Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 210 of 318
Found at i:66505949 original size:27 final size:27
Alignment explanation
Indices: 66505919--66506075 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
66505909 ATTACCAAAG
* *
66505919 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
66505946 TACCTTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
66505973 TACTCTCGATTTACAGAAGCACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
66506000 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
66506027 TACCCTTGATTTACAGAATT-CCTGTTT
1 TACCCTCGATTTACAGAATTACC-GTTT
* *
66506054 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
66506076 TAAAATACCC
Statistics
Matches: 108, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 106 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:66505983 original size:54 final size:54
Alignment explanation
Indices: 66505919--66506076 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
66505909 ATTACCAAAG
* * *
66505919 TACCCCCGATTTACATAATTACCGTTTTA-CCTTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTT-GATTTACAGAATTACTGTTT
* ** *
66505973 TACTCTCGATTTACAGAAGCACCGTTTTACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
* *
66506027 TACCCTTGATTTACAGAATT-CCTGTTTTACCCTTGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACC-GTTTTACCCTTGATTTACAGAATTACT
66506077 AAAATACCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 83 0.93
55 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
Found at i:66506084 original size:27 final size:27
Alignment explanation
Indices: 66506000--66506328 Score: 175
Period size: 27 Copynumber: 12.1 Consensus size: 27
66505990 AGCACCGTTT
* ****
66506000 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
* * * ****
66506027 TACCCTTGATTTACAGAATTCCTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
*
66506054 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
66506081 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
66506107 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
** * *
66506134 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
66506161 TACCCCT-AGTTTATAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * * *
66506188 TACCATTGGTTTGTGAAATTA-TCGAAA
1 TACCCTTGATTTATAAAATTACT-AAAA
** * *
66506215 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
66506242 TACCCCTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
*
66506269 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACTA-AAA
* * * *
66506298 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
66506325 TACC
1 TACC
66506329 TTTGGTTTGT
Statistics
Matches: 239, Mismatches: 51, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
26 24 0.10
27 189 0.79
28 8 0.03
29 18 0.08
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:66506085 original size:81 final size:81
Alignment explanation
Indices: 66505892--66506086 Score: 185
Period size: 81 Copynumber: 2.4 Consensus size: 81
66505882 ATTATTGAAA
* ** * * *
66505892 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCTTCGACT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCTTCGACT
66505957 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
* * ** **** * * * *
66505973 TACTCTCGATTTACAGAAGCACCGTTTTACCCTTGATTTATAGAATTACTGTTTTACCCTT-GAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTA-CCTTCGAC
*
66506037 TTACAGAATTCCTGTTT
65 TTACAGAATTACTGTTT
* *
66506054 TACCCTTGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACCAAAATACCCT
66506087 AGTCTGTAAA
Statistics
Matches: 85, Mismatches: 28, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
81 81 0.95
82 4 0.05
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCGTTTTACCTTCGACT
TACAGAATTACTGTTT
Found at i:66506104 original size:26 final size:26
Alignment explanation
Indices: 66506068--66506246 Score: 180
Period size: 27 Copynumber: 6.7 Consensus size: 26
66506058 CTTGATTTAC
* *
66506068 AAAATTACTAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
66506094 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
66506121 AAAATTA-CAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGT
*
66506148 AAAATTACCAAAATACCCCTAGTTTAT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* *
66506175 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
66506202 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
66506229 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
66506247 CTGATTTACA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
26 22 0.18
27 97 0.78
28 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:66506197 original size:81 final size:81
Alignment explanation
Indices: 66506068--66506301 Score: 287
Period size: 81 Copynumber: 2.9 Consensus size: 81
66506058 CTTGATTTAC
* * * * *
66506068 AAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGA
1 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGA
66506132 AATACCCTCAATTTGT
66 AATACCCTCAATTTGT
* *
66506148 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCATTGGTTTGTGAAATTATC-G
1 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAG
66506212 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
* * * *
66506229 AAAATTACCAAAATACCCCT-GATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTA
1 AAAATTACCAAAATACCCCTAG-TTTATAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTA
*
66506292 TAGAAATACC
62 CAGAAATACC
66506302 ATTGGTTTAC
Statistics
Matches: 133, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
80 17 0.13
81 97 0.73
82 5 0.04
83 14 0.11
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGA
AATACCCTCAATTTGT
Found at i:66506333 original size:27 final size:27
Alignment explanation
Indices: 66506285--66506336 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
66506275 TGACTTTCTA
66506285 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
66506312 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
66506337 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:66506420 original size:27 final size:27
Alignment explanation
Indices: 66506390--66506480 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
66506380 ACCCCTATTA
*
66506390 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
66506417 GGTAAAGTGACCGTAAAG-CCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
66506443 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
66506470 GGTAAAATGAC
1 GGTAAAATGAC
66506481 GAATATGCCC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
26 24 0.41
27 34 0.59
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:66507736 original size:9 final size:9
Alignment explanation
Indices: 66507724--66507780 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
66507714 TTTGATAAAC
66507724 ATGATATGT
1 ATGATATGT
*
66507733 ATGATATGCAC
1 ATGATATG--T
*
66507744 ATGACATGT
1 ATGATATGT
*
66507753 ATGATATGCAC
1 ATGATATG--T
66507764 ATGATATGT
1 ATGATATGT
66507773 ATGATATG
1 ATGATATG
66507781 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:66507747 original size:20 final size:20
Alignment explanation
Indices: 66507722--66507792 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
66507712 ATTTTGATAA
66507722 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66507742 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
66507762 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66507782 ACATGAGATGT
1 ACATGATATGT
66507793 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:66507769 original size:11 final size:11
Alignment explanation
Indices: 66507733--66507787 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
66507723 CATGATATGT
66507733 ATGATATGCAC
1 ATGATATGCAC
* *
66507744 ATGACATG--T
1 ATGATATGCAC
66507753 ATGATATGCAC
1 ATGATATGCAC
*
66507764 ATGATATG--T
1 ATGATATGCAC
66507773 ATGATATGCAC
1 ATGATATGCAC
66507784 ATGA
1 ATGA
66507788 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:66507967 original size:24 final size:24
Alignment explanation
Indices: 66507839--66508007 Score: 229
Period size: 25 Copynumber: 7.0 Consensus size: 24
66507829 AGGAAGTGCA
66507839 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66507862 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66507885 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66507910 AAATGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66507935 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
66507959 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
66507983 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
66508008 GATAAAGCAG
Statistics
Matches: 134, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
23 45 0.34
24 31 0.23
25 58 0.43
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:66508002 original size:49 final size:47
Alignment explanation
Indices: 66507838--66508007 Score: 227
Period size: 49 Copynumber: 3.5 Consensus size: 47
66507828 GAGGAAGTGC
66507838 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
* *
66507884 TAAAGGGCTTATGCCCCAGTTATGATAAATGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTAT
* *
66507932 GATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTA-T
*
66507982 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAAG-GGCTTATGCC-CCAGTTATAT
66508008 GATAAAGCAG
Statistics
Matches: 109, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
46 22 0.20
48 31 0.28
49 33 0.30
50 23 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
Found at i:66508234 original size:31 final size:31
Alignment explanation
Indices: 66508199--66508262 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
66508189 CATTTACAGT
66508199 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
66508230 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
66508261 AA
1 AA
66508263 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:66509332 original size:12 final size:13
Alignment explanation
Indices: 66509315--66509346 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66509305 ATAGCACATT
66509315 TCAAAAC-ATGCA
1 TCAAAACTATGCA
66509327 TCAAAACTATGCA
1 TCAAAACTATGCA
66509340 -CAAAACT
1 TCAAAACT
66509347 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:66513911 original size:27 final size:27
Alignment explanation
Indices: 66513813--66513906 Score: 136
Period size: 27 Copynumber: 3.5 Consensus size: 27
66513803 TTCTTGGTGC
66513813 CCAAAATACCCCTAGTTTGTAAAATTA
1 CCAAAATACCCCTAGTTTGTAAAATTA
* *
66513840 CCAAAATACCACTAGTTTGTGAAATTA
1 CCAAAATACCCCTAGTTTGTAAAATTA
* *
66513867 CCGAAATA-CCCTCAATTTGTAAAATTA
1 CCAAAATACCCCT-AGTTTGTAAAATTA
66513894 CCAAAATACCCCT
1 CCAAAATACCCCT
66513907 GATTTACAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
26 3 0.05
27 51 0.88
28 4 0.07
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
CCAAAATACCCCTAGTTTGTAAAATTA
Found at i:66513927 original size:54 final size:53
Alignment explanation
Indices: 66513828--66514009 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 53
66513818 ATACCCCTAG
** *
66513828 TTTGTAAAATTACCAAAATACCACT-AGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGA-TTT-ACAAATTACAGAAATACCCTCAA
* * *
66513882 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATACCCTTGAC
1 TTTGTAAAATTACCAAAATACCACTGATTTACAAA-TTACAGAAATACCC-TCAA
* *** * * * * *
66513937 TTTCTAAAAATTATGGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTAG
1 TTTGT-AAAATTACCAAAATACCACTGATTTAC-AAATTACAGAAATACCCTCAA
* *
66513992 TTTGTAGATTTACCAAAA
1 TTTGTAAAATTACCAAAA
66514010 CACCCTTGTA
Statistics
Matches: 101, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
53 3 0.03
54 48 0.48
55 13 0.13
56 34 0.34
57 3 0.03
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCACTGATTTACAAATTACAGAAATACCCTCAA
Found at i:66513994 original size:27 final size:27
Alignment explanation
Indices: 66513816--66513995 Score: 114
Period size: 27 Copynumber: 6.6 Consensus size: 27
66513806 TTGGTGCCCA
* * *
66513816 AAATACCCCTAGTTTGTAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACCG
**
66513843 AAATACCAC-TAGTTTGTGAAATTACCG
1 AAATACC-CTTAGTTTGCAAAATTACCG
* * * *
66513870 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTTAGTTTGCAAAATTACCG
* * * *
66513897 AAATACCCCT-GATTTACAAAGTTACAG
1 AAATACCCTTAG-TTTGCAAAATTACCG
* **
66513924 AAATACCCTTGACTTT-CTAAAAATTATGG
1 AAATACCCTT-AGTTTGC--AAAATTACCG
* * * *
66513953 AAATACCATTGGTTTACAAAATTACTG
1 AAATACCCTTAGTTTGCAAAATTACCG
66513980 AAATACCCTTAGTTTG
1 AAATACCCTTAGTTTG
66513996 TAGATTTACC
Statistics
Matches: 118, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
26 1 0.01
27 93 0.79
28 7 0.06
29 17 0.14
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATACCCTTAGTTTGCAAAATTACCG
Found at i:66514077 original size:27 final size:27
Alignment explanation
Indices: 66514047--66514135 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
66514037 TACCCCTATT
66514047 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
* *
66514074 AGGTAAAGAGACCGTAAAGCCCTTGTA
1 AGGTAAAAAGACCGTAAAGCCCCTGTA
* ** *
66514101 GGGTAAAGTGACCGTAATA-CCTCTGTA
1 AGGTAAAAAGACCGTAA-AGCCCCTGTA
*
66514128 TGGTAAAA
1 AGGTAAAA
66514136 TGAAGAATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAAAGACCGTAAAGCCCCTGTA
Found at i:66514979 original size:26 final size:26
Alignment explanation
Indices: 66514943--66515117 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
66514933 GAGGAAGTGC
*
66514943 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
66514969 AAAAGGGCTTATTCCCTAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
66514995 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
* *
66515021 AAAAGGGCTTATGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
66515047 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
66515073 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
66515098 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
66515118 ATTAAAGAGG
Statistics
Matches: 134, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 32 0.24
26 102 0.76
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:66515321 original size:42 final size:42
Alignment explanation
Indices: 66515262--66515353 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
66515252 TAGTCTCCCC
** *
66515262 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
66515304 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
66515346 AAATGGGC
1 AAATGGGC
66515354 CTAAGGGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:66515452 original size:31 final size:31
Alignment explanation
Indices: 66515377--66515584 Score: 113
Period size: 31 Copynumber: 6.4 Consensus size: 31
66515367 CGTTTACAGT
* * *
66515377 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
*
66515408 AAAGGCTTCGGCCTAGTGATATGGTTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
* * * **
66515439 AAAGGCTTTGGCCTAGT-A-ACCG-TTAAACA
1 AAAGGCTTCGGCCTAGTGATA-TGATTTATGA
* **
66515468 AAAGGCTTCGGCCCAGT-ATATGCCA-AGACT-A
1 AAAGGCTTCGGCCTAGTGATATG--ATTTA-TGA
* *
66515499 AATAGGGCTTTGGCCCAGATTGTACTGACATATGATTTATGA
1 AA-A-GGCTTCGG-CC------TAGTGA--TATGATTTATGA
66515541 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCTAGTGATATGATTTATGA
66515572 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
66515585 CAGTAACCGT
Statistics
Matches: 135, Mismatches: 22, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
29 22 0.16
30 3 0.02
31 72 0.53
32 1 0.01
33 12 0.09
34 2 0.01
39 2 0.01
40 9 0.07
41 4 0.03
42 4 0.03
43 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTGATATGATTTATGA
Found at i:66515562 original size:133 final size:133
Alignment explanation
Indices: 66515395--66515662 Score: 509
Period size: 133 Copynumber: 2.0 Consensus size: 133
66515385 CAGCCCAATG
* * *
66515395 ATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGGTTTATGAAAAGGCTTTGGCCTAGTAACC
1 ATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTAACC
66515460 GTTAAACAAAAGGCTTCGGCCCAGTATATGCCAAGACTAAATAGGGCTTTGGCCCAGATTGTACT
66 GTTAAACAAAAGGCTTCGGCCCAGTATATGCCAAGACTAAATAGGGCTTTGGCCCAGATTGTACT
66515525 GAC
131 GAC
66515528 ATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTAACC
1 ATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTAACC
66515593 GTTAAACAAAAGGCTTCGGCCCAGTATATGCCAAGACTAAATAGGGCTTTGGCCCAGATTGTACT
66 GTTAAACAAAAGGCTTCGGCCCAGTATATGCCAAGACTAAATAGGGCTTTGGCCCAGATTGTACT
66515658 GAC
131 GAC
66515661 AT
1 AT
66515663 TGTGTTTTCA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (133 bp):
ATATGATTTATGAAAAGGCTTCGGCCTAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTAACC
GTTAAACAAAAGGCTTCGGCCCAGTATATGCCAAGACTAAATAGGGCTTTGGCCCAGATTGTACT
GAC
Found at i:66517468 original size:27 final size:27
Alignment explanation
Indices: 66517438--66517594 Score: 181
Period size: 27 Copynumber: 5.8 Consensus size: 27
66517428 ATTACCAAAG
* *
66517438 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
66517465 TACCTTCGACTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
66517492 TACCCTCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
66517519 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
66517546 TACCCTTGATTTACAGAATT-CCTGTTT
1 TACCCTCGATTTACAGAATTACC-GTTT
* *
66517573 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
66517595 TAAAATACCC
Statistics
Matches: 110, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 108 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:66517603 original size:27 final size:27
Alignment explanation
Indices: 66517519--66517847 Score: 175
Period size: 27 Copynumber: 12.1 Consensus size: 27
66517509 AGTACCGTTT
* ***
66517519 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACTAAAA
* * * ****
66517546 TACCCTTGATTTACAGAATTCCTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
*
66517573 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
66517600 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
66517626 TACCCTTGGTTTGTAAAATTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
** * *
66517653 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
66517680 TACCCCT-AGTTTATAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * * *
66517707 TACCATTGGTTTGTGAAATTA-TCGAAA
1 TACCCTTGATTTATAAAATTACT-AAAA
** * *
66517734 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * *
66517761 TACCCCTAATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
*
66517788 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACTA-AAA
* * * *
66517817 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
66517844 TACC
1 TACC
66517848 TTTGGTTTGT
Statistics
Matches: 238, Mismatches: 52, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
26 24 0.10
27 188 0.79
28 8 0.03
29 18 0.08
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:66517604 original size:81 final size:81
Alignment explanation
Indices: 66517411--66517605 Score: 194
Period size: 81 Copynumber: 2.4 Consensus size: 81
66517401 ATTATTGAAA
* ** * * * *
66517411 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTACCTTCGACT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCTTCGACT
66517476 TACAGAATTACTGTTT
66 TACAGAATTACTGTTT
* * **** * * * *
66517492 TACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTT-GAT
1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTA-CCTTCGAC
*
66517556 TTACAGAATTCCTGTTT
65 TTACAGAATTACTGTTT
* *
66517573 TACCCTTGATTTACAAAATTACTAAAATACCCT
1 TACCCTCGATTTACAAAATTACCAAAATACCCT
66517606 AGTCTGTAAA
Statistics
Matches: 88, Mismatches: 25, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
81 84 0.95
82 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCTTCGACT
TACAGAATTACTGTTT
Found at i:66517605 original size:54 final size:53
Alignment explanation
Indices: 66517425--66517605 Score: 175
Period size: 54 Copynumber: 3.4 Consensus size: 53
66517415 CTCGACTTGT
* * * * *
66517425 AAAATTACCAAAGTACCCCCGATTTACATAATTACCGTTTTA-CCTTCGACTTAC
1 AAAATTACTAAATTACCCTCGATTTACAGAATT-CCGTTTTACCCTT-GATTTAC
* *** * *
66517479 AGAATTACTGTTTTACCCTCGATTTACAGAAGTACCGTTTTACCCTTGATTTAT
1 AAAATTACTAAATTACCCTCGATTTACAGAA-TTCCGTTTTACCCTTGATTTAC
* ** *
66517533 AGAATTACTATTTTACCCTTGATTTACAGAATTCCTGTTTTACCCTTGATTTAC
1 AAAATTACTAAATTACCCTCGATTTACAGAATTCC-GTTTTACCCTTGATTTAC
*
66517587 AAAATTACTAAAATACCCT
1 AAAATTACTAAATTACCCT
66517606 AGTCTGTAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
53 3 0.03
54 97 0.92
55 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.38
Consensus pattern (53 bp):
AAAATTACTAAATTACCCTCGATTTACAGAATTCCGTTTTACCCTTGATTTAC
Found at i:66517623 original size:26 final size:26
Alignment explanation
Indices: 66517587--66517765 Score: 180
Period size: 27 Copynumber: 6.7 Consensus size: 26
66517577 CTTGATTTAC
* *
66517587 AAAATTACTAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
66517613 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
*
66517640 AAAATTA-CAGAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCT-AGTTTGT
*
66517667 AAAATTACCAAAATACCCCTAGTTTAT
1 AAAATTACCAAAATA-CCCTAGTTTGT
* *
66517694 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
66517721 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
66517748 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
66517766 CTAATTTACA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
26 22 0.18
27 97 0.78
28 6 0.05
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:66517716 original size:81 final size:81
Alignment explanation
Indices: 66517587--66517820 Score: 294
Period size: 81 Copynumber: 2.9 Consensus size: 81
66517577 CTTGATTTAC
* * * * *
66517587 AAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACAGA
1 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGA
66517651 AATACCCTCAATTTGT
66 AATACCCTCAATTTGT
* *
66517667 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCATTGGTTTGTGAAATTATC-G
1 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTA-CAG
66517731 AAATACCCTCAATTTGT
65 AAATACCCTCAATTTGT
* * * * * *
66517748 AAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGAAATACCCTTGACTTTCTAAAAATTAT
1 AAAATTACCAAAATACCCCTAGTTTATAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTAC
66517812 AGAAATACC
63 AGAAATACC
66517821 ATTGGTTTAC
Statistics
Matches: 133, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
80 16 0.12
81 98 0.74
82 5 0.04
83 14 0.11
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCCTTGGTTTGTAAAATTACAGA
AATACCCTCAATTTGT
Found at i:66517852 original size:27 final size:27
Alignment explanation
Indices: 66517804--66517855 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
66517794 TGACTTTCTA
66517804 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
66517831 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
66517856 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:66517973 original size:27 final size:27
Alignment explanation
Indices: 66517896--66517973 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
66517886 AAATGACTAA
* *
66517896 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
66517923 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
66517950 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
66517974 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:66519228 original size:9 final size:9
Alignment explanation
Indices: 66519216--66519272 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
66519206 TTTGATAAAC
66519216 ATGATATGT
1 ATGATATGT
*
66519225 ATGATATGCAC
1 ATGATATG--T
*
66519236 ATGACATGT
1 ATGATATGT
*
66519245 ATGATATGCAC
1 ATGATATG--T
66519256 ATGATATGT
1 ATGATATGT
66519265 ATGATATG
1 ATGATATG
66519273 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:66519239 original size:20 final size:20
Alignment explanation
Indices: 66519214--66519284 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
66519204 ATTTTGATAA
66519214 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66519234 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
66519254 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
66519274 ACATGAGATGT
1 ACATGATATGT
66519285 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:66519261 original size:11 final size:11
Alignment explanation
Indices: 66519225--66519279 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
66519215 CATGATATGT
66519225 ATGATATGCAC
1 ATGATATGCAC
* *
66519236 ATGACATG--T
1 ATGATATGCAC
66519245 ATGATATGCAC
1 ATGATATGCAC
*
66519256 ATGATATG--T
1 ATGATATGCAC
66519265 ATGATATGCAC
1 ATGATATGCAC
66519276 ATGA
1 ATGA
66519280 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:66519459 original size:24 final size:24
Alignment explanation
Indices: 66519331--66519499 Score: 229
Period size: 25 Copynumber: 7.0 Consensus size: 24
66519321 AGGAAGTGCA
66519331 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66519354 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
66519377 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66519402 AAATGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
*
66519427 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
66519451 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
66519475 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
66519500 GATAAAGCAG
Statistics
Matches: 134, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
23 45 0.34
24 31 0.23
25 58 0.43
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:66519494 original size:49 final size:47
Alignment explanation
Indices: 66519330--66519499 Score: 227
Period size: 49 Copynumber: 3.5 Consensus size: 47
66519320 GAGGAAGTGC
66519330 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
* *
66519376 TAAAGGGCTTATGCCCCAGTTATGATAAATGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-ATAAAGGGCTTATGCCCCAGTTAT
* *
66519424 GATAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTACT
1 -A-AAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTA-T
*
66519474 AAAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAAG-GGCTTATGCC-CCAGTTATAT
66519500 GATAAAGCAG
Statistics
Matches: 109, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
46 22 0.20
48 31 0.28
49 33 0.30
50 23 0.21
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATATAAAGGGCTTATGCCCCAGTTAT
Found at i:66519726 original size:31 final size:31
Alignment explanation
Indices: 66519691--66519754 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
66519681 CATTTACAGT
66519691 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
66519722 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
66519753 AA
1 AA
66519755 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:66520824 original size:12 final size:13
Alignment explanation
Indices: 66520807--66520838 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
66520797 ATAGCACATT
66520807 TCAAAAC-ATGCA
1 TCAAAACTATGCA
66520819 TCAAAACTATGCA
1 TCAAAACTATGCA
66520832 -CAAAACT
1 TCAAAACT
66520839 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:66525664 original size:27 final size:27
Alignment explanation
Indices: 66525633--66525810 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
66525623 TAAATTGTAC
66525633 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
66525660 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66525686 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
66525714 GGCACTAAGTATGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
66525742 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
66525769 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
66525796 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
66525811 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:66525747 original size:82 final size:81
Alignment explanation
Indices: 66525634--66525789 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
66525624 AAATTGTACA
* * *
66525634 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTATGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
66525698 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
66525715 GCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTATGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
66525780 TGCGAGTTGA
65 TGCGAATTGA
66525790 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTATGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:66525801 original size:82 final size:81
Alignment explanation
Indices: 66525630--66525810 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
66525620 GATTAAATTG
* *
66525630 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
66525695 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
66525711 TGCGGCACTAAGTATGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
66525775 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
66525793 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
66525811 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:66533140 original size:32 final size:32
Alignment explanation
Indices: 66533099--66533161 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
66533089 AATCAAGAAT
* * *
66533099 AAGTATCCACTTTTGTGAATTGATGATCTGTC
1 AAGTATCCACTGTCGTGAATTGACGATCTGTC
66533131 AAGTATCCACTGTCGTGAATTGACGATCTGT
1 AAGTATCCACTGTCGTGAATTGACGATCTGT
66533162 TTGATCAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (32 bp):
AAGTATCCACTGTCGTGAATTGACGATCTGTC
Found at i:66533650 original size:17 final size:16
Alignment explanation
Indices: 66533630--66533665 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
66533620 AGTTAGAAGT
*
66533630 TTTCTGGGATTAGCTAG
1 TTTCTAGGATTAGCT-G
66533647 TTTCTAGGATTAGCTG
1 TTTCTAGGATTAGCTG
66533663 TTT
1 TTT
66533666 ATTATAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.17, C:0.11, G:0.25, T:0.47
Consensus pattern (16 bp):
TTTCTAGGATTAGCTG
Found at i:66535557 original size:48 final size:48
Alignment explanation
Indices: 66535485--66535653 Score: 180
Period size: 48 Copynumber: 3.5 Consensus size: 48
66535475 TGTGTGTGCT
* *
66535485 AGTGTAAGATCATGTTTGGGACATGGCATCGACCATATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCATATTATGAGAGCC
* * * * * *
66535533 AGTGTAAGACCATATTTGGAACATGGCATC-AGCGT-TGATATGTGTGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCATAT--TATGAGAGCC
* * * * * *
66535581 AGTGTAAGACCATGTCTAGCACATGGCGTCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCATATTATGAGAGCC
66535629 AGTGTAAGACCATGTTTGGAACATG
1 AGTGTAAGACCATGTTTGGAACATG
66535654 AAATCGACAT
Statistics
Matches: 94, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
46 1 0.01
47 3 0.03
48 88 0.94
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACCATATTATGAGAGCC
Found at i:66535641 original size:96 final size:96
Alignment explanation
Indices: 66535472--66535707 Score: 303
Period size: 96 Copynumber: 2.5 Consensus size: 96
66535462 GACATTTGGG
* * * * *
66535472 TGATGTGTGTGCTAGTGTAAGATCATGTTTGGGACATGGCATCGACCATATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAGTG
** *
66535537 TAAGACCATATTTGGAACATGGCATC-AGCGT
66 TAAGACCATATTTGGAACATGAAATCGA-CAT
* * *
66535568 TGATATGTGTGCTAGTGTAAGACCATGTCTAGCACATGGCGTCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAGTG
*
66535633 TAAGACCATGTTTGGAACATGAAATCGACAT
66 TAAGACCATATTTGGAACATGAAATCGACAT
* ** * *
66535664 TGACATAAGAGCTAGTGTAAGACCATGTCTAGGACATGCCATCG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCG
66535708 GCAATTTACC
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
96 119 0.99
97 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATTATGAGAGCCAGTG
TAAGACCATATTTGGAACATGAAATCGACAT
Found at i:66542153 original size:50 final size:49
Alignment explanation
Indices: 66542089--66542264 Score: 178
Period size: 50 Copynumber: 3.5 Consensus size: 49
66542079 GAATACGCGA
*
66542089 GTGTAGTACAAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCGAAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCATA-TGTTAAGTCGAAT
* * * * *
66542139 GTGTAGTACTAAGTGTAGGCTACTATGCGTACTCA-ATGACTT-CGATC-ACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CATATG--TTAAG-TCGA-AT
* * *
66542190 GTGTAGTACTAAGTGTAGGCTACTACGTGTACCATACTGTTAAGTTGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCATA-TGTTAAGTCGAAT
*
66542240 GTGTAGTTCTAAGTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
66542265 TGCGTATCAG
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
49 2 0.02
50 60 0.58
51 39 0.38
52 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCATATGTTAAGTCGAAT
Found at i:66542283 original size:101 final size:101
Alignment explanation
Indices: 66542089--66542270 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
66542079 GAATACGCGA
*
66542089 GTGTAGTACAAAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCGAATGTGTAGTACTAAGTG
1 GTGTAGTACAAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGAATGTGTAGTACTAAGTG
*
66542154 TAGGCTACTATGCGTACTCAATGACTTCGATCACGT
66 CAGGCTACTATGCGTACTCAATGACTTCGATCACGT
* * * * *
66542190 GTGTAGTACTAAGTGTAGGCTACTACGTGTACCATACTGTTAAGTTGCATGTGTAGTTCTAAGTG
1 GTGTAGTACAAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGAATGTGTAGTACTAAGTG
66542255 CAGGCTACTATGCGTA
66 CAGGCTACTATGCGTA
66542271 TCAGATAGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (101 bp):
GTGTAGTACAAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGAATGTGTAGTACTAAGTG
CAGGCTACTATGCGTACTCAATGACTTCGATCACGT
Found at i:66547281 original size:48 final size:47
Alignment explanation
Indices: 66547170--66547397 Score: 154
Period size: 48 Copynumber: 4.8 Consensus size: 47
66547160 TGATGTGTGT
* * * ***
66547170 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCTTGA-TATGAGA
** * * *
66547218 GAC-AGAATAAAACCATGTTTGGAACATGGCATCGGCGTTGATATGTGT
1 G-CTAGTGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGAGA
* * * ***
66547266 GCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCTTGA-TATGAGA
* * * * * * *
66547314 ACCAATGTAAGACCATATATGGAACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC-TTGATATGAGA
* *
66547362 GCTAGTGTAAGACTATGTCTTGG-ATATGGCATCGGC
1 GCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGC
66547398 AATTTACCCT
Statistics
Matches: 133, Mismatches: 41, Indels: 12
0.72 0.22 0.06
Matches are distributed among these distances:
47 2 0.02
48 125 0.94
49 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCTTGATATGAGA
Found at i:66547290 original size:96 final size:96
Alignment explanation
Indices: 66547160--66547394 Score: 303
Period size: 96 Copynumber: 2.4 Consensus size: 96
66547150 GACATTTGGA
*
66547160 TGATGTGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGA-CAGA
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA-ACCA-A
* * *
66547224 -ATAAAACCATGTTTGGAACATGGCATCGGCGT
64 TATAAAACCATATATGGAACATGGCATCGGCAT
* * *
66547256 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCACATTATGAGAACCAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAACCAATA
*
66547321 TAAGACCATATATGGAACATGGCATCGGCAT
66 TAAAACCATATATGGAACATGGCATCGGCAT
* * * * * * *
66547352 TGAGACGAGAGCTAGTGTAAGACTATGTCTTGGATATGGCATC
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC
66547395 GGCAATTTAC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 2 0.02
96 119 0.98
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (96 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAACCAATA
TAAAACCATATATGGAACATGGCATCGGCAT
Found at i:66556466 original size:39 final size:39
Alignment explanation
Indices: 66556412--66556491 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
66556402 TTTCATCATT
66556412 TTAACCAAATTATGCAAGAAGAGAAGACAAAGTTTTAGG
1 TTAACCAAATTATGCAAGAAGAGAAGACAAAGTTTTAGG
*
66556451 TTAACCAAATTATGCAAGAAGAGAAGCCAAAGTTTTAGG
1 TTAACCAAATTATGCAAGAAGAGAAGACAAAGTTTTAGG
66556490 TT
1 TT
66556492 TTCATTTGGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (39 bp):
TTAACCAAATTATGCAAGAAGAGAAGACAAAGTTTTAGG
Found at i:66557250 original size:40 final size:38
Alignment explanation
Indices: 66557191--66557282 Score: 139
Period size: 40 Copynumber: 2.4 Consensus size: 38
66557181 ATCAGGTATT
*
66557191 TATGGCACTTAGTGTGCAATTTGACATAGCTTCGGCTATA
1 TATGGCACTTAGTGAGCAATTTGACATAGCTTCGG-T-TA
* *
66557231 TATGGCACTTATTGAGCAATTTGAGATAGCTTCGGTTA
1 TATGGCACTTAGTGAGCAATTTGACATAGCTTCGGTTA
66557269 TATGGCACTTAGTG
1 TATGGCACTTAGTG
66557283 TGTCAGATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 15 0.31
39 1 0.02
40 32 0.67
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (38 bp):
TATGGCACTTAGTGAGCAATTTGACATAGCTTCGGTTA
Found at i:66557311 original size:28 final size:28
Alignment explanation
Indices: 66557269--66557341 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
66557259 GCTTCGGTTA
*
66557269 TATGGCACTTAGTGTGTCAGATATCGAG
1 TATGGCACTTAGTGTGTCAGATATCGAC
* **
66557297 TGTGGCACTTAGTGTGAGAGATATCGAC
1 TATGGCACTTAGTGTGTCAGATATCGAC
*
66557325 TATGACACTTAGTGTGT
1 TATGGCACTTAGTGTGT
66557342 GAGGCATTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.33
Consensus pattern (28 bp):
TATGGCACTTAGTGTGTCAGATATCGAC
Found at i:66566000 original size:41 final size:41
Alignment explanation
Indices: 66565938--66566028 Score: 128
Period size: 41 Copynumber: 2.2 Consensus size: 41
66565928 TGCGGATACT
* *
66565938 CCACAGCTCGTGTGAGCAGCATCGTGTAGCTACGTTCTGAC
1 CCACAGCTCATGTGAGCAGCATCGTATAGCTACGTTCTGAC
* * * *
66565979 CCACAGCTCATTTGAGTAGCATCGTATAGCTATGTTTTGAC
1 CCACAGCTCATGTGAGCAGCATCGTATAGCTACGTTCTGAC
66566020 CCACAGCTC
1 CCACAGCTC
66566029 GTGTAAGCGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
CCACAGCTCATGTGAGCAGCATCGTATAGCTACGTTCTGAC
Found at i:66566052 original size:25 final size:25
Alignment explanation
Indices: 66566024--66566115 Score: 87
Period size: 25 Copynumber: 3.7 Consensus size: 25
66566014 TTTGACCCAC
*
66566024 AGCTCGTGTAAGCGTACCGATTTAT
1 AGCTCGTGTAAGCATACCGATTTAT
* * *
66566049 AGCTCGTG-AGAGCATACTGATCTAC
1 AGCTCGTGTA-AGCATACCGATTTAT
** *
66566074 AGCTCAAGTAAGCATACCGATTCAT
1 AGCTCGTGTAAGCATACCGATTTAT
* *
66566099 AGCTCGTATGAGCATAC
1 AGCTCGTGTAAGCATAC
66566116 ATGTACATAA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGTAAGCATACCGATTTAT
Found at i:66571001 original size:56 final size:56
Alignment explanation
Indices: 66570870--66571003 Score: 187
Period size: 56 Copynumber: 2.4 Consensus size: 56
66570860 TCCCAAACAG
* * **
66570870 GGTCTTACTCGCACATATAAATCAGAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCCAACATATTAAACGT
** * * *
66570926 GGTCTTACTCATACACATATATCGGAATCACATATCAATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCCAACATATTAAACGT
66570982 GGTCTTACTCGCACACATATAT
1 GGTCTTACTCGCACACATATAT
66571004 TGATGCCATG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 67 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCAGAATCACATATCAATGCCAACATATTAAACGT
Found at i:66574029 original size:15 final size:15
Alignment explanation
Indices: 66574009--66574039 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66573999 AAATATGAAA
66574009 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
66574024 GATATGTTTTGTATT
1 GATATGTTTTGGATT
66574039 G
1 G
66574040 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:66576167 original size:27 final size:27
Alignment explanation
Indices: 66576128--66576181 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
66576118 ATCATAGCAC
*
66576128 AAATCAGTCTTTTACCCTCGAGGGGTA
1 AAATCAGTCTTTTACCCTAGAGGGGTA
*
66576155 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTC-TTTTACCCTAGAGGGGTA
66576182 TTTTATTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (27 bp):
AAATCAGTCTTTTACCCTAGAGGGGTA
Found at i:66589948 original size:21 final size:20
Alignment explanation
Indices: 66589915--66589963 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
66589905 GAAAACCTTA
66589915 AGAT-GAAATAGTAATGACT
1 AGATAGAAATAGTAATGACT
66589934 AGATAGAATATAGTAATGACT
1 AGATAGAA-ATAGTAATGACT
66589955 AGATAGAAA
1 AGATAGAAA
66589964 CATGATATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 20 0.71
ACGTcount: A:0.51, C:0.04, G:0.20, T:0.24
Consensus pattern (20 bp):
AGATAGAAATAGTAATGACT
Found at i:66596188 original size:14 final size:14
Alignment explanation
Indices: 66596171--66596199 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
66596161 ACTCTCCAAA
66596171 ATGTTTCCTCCCAC
1 ATGTTTCCTCCCAC
66596185 ATGTTTCCTCCCAC
1 ATGTTTCCTCCCAC
66596199 A
1 A
66596200 CTATTTACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.41, G:0.07, T:0.34
Consensus pattern (14 bp):
ATGTTTCCTCCCAC
Found at i:66599454 original size:19 final size:20
Alignment explanation
Indices: 66599430--66599469 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
66599420 CTAGTAGCCT
*
66599430 ACATTTATCAAC-TTTTCAC
1 ACATTTAACAACATTTTCAC
*
66599449 ACATTTAACCACATTTTCAC
1 ACATTTAACAACATTTTCAC
66599469 A
1 A
66599470 TTTTCACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (20 bp):
ACATTTAACAACATTTTCAC
Found at i:66599527 original size:9 final size:10
Alignment explanation
Indices: 66599500--66599529 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
66599490 TTTTGCATTT
66599500 TCACTAAAAA
1 TCACTAAAAA
66599510 TCACTAAAAA
1 TCACTAAAAA
66599520 TCAC-AAAAA
1 TCACTAAAAA
66599529 T
1 T
66599530 TATTTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (10 bp):
TCACTAAAAA
Found at i:66602738 original size:46 final size:47
Alignment explanation
Indices: 66602590--66602851 Score: 265
Period size: 46 Copynumber: 5.6 Consensus size: 47
66602580 GTATAATGCT
* * *
66602590 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATCT-CGAGGCC
* *
66602640 GATGCATGTCCCAGACATGTCTTACACTA--AC-ACATCTCGTA-GTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCG-AGGCC
** *
66602684 GATGCATGTCCTTGACATGTCTTACACTGGCT-TACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCC
* * *
66602730 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCC
* *
66602776 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGAGGCC
66602824 GATGCATGT-CCAGACATGTCTTACACTA
1 GATGCATGTCCCAGACATGTCTTACACTA
66602852 CCACACACGC
Statistics
Matches: 182, Mismatches: 20, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.01
44 33 0.18
45 12 0.07
46 61 0.34
47 20 0.11
48 35 0.19
49 15 0.08
50 4 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGAGGCC
Found at i:66608804 original size:16 final size:15
Alignment explanation
Indices: 66608778--66608812 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
66608768 TGATGTGAAT
66608778 AATATAAAATATTAA
1 AATATAAAATATTAA
*
66608793 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
66608809 AATA
1 AATA
66608813 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:66608984 original size:20 final size:20
Alignment explanation
Indices: 66608927--66608986 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
66608917 AATACTACAT
66608927 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
66608946 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
66608969 AAATATGTACATAATATA
1 AAATATGTACATAATATA
66608987 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:66609025 original size:22 final size:23
Alignment explanation
Indices: 66608964--66609034 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 23
66608954 ACGTGATAAT
*
66608964 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
66608987 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
66609012 ATT-AAAATATATACATAAGATA
1 ATTAAAAATATATACATAATATA
66609034 A
1 A
66609035 CATGTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 18 0.45
23 1 0.03
24 2 0.05
25 19 0.47
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:66609027 original size:47 final size:50
Alignment explanation
Indices: 66608942--66609047 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 50
66608932 TGTACATATA
* * * * *
66608942 TAAAAAATAAATACGTGATAATATTAAAAATATGTACATAATAT-A-GTG
1 TAAAAAATAAATACATAATAATATTAAAAATATATACATAAGATAACATG
*
66608990 TAAAAAATACATACATAAT-ATAATT-AAAATATATACATAAGATAACATG
1 TAAAAAATAAATACATAATAAT-ATTAAAAATATATACATAAGATAACATG
66609039 TAAAAAATA
1 TAAAAAATA
66609048 TATATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
47 18 0.37
48 20 0.41
49 11 0.22
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (50 bp):
TAAAAAATAAATACATAATAATATTAAAAATATATACATAAGATAACATG
Found at i:66609078 original size:14 final size:15
Alignment explanation
Indices: 66609043--66609088 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
66609033 AACATGTAAA
66609043 AAAT-ATATATATAT
1 AAATGATATATATAT
66609057 AAATGATATAGTAT-T
1 AAATGATATA-TATAT
*
66609072 AAA-GATATATACAT
1 AAATGATATATATAT
66609086 AAA
1 AAA
66609089 ATAGTATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
15 9 0.32
16 3 0.11
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (15 bp):
AAATGATATATATAT
Found at i:66609092 original size:25 final size:25
Alignment explanation
Indices: 66609064--66609182 Score: 65
Period size: 25 Copynumber: 5.0 Consensus size: 25
66609054 TATAAATGAT
66609064 ATAGTATTAAAGATATATACATAAA
1 ATAGTATTAAAGATATATACATAAA
* * *
66609089 ATAGTA-TAATATATATATACGTAAT
1 ATAGTATTAA-AGATATATACATAAA
* * *
66609114 ATAGAATT-TAGA-ATATACCT--A
1 ATAGTATTAAAGATATATACATAAA
* *
66609135 ATA-TATTAAAAGAATATATATATAAT
1 ATAGTATT-AAAG-ATATATACATAAA
* *
66609161 ATAATATT-AAGAAATATA-ATAA
1 ATAGTATTAAAGATATATACATAA
66609183 TAACAAAAAA
Statistics
Matches: 71, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
20 3 0.04
21 3 0.04
22 2 0.03
23 12 0.17
24 17 0.24
25 26 0.37
26 4 0.06
27 4 0.06
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (25 bp):
ATAGTATTAAAGATATATACATAAA
Found at i:66609160 original size:24 final size:23
Alignment explanation
Indices: 66609133--66609184 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
66609123 AGAATATACC
*
66609133 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
66609157 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
66609180 TAATA
1 TAATA
66609185 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:66609707 original size:30 final size:30
Alignment explanation
Indices: 66609673--66609758 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
66609663 GGGGTGGTGG
* *
66609673 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
66609703 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
66609733 AGTGTGGCTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTGGTGG
66609759 CAAAGGTTAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.06, G:0.50, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:66609716 original size:18 final size:18
Alignment explanation
Indices: 66609693--66609748 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
66609683 GTGGAGTAGG
66609693 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
66609711 TAGT-G-G--AGT-TGG-
1 TAGTGGAGCAAGTGTGGC
*
66609723 TGGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
66609741 TAGTGGAG
1 TAGTGGAG
66609749 TTGGTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 3 0.10
13 4 0.13
14 4 0.13
16 4 0.13
17 4 0.13
18 11 0.37
ACGTcount: A:0.20, C:0.07, G:0.48, T:0.25
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:66610489 original size:87 final size:87
Alignment explanation
Indices: 66610398--66610841 Score: 207
Period size: 87 Copynumber: 4.9 Consensus size: 87
66610388 AAACAGACAT
* * * *
66610398 TAAAATAGAAATTGAAAATAGCTCGGCACGTGAGCCAAAG-CTCAACTCACTTCTCGCAATATGA
1 TAAAACAGAAATTGAAAATACCTCGGCACGTGA-CCAAAGACTCAACTCACCTCTCACAATATGA
66610462 GTTGATTTTTAAAACAAAATTTG
65 GTTGATTTTTAAAACAAAATTTG
** * * * ** *
66610485 TAAAACAGATTTTTAAAATACCTCGGTATGTGACCCGAGACTCAACTCACCTCTCATAATATGAG
1 TAAAACAGAAATTGAAAATACCTCGGCACGTGACCAAAGACTCAACTCACCTCTCACAATATGAG
* *
66610550 TTGATTTTGCAAAGCATAAA-TTG
66 TTGATTTT-TAAAACA-AAATTTG
* * ** ** *
66610573 AAAAAAAGAAGAAAAAACATCAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTC
1 --TAAAA-CAG-------A--AATTGAAAATACCTCGGCACGTGACCAAAGACTCAACTCACCTC
*
66610638 TCGCAATATGAGTTGATTTTTTTGACAAACATAAA-TTG
54 TCACAATATGAGTTGA--TTTTT-A-AAACA-AAATTTG
* * * * * ** * * *
66610676 AAAAAAAATAAATTGAAAATACCTCAG--CGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGA
1 -TAAAACAGAAATTGAAAATACCTCGGCACGTGACCAAAGACTCAACTCACCTCTCACAATATGA
66610739 GTTGATTTTTTTTGGAAAAACAAAATTTG
65 GTTGA---TTTTT---AAAACAAAATTTG
* * * ** * * * *
66610768 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGA
1 TAAAACAGAAATTGAAAATACCTCGGCACGTGA-CCAAAGACTCAACTCACCTCTCACAATATGA
* *
66610832 GCTAATTTTT
65 GTTGATTTTT
66610842 TTGAAACACA
Statistics
Matches: 287, Mismatches: 44, Indels: 49
0.76 0.12 0.13
Matches are distributed among these distances:
86 4 0.01
87 56 0.20
88 8 0.03
89 3 0.01
90 47 0.16
91 35 0.12
92 24 0.08
93 32 0.11
94 2 0.01
98 1 0.00
100 51 0.18
101 2 0.01
102 11 0.04
103 11 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (87 bp):
TAAAACAGAAATTGAAAATACCTCGGCACGTGACCAAAGACTCAACTCACCTCTCACAATATGAG
TTGATTTTTAAAACAAAATTTG
Found at i:66610760 original size:92 final size:91
Alignment explanation
Indices: 66610583--66610949 Score: 424
Period size: 91 Copynumber: 4.1 Consensus size: 91
66610573 AAAAAAAGAA
* * *
66610583 GAAAAAACATCAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
1 GAAAAAAAATAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATG
* *
66610648 AGTTGATTTTTTTGACAAACATAAATT
65 AGTTGATTTTTTTGAAAAACAGAAATT
*
66610675 GAAAAAAAATAAATTGAAAATACCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGA
1 GAAAAAAAATAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
66610739 GTTGATTTTTTTTGGAAAAACA-AAATTT
66 GTTGA-TTTTTTT-GAAAAACAGAAA-TT
* * * ** * *
66610767 G-AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATG
1 GAAAAAAAATAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATG
* * *
66610831 AGCTAATTTTTTTGAAACACAGAAATT
65 AGTTGATTTTTTTGAAAAACAGAAATT
* * * * * * *
66610858 GAAGAACAA-AAATGGAAAACACCTCAACGTAT---TGAGGTTCAACTCACCTCTCGCAATATGA
1 GAAAAAAAATAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
66610919 GTTGATTTTTTTGAAAGACAGAAATT
66 GTTGATTTTTTTGAAAAACAGAAATT
66610945 GAAAA
1 GAAAA
66610950 TACCTCAACG
Statistics
Matches: 237, Mismatches: 31, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
87 52 0.22
88 1 0.00
90 35 0.15
91 66 0.28
92 55 0.23
93 28 0.12
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (91 bp):
GAAAAAAAATAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAACAGAAATT
Found at i:66610785 original size:13 final size:14
Alignment explanation
Indices: 66610753--66610785 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
66610743 ATTTTTTTTG
66610753 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
66610767 GAAAAACAGAATTT
1 GAAAAACAAAATTT
66610781 GAAAA
1 GAAAA
66610786 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:66610811 original size:183 final size:180
Alignment explanation
Indices: 66610596--66610930 Score: 476
Period size: 183 Copynumber: 1.8 Consensus size: 180
66610586 AAAACATCAA
* * * * *
66610596 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGACCTAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTT
* * * * * *
66610661 GACAA-ACATAAATTGAAAAAAAATAAATTGAAAATACCTCAGCGTGTCCTGAGGCTGAACTCAC
66 GA-AACACAGAAATTGAAAAAAAA-AAATGGAAAACACCTCAACGTAT--TGAGGCTCAACTCAC
66610725 CTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
127 CTCTCGCAATATGAGTTGATTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
*
66610779 TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTT
1 TTGAAAATACCTCAGCGTGTGACCT-AAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTT
* * *
66610843 TGAAACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAACGTATTGAGGTTCAACTCACCTC
65 TGAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAACGTATTGAGGCTCAACTCACCTC
66610908 TCGCAATATGAGTTGATTTTTTT
130 TCGCAATATGAGTTGATTTTTTT
66610931 GAAAGACAGA
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
180 39 0.29
182 22 0.16
183 74 0.55
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (180 bp):
TTGAAAATACCTCAGCGTGTGACCTAAGGCTCAACTCACCACTCGCAATATGAGCTAATTTTTTT
GAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAACGTATTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTTTTGGAAAAACAAAATTTGAAAAACAGAAT
Found at i:66610993 original size:75 final size:75
Alignment explanation
Indices: 66610867--66611365 Score: 664
Period size: 75 Copynumber: 6.8 Consensus size: 75
66610857 TGAAGAACAA
* * * *
66610867 AAATGGAAAACACCTCAAC--GTATTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
66610930 TGAAAGACAG
66 TGAAAGACAG
* * * *
66610940 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
66611005 TGAAAGACAG
66 TGAAAGACAG
* * * *
66611015 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA--ATTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
66611078 TG-AA-ACAG
66 TGAAAGACAG
* * * * * *
66611086 AAA-TAAAAATTATCTCAGCGT-T-TTGAAGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
66611148 TTGAAAGATAG
65 TTGAAAGACAG
66611159 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
66611222 TGACAA-ACAA
66 TGA-AAGACAG
* * * *
66611232 AAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
66611297 TGAAAGACAG
66 TGAAAGACAG
66611307 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAGTGA-TTGA
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA-TGAGTTGA
66611366 AAGGCTCAAC
Statistics
Matches: 374, Mismatches: 37, Indels: 28
0.85 0.08 0.06
Matches are distributed among these distances:
69 29 0.08
70 6 0.02
71 21 0.06
72 4 0.01
73 101 0.27
74 10 0.03
75 200 0.53
76 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (75 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAGACAG
Found at i:66611319 original size:148 final size:147
Alignment explanation
Indices: 66610867--66611365 Score: 713
Period size: 148 Copynumber: 3.4 Consensus size: 147
66610857 TGAAGAACAA
* * * *
66610867 AAATGGAAAACACCTCAAC--GTATTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * * * * *
66610930 TGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAG
64 TGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAG
* *
66610995 TTGAATTTTTTGAAAGACAG
128 CTGATTTTTTTGAAAGACAG
* * * *
66611015 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
** * *
66611080 -AAACAGAAATAAAAATTATCTCAGCGT-T-TTGAAGTTCAACTCACCTCTCGCAATATGAGCTG
66 AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTG
*
66611142 ATTTTTTTGAAAGATAG
131 ATTTTTTTGAAAGACAG
66611159 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
66611224 ACAAACAAAAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
66 A-AAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCT
66611289 GATTTTTTTGAAAGACAG
130 GATTTTTTTGAAAGACAG
66611307 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAGTGA-TTGA
1 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATA-TGAGTTGA
66611366 AAGGCTCAAC
Statistics
Matches: 313, Mismatches: 31, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
144 104 0.33
145 1 0.00
146 43 0.14
147 3 0.01
148 126 0.40
149 3 0.01
150 33 0.11
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (147 bp):
AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTG
ATTTTTTTGAAAGACAG
Found at i:66611376 original size:33 final size:32
Alignment explanation
Indices: 66611334--66611397 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
66611324 ACGTGTCTTG
66611334 AGGCTCAACTCACCTCTCGCAATAGTGA-TTGAA
1 AGGCTCAACTCACCT-TCGCAATA-TGAGTTGAA
66611367 AGGCTCAACTCACCTTCGCAATATGAGTTGA
1 AGGCTCAACTCACCTTCGCAATATGAGTTGA
66611398 TTTTTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 3 0.10
32 12 0.40
33 15 0.50
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (32 bp):
AGGCTCAACTCACCTTCGCAATATGAGTTGAA
Found at i:66611448 original size:105 final size:106
Alignment explanation
Indices: 66611263--66611468 Score: 339
Period size: 105 Copynumber: 2.0 Consensus size: 106
66611253 GTCTTGAGGT
*
66611263 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
66611328 GTCTTGAGGCTCAACTCACCTCTCGCAATAGTGA-TTGAAAGGC
66 GTCTTGAGGCTCAACTCACCT-T-GCAATA-TGAGTTGAAAGGC
*
66611371 TCAACTCACCT-TCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTG-AAATACCTCAACGT
1 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
66611433 GTCTTGAGGCTCAACTCACCTTGCAATATGAGTTGA
66 GTCTTGAGGCTCAACTCACCTTGCAATATGAGTTGA
66611469 GTTTTGACAA
Statistics
Matches: 95, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
102 3 0.03
103 10 0.11
104 1 0.01
105 35 0.37
106 20 0.21
107 15 0.16
108 11 0.12
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (106 bp):
TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGT
GTCTTGAGGCTCAACTCACCTTGCAATATGAGTTGAAAGGC
Found at i:66611499 original size:71 final size:70
Alignment explanation
Indices: 66611367--66611560 Score: 246
Period size: 71 Copynumber: 2.7 Consensus size: 70
66611357 AGTGATTGAA
*
66611367 AGGCTCAACTCACCTTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAATACCTCAACG
1 AGGCTCAACTCACCTT-GCAATATGAGTTGA-TTTTTGAAAAACAAAAATTGAAATACCTCAACG
*
66611432 TGTCTTG
64 TGTCCTG
* * *
66611439 AGGCTCAACTCACCTTGCAATATGAGTTGAGTTTTGACAAACAAAAATTGAAATTACCTCAGCGT
1 AGGCTCAACTCACCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAA-TACCTCAACGT
66611504 GTCCTG
65 GTCCTG
* * * *
66611510 AGAG-TCAACTCACTTCTCGCAATATGAGTTGATTTTTTAGAAACATAAATT
1 AG-GCTCAACTCAC--CTTGCAATATGAGTTGATTTTTGAAAAACAAAAATT
66611561 AAAAAACGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
70 20 0.19
71 40 0.37
72 17 0.16
73 31 0.29
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (70 bp):
AGGCTCAACTCACCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATACCTCAACGTG
TCCTG
Found at i:66611769 original size:14 final size:13
Alignment explanation
Indices: 66611734--66611778 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
66611724 TTGATTTTTG
66611734 AAAAACAGAAATT
1 AAAAACAGAAATT
*
66611747 AAAAGCAGAAATT
1 AAAAACAGAAATT
66611760 GAAAAACAGAAATT
1 -AAAAACAGAAATT
66611774 AAAAA
1 AAAAA
66611779 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:66611795 original size:100 final size:101
Alignment explanation
Indices: 66611556--66611850 Score: 445
Period size: 100 Copynumber: 3.0 Consensus size: 101
66611546 TTAGAAACAT
* *
66611556 AAATTAAAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTGAAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAAT
* * *
66611620 ATGAGTTGA--TTTGAAAAGCAGAATTTGTAAGGCAA
65 ATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
66611655 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
66611720 TGAGTTGATTTTTGAAAAACAGAAATT-AAAAGCAG
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
* * *
66611755 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* *
66611820 TGAGTTAATTTTTGAAAAGCATAAATTGAAA
66 TGAGTTGATTTTTGAAAAGCAGAAATTGAAA
66611851 TTACCTCAGC
Statistics
Matches: 179, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
99 69 0.39
100 92 0.51
101 18 0.10
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (101 bp):
AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAGAAATTGAAAAGCAA
Found at i:66611856 original size:73 final size:74
Alignment explanation
Indices: 66611758--66611923 Score: 253
Period size: 73 Copynumber: 2.3 Consensus size: 74
66611748 AAAGCAGAAA
* * * * *
66611758 TTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCTGAGGCTCAGCTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
66611823 GTT-AATTT
66 GTTGAATTT
* *
66611831 TTGAAAAGCATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
66611896 GTTGATTTT
66 GTTGAATTT
66611905 TTGAAAAGCATAAATTGAA
1 TTGAAAAGCATAAATTGAA
66611924 GAAACGGAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
73 61 0.73
74 23 0.27
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGAAAAGCATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGAATTT
Found at i:66618945 original size:20 final size:21
Alignment explanation
Indices: 66618906--66618963 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
66618896 TAAAAAATGG
*
66618906 AATAGTATGTATATTATATATAT
1 AATA-TAT-TATAGTATATATAT
*
66618929 AATATATTAT-GTATATATTT
1 AATATATTATAGTATATATAT
66618949 AATATATTATAGTAT
1 AATATATTATAGTAT
66618964 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 7 0.22
22 3 0.09
23 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
AATATATTATAGTATATATAT
Found at i:66618988 original size:19 final size:19
Alignment explanation
Indices: 66618932--66618997 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
66618922 TATATATAAT
*
66618932 ATATTATGT-ATATATTTAA
1 ATATTATGTAATAT-TTTTA
*
66618951 TATATTATAGTATTATTTTTA
1 -ATATTAT-GTAATATTTTTA
66618972 ATATTATGTAATATTTTTA
1 ATATTATGTAATATTTTTA
66618991 ATATTAT
1 ATATTAT
66618998 TATTTTTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
19 18 0.44
20 14 0.34
21 6 0.15
22 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATATTATGTAATATTTTTA
Found at i:66618998 original size:22 final size:21
Alignment explanation
Indices: 66618928--66619000 Score: 89
Period size: 20 Copynumber: 3.5 Consensus size: 21
66618918 ATTATATATA
*
66618928 TAATATATTATGT-ATATATT
1 TAATATATTATGTAATATTTT
*
66618948 TAATATATTATAGTATTATTTT
1 TAATATATTAT-GTAATATTTT
66618970 T-A-ATATTATGTAATATTTT
1 TAATATATTATGTAATATTTT
66618989 TAATATTATTAT
1 TAATA-TATTAT
66619001 TTTTTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
19 10 0.22
20 19 0.42
21 4 0.09
22 12 0.27
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TAATATATTATGTAATATTTT
Found at i:66619004 original size:1 final size:1
Alignment explanation
Indices: 66619000--66619057 Score: 107
Period size: 1 Copynumber: 58.0 Consensus size: 1
66618990 AATATTATTA
*
66619000 TTTTTTTTTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
66619058 AAATCATTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.02, C:0.00, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:66619007 original size:19 final size:19
Alignment explanation
Indices: 66618966--66619023 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
66618956 TATAGTATTA
* *
66618966 TTTTTAATATTATGTA-ATA
1 TTTTTAATATTAT-TATTTT
66618985 TTTTTAATATTATTATTTT
1 TTTTTAATATTATTATTTT
66619004 TTTTT--T-TTATT-TTTT
1 TTTTTAATATTATTATTTT
66619019 TTTTT
1 TTTTT
66619024 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
15 9 0.25
16 5 0.14
17 1 0.03
18 2 0.06
19 19 0.53
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTAATATTATTATTTT
Found at i:66619013 original size:16 final size:16
Alignment explanation
Indices: 66618994--66619058 Score: 107
Period size: 15 Copynumber: 4.2 Consensus size: 16
66618984 ATTTTTAATA
*
66618994 TTATTATTTTTTTTTT
1 TTATTTTTTTTTTTTT
66619010 TTATTTTTTTTTTTTT
1 TTATTTTTTTTTTTTT
66619026 TT-TTTTTTTTTTTTT
1 TTATTTTTTTTTTTTT
66619041 TT-TTTTTTTTTTTTT
1 TTATTTTTTTTTTTTT
66619056 TTA
1 TTA
66619059 AATCATTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
15 30 0.64
16 17 0.36
ACGTcount: A:0.06, C:0.00, G:0.00, T:0.94
Consensus pattern (16 bp):
TTATTTTTTTTTTTTT
Found at i:66619165 original size:16 final size:15
Alignment explanation
Indices: 66619141--66619175 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
66619131 TAATTATTAT
66619141 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
66619157 TATTTTAATATTTTA
1 TATTCTAATATTTTA
66619172 TATT
1 TATT
66619176 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:66626335 original size:73 final size:73
Alignment explanation
Indices: 66626216--66626381 Score: 242
Period size: 73 Copynumber: 2.3 Consensus size: 73
66626206 ATTTCCGTTT
* * *
66626216 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACGC
*
66626281 TGAGGTAA
66 CGAGGTAA
* *
66626289 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGGCATGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACGC
*
66626354 CGAGGTAT
66 CGAGGTAA
* * *
66626362 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
66626382 TTTCTGCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 83 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGACACGC
CGAGGTAA
Found at i:66626405 original size:13 final size:13
Alignment explanation
Indices: 66626361--66626405 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
66626351 TGCCGAGGTA
66626361 TTTTTAATTTCTG
1 TTTTTAATTTCTG
66626374 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
66626388 CTTTTAATTTCTG
1 TTTTTAATTTCTG
66626401 TTTTT
1 TTTTT
66626406 CAAAATCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:66626422 original size:99 final size:100
Alignment explanation
Indices: 66626292--66626574 Score: 396
Period size: 97 Copynumber: 2.9 Consensus size: 100
66626282 GAGGTAATTT
* * * * *
66626292 CAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGACTCAGGGCATGCCGA
1 CAATTTCTGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* *
66626357 GGTATTTTTAATTTCTGTTTTTCAATTTCTG-CTTT
65 GGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
* * *
66626392 TAATTTCTGTTTTTCAAAATCAACTTATATT--GAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
*
66626455 GTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTA
66 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
* *
66626490 CAAATTCTGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
66626554 GTATTTTCAATTT-TCGTTTTT
66 GTATTTTCAATTTCT-GTTTTT
66626575 TTAATTTATG
Statistics
Matches: 163, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
97 70 0.43
98 16 0.10
99 65 0.40
100 12 0.07
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (100 bp):
CAATTTCTGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTA
Found at i:66626682 original size:73 final size:73
Alignment explanation
Indices: 66626592--66626960 Score: 485
Period size: 73 Copynumber: 5.0 Consensus size: 73
66626582 ATGTTTCTAA
** * *
66626592 AAAAAATCAACTCATATTGCGAGAAATGAGGTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
*
66626657 TTGTTTATC
66 CTGTTT-TC
* * * *
66626666 -AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
66626730 CTGTTTTTC
66 CTG-TTTTC
* *
66626739 AAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
*
66626804 TTGTTTGTC
66 CTGTTT-TC
* *
66626813 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
66626877 CTGTCTTTC
66 CTGT-TTTC
* * ** *
66626886 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTGTTTTCCATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATT
66626949 TCTGTTCTTC
65 TCTGTT-TTC
66626959 AA
1 AA
66626961 TTTCTGTGTT
Statistics
Matches: 262, Mismatches: 26, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
72 3 0.01
73 153 0.58
74 67 0.26
75 39 0.15
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
CTGTTTTC
Found at i:66626774 original size:147 final size:148
Alignment explanation
Indices: 66626591--66626938 Score: 576
Period size: 147 Copynumber: 2.4 Consensus size: 148
66626581 TATGTTTCTA
** *
66626591 AAAAAAATCAACTCATATTGCGAGAAATGAGGTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
66626656 TTTGTTTATCAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
*
66626721 TTTCAATTTCTGTTTTTC
131 TTTCAATTTCTGTCTTTC
*
66626739 -AAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
66626803 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66626868 TTTCAATTTCTGTCTTTC
131 TTTCAATTTCTