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66081457 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
66081472 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
66081537 ACTTTCACATTC
66 ACTTTCACATTC
66081549 CAATGAATAA
Statistics
Matches: 344, Mismatches: 16, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
141 10 0.03
142 1 0.00
143 194 0.56
144 2 0.01
145 137 0.40
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:66083176 original size:13 final size:13
Alignment explanation
Indices: 66083158--66083182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66083148 TACTAAATTT
66083158 TCATGGATTCAAA
1 TCATGGATTCAAA
66083171 TCATGGATTCAA
1 TCATGGATTCAA
66083183 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:66086340 original size:20 final size:20
Alignment explanation
Indices: 66086303--66086348 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
66086293 TAAGCTCGGT
*
66086303 TGAGCTCAAACAATCTGAAA
1 TGAGCTCAAACAAGCTGAAA
** *
66086323 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACAAGCTGAAA
66086343 TGAGCT
1 TGAGCT
66086349 GGACGGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (20 bp):
TGAGCTCAAACAAGCTGAAA
Found at i:66094281 original size:12 final size:12
Alignment explanation
Indices: 66094264--66094306 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
66094254 CTCGATCTCT
66094264 TTTTCTTTTTCA
1 TTTTCTTTTTCA
*
66094276 TTTTCTTTTTTA
1 TTTTCTTTTTCA
* *
66094288 ATTTCATTTTTCT
1 TTTTC-TTTTTCA
66094301 TTTTCT
1 TTTTCT
66094307 CACTTTCTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:66094282 original size:18 final size:20
Alignment explanation
Indices: 66094261--66094306 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
66094251 ACTCTCGATC
*
66094261 TCTTTTTCT-TTTTCA-TTT
1 TCTTTTTCTAATTTCATTTT
66094279 TCTTTTT-TAATTTCATTTT
1 TCTTTTTCTAATTTCATTTT
66094298 TCTTTTTCT
1 TCTTTTTCT
66094307 CACTTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 12 0.50
19 10 0.42
20 1 0.04
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (20 bp):
TCTTTTTCTAATTTCATTTT
Found at i:66094330 original size:21 final size:21
Alignment explanation
Indices: 66094289--66094330 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66094279 TCTTTTTTAA
*
66094289 TTTCATTTTTCTTTTTCTCAC
1 TTTCATTTTTCTTTCTCTCAC
*
66094310 TTTC-TTTTTGCTTTCTTTCAC
1 TTTCATTTTT-CTTTCTCTCAC
66094331 ACTGTAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.07, C:0.24, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTCATTTTTCTTTCTCTCAC
Found at i:66095359 original size:47 final size:47
Alignment explanation
Indices: 66095288--66095798 Score: 752
Period size: 47 Copynumber: 10.6 Consensus size: 47
66095278 CCCTTCGGGA
* * * * * *
66095288 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66095335 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66095382 CTTATCACATATATACACTTTCACATTCATCGCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
66095429 CTTATCACATATATACACTTTCACATTCATCGCATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66095476 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66095523 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66095570 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGG---------C--C-ATTAGGC
66095629 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
66095676 CTTATCACATATATATAGACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
66095725 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
66095772 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
66095799 TATTCAAATA
Statistics
Matches: 427, Mismatches: 23, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
47 334 0.78
48 1 0.00
49 44 0.10
50 1 0.00
56 1 0.00
58 1 0.00
59 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:66095626 original size:59 final size:59
Alignment explanation
Indices: 66095550--66095670 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
66095540 CTTTCACATT
66095550 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
66095609 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66095668 CAT
1 CAT
66095671 TAGGCCTTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.30
Consensus pattern (59 bp):
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
Found at i:66095626 original size:106 final size:106
Alignment explanation
Indices: 66095503--66095798 Score: 463
Period size: 106 Copynumber: 2.9 Consensus size: 106
66095493 CTTTCACATT
66095503 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
66095568 GCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66 GCCTTATCACATATATACACTTTCACATTCATCACATCGGC
66095609 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
* *
66095674 GCCTTATCACATATATATAGACTTTCACATTCATCACATTGGC
66 GCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
66095717 CAT----T---C-----GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
*
66095770 GTCTTATCACATATATACACTTTCACATT
66 GCCTTATCACATATATACACTTTCACATT
66095799 TATTCAAATA
Statistics
Matches: 184, Mismatches: 4, Indels: 16
0.90 0.02 0.08
Matches are distributed among these distances:
94 18 0.10
96 57 0.31
101 1 0.01
104 1 0.01
106 75 0.41
108 32 0.17
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (106 bp):
CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTTATCACATATATACACTTTCACATTCATCACATCGGC
Found at i:66095761 original size:155 final size:153
Alignment explanation
Indices: 66095469--66095766 Score: 542
Period size: 155 Copynumber: 1.9 Consensus size: 153
66095459 CGCATCGACC
*
66095469 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
66095534 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
66 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
66095599 TCACATCGGCCATCACATCGGCT
131 TCACATCGGCCATCACATCGGCT
66095622 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--A
* * *
66095687 TATATAGACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
64 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66095752 CATCACATCGGCCAT
129 CATCACATCGGCCAT
66095767 TAGGTCTTAT
Statistics
Matches: 139, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
153 61 0.44
155 78 0.56
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (153 bp):
ATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
TCACATCGGCCATCACATCGGCT
Found at i:66095765 original size:202 final size:200
Alignment explanation
Indices: 66095409--66095798 Score: 690
Period size: 202 Copynumber: 1.9 Consensus size: 200
66095399 CTTTCACATT
* *
66095409 CATCGCATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCGCATCGACCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAG
*
66095474 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
66 GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
66095539 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
131 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66095604 TCGGC
196 TCGGC
*
66095609 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAG
1 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAG
* * *
66095674 GCCTTATCACATATATATAGACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
66 GCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
66095739 ACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATACACTTTCACATT
129 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
66095799 TATTCAAATA
Statistics
Matches: 180, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
200 72 0.40
202 108 0.60
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (200 bp):
CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGACCATTAG
GCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGC
Found at i:66099426 original size:22 final size:21
Alignment explanation
Indices: 66099400--66099447 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
66099390 TTTGAGCCTC
66099400 TCTTTTTTTTTAATTTTGTATT
1 TCTTTTTTTTT-ATTTTGTATT
*
66099422 TCTTTTTTTTTGTTTTGTATT
1 TCTTTTTTTTTATTTTGTATT
66099443 T-TTTT
1 TCTTTT
66099448 AATTCTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 4 0.16
21 10 0.40
22 11 0.44
ACGTcount: A:0.08, C:0.04, G:0.06, T:0.81
Consensus pattern (21 bp):
TCTTTTTTTTTATTTTGTATT
Found at i:66099429 original size:21 final size:20
Alignment explanation
Indices: 66099402--66099447 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
66099392 TGAGCCTCTC
66099402 TTTTTTTTTAATTTTGTATT
1 TTTTTTTTTAATTTTGTATT
**
66099422 TCTTTTTTTTTGTTTTGTATT
1 T-TTTTTTTTAATTTTGTATT
66099443 TTTTT
1 TTTTT
66099448 AATTCTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.83
Consensus pattern (20 bp):
TTTTTTTTTAATTTTGTATT
Found at i:66101791 original size:17 final size:17
Alignment explanation
Indices: 66101761--66101815 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
66101751 AGCAACTCAT
66101761 TTATTAAGCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
66101779 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
66101797 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
66101815 T
1 T
66101816 AATTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:66106070 original size:41 final size:41
Alignment explanation
Indices: 66106007--66106101 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 41
66105997 ACAAGTGGAG
* * * *
66106007 TGAGCT-AACATGAGCTGGTGTAGAGTACTCTGAGCTATCT
1 TGAGCTGAAGATGAACTAGTGTAGAGTACTCTGAGCTAACT
66106047 TGAGCTGAAGATGAACTAGTGTAGAGTACTCTGAGCTAACT
1 TGAGCTGAAGATGAACTAGTGTAGAGTACTCTGAGCTAACT
**
66106088 CAAGCTGAAGATGA
1 TGAGCTGAAGATGA
66106102 GCTGCATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 6 0.12
41 42 0.88
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (41 bp):
TGAGCTGAAGATGAACTAGTGTAGAGTACTCTGAGCTAACT
Found at i:66114379 original size:12 final size:11
Alignment explanation
Indices: 66114361--66114392 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
66114351 CGTATCTTTA
66114361 GAAAAAAATTT
1 GAAAAAAATTT
66114372 GAAAAAAATTT
1 GAAAAAAATTT
66114383 GAAAAAAATT
1 GAAAAAAATT
66114393 CGTGAAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (11 bp):
GAAAAAAATTT
Found at i:66117349 original size:41 final size:42
Alignment explanation
Indices: 66117291--66117444 Score: 161
Period size: 41 Copynumber: 3.6 Consensus size: 42
66117281 TTTTATCAAA
* *
66117291 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAGT-TCA-T
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGA-TATCATT
* *
66117332 TCACCGGCATTTTGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGATATCATT
* * *
66117374 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCTCGAATAGT-ATT
1 TCACCGGCATT-TAGCCTGCTAGGCTTGAA-ACCCG-ATA-TCATT
*
66117419 TCACTGGCATTGTAGCCTGCTAGGCT
1 TCACCGGCATT-TAGCCTGCTAGGCT
66117445 CAAAGGCCCG
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.35
42 12 0.12
43 16 0.16
44 4 0.04
45 30 0.31
46 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.30
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTTGAAACCCGATATCATT
Found at i:66117428 original size:45 final size:45
Alignment explanation
Indices: 66117331--66117503 Score: 210
Period size: 45 Copynumber: 3.9 Consensus size: 45
66117321 CCCGAGTTCA
* **
66117331 TTCACCGGCATT-TTGCCTGCTAGGCTTGAA-GCCCG-ATA-TCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-AT
* *
66117373 TTCACCGGCATTATAGCCTGCTAGGCTCGAAGGCTCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
* *
66117418 TTCACTGGCATTGTAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
* * * *
66117463 CTCACCGGCATCATAGACTGCTAGGCTCAAAGGCCCAAATA
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
66117504 TTACTATACG
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 12 0.11
43 16 0.14
44 4 0.04
45 81 0.71
46 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
Found at i:66128984 original size:27 final size:25
Alignment explanation
Indices: 66128945--66129030 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 25
66128935 AGTTGCTAGA
*
66128945 ACAGTAAGTGTGGCAAAGCCACCAGT
1 ACAGTAA-TGTGGCATAGCCACCAGT
66128971 ATCAGTAATTGTGGCATAGCCACCAGT
1 A-CAGTAA-TGTGGCATAGCCACCAGT
* *
66128998 AACAGTGAATGTGACATAGTCACCAGT
1 -ACAGT-AATGTGGCATAGCCACCAGT
66129025 ACAGTA
1 ACAGTA
66129031 CTTCCTCCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 43 0.81
28 3 0.06
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
ACAGTAATGTGGCATAGCCACCAGT
Found at i:66129196 original size:27 final size:27
Alignment explanation
Indices: 66129166--66129365 Score: 247
Period size: 27 Copynumber: 7.4 Consensus size: 27
66129156 GGGCATAATC
* * * *
66129166 GTCATTTTACCATACATGGGTATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
66129193 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
66129220 GTTATTTTACCCTGCAGTGCCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
66129247 ATCATTTTACCCAACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
66129274 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
66129301 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
66129328 GTCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
66129355 TTCATTTTACC
1 GTCATTTTACC
66129366 TACTTTGGGG
Statistics
Matches: 148, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:66132963 original size:28 final size:28
Alignment explanation
Indices: 66132923--66132988 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
66132913 ACAGCGCATG
* *
66132923 CAGTAACAGTCTGGGCCTTAGCCCTATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
66132951 CAGTAACAGTCTGGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCAATA
*
66132979 CAGTATCAGT
1 CAGTAACAGT
66132989 ACAGTGTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCAATA
Found at i:66133209 original size:27 final size:27
Alignment explanation
Indices: 66133143--66133229 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
66133133 TAGCTGCCCA
* *
66133143 AACAGTAAGA-GTGGCAAAGCCACCAAT
1 AACAGTAA-ATGTGGCATAGCCACCAGT
* *
66133170 ATCAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAAATGTGGCATAGCCACCAGT
* * *
66133197 AACAGTAAATGTGACGTAGTCACCAGT
1 AACAGTAAATGTGGCATAGCCACCAGT
66133224 -ACAGTA
1 AACAGTA
66133230 CTTCCTCCAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 6 0.12
27 44 0.88
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (27 bp):
AACAGTAAATGTGGCATAGCCACCAGT
Found at i:66133395 original size:27 final size:27
Alignment explanation
Indices: 66133377--66133537 Score: 223
Period size: 27 Copynumber: 6.0 Consensus size: 27
66133367 CATTTTATGA
* *
66133377 TACAGGGGTATTACGGTCATTTTACCT
1 TACAGGGGCATTACGGTCATTTTACCC
* * *
66133404 TATAGGGGTATTATGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
66133431 TACAGGGGCATTACGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
*
66133458 TACAAGGGCATTACGGTCATTTTACCC
1 TACAGGGGCATTACGGTCATTTTACCC
* *
66133485 TACAAGGGCATTACGGTCATTTTACCG
1 TACAGGGGCATTACGGTCATTTTACCC
** *
66133512 TACAGAAGCATTATGGTCATTTTACC
1 TACAGGGGCATTACGGTCATTTTACC
66133538 TACTTTGGGG
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
TACAGGGGCATTACGGTCATTTTACCC
Found at i:66137740 original size:16 final size:16
Alignment explanation
Indices: 66137719--66137776 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 16
66137709 CATTTCATAA
66137719 TCATTTCTCATATTTT
1 TCATTTCTCATATTTT
*
66137735 TCATTTC-AATATTTT
1 TCATTTCTCATATTTT
66137750 CTCA--TCTCATA---T
1 -TCATTTCTCATATTTT
66137762 TCATTTCTCATATTT
1 TCATTTCTCATATTT
66137777 ACCATTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
11 3 0.09
12 1 0.03
13 7 0.21
14 2 0.06
15 10 0.30
16 10 0.30
ACGTcount: A:0.22, C:0.21, G:0.00, T:0.57
Consensus pattern (16 bp):
TCATTTCTCATATTTT
Found at i:66137760 original size:43 final size:43
Alignment explanation
Indices: 66137704--66137789 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
66137694 TCATATTTCA
* **
66137704 TTTCTCATTTCATAATCATTTCTCATATTTTTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
*
66137747 TTTCTCATCTCATATTCATTTCTCATATTTACCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
66137790 CAATCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTACCATTTCAATAT
Found at i:66140184 original size:19 final size:19
Alignment explanation
Indices: 66140148--66140187 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
66140138 TTCCATGAGA
*
66140148 TTCTTCTCTCTTTCTTTCT
1 TTCTTCTCTCTTTATTTCT
* *
66140167 TTCTTTTCTTTTTATTTCT
1 TTCTTCTCTCTTTATTTCT
66140186 TT
1 TT
66140188 TCTAATTCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTTCTCTCTTTATTTCT
Found at i:66140462 original size:25 final size:25
Alignment explanation
Indices: 66140434--66140484 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
66140424 TGGGACCACA
66140434 AATCTGAAGTCATAAAATTTATTTT
1 AATCTGAAGTCATAAAATTTATTTT
*
66140459 AATCTGAGGTCATAAAATTTATTTT
1 AATCTGAAGTCATAAAATTTATTTT
66140484 A
1 A
66140485 GTATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (25 bp):
AATCTGAAGTCATAAAATTTATTTT
Found at i:66143904 original size:55 final size:54
Alignment explanation
Indices: 66143779--66143958 Score: 218
Period size: 55 Copynumber: 3.3 Consensus size: 54
66143769 GGGTTTAAGA
* * *
66143779 ATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
* * * * * * *
66143833 AAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAAG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTCTATAAGGCAAGG
* * * *
66143888 ATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
66143941 ATACCATGTAAGACCATG
1 ATACCATGTAAGACCATG
66143959 TTAAGACACG
Statistics
Matches: 103, Mismatches: 22, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
53 27 0.26
54 33 0.32
55 43 0.42
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
Found at i:66157031 original size:10 final size:9
Alignment explanation
Indices: 66157007--66157072 Score: 51
Period size: 10 Copynumber: 6.7 Consensus size: 9
66156997 TAACTTTCAT
66157007 AAAAAAGAA
1 AAAAAAGAA
*
66157016 GGAAAAAGAA
1 -AAAAAAGAA
66157026 ATAAAAAGGAA
1 A-AAAAA-GAA
*
66157037 AAGAAAGTAA
1 AAAAAAG-AA
*
66157047 AAAAAACAA
1 AAAAAAGAA
66157056 AGAAAAAGAA
1 A-AAAAAGAA
66157066 AATAAAA
1 AA-AAAA
66157073 AAATAGAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
9 5 0.11
10 36 0.80
11 4 0.09
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.05
Consensus pattern (9 bp):
AAAAAAGAA
Done.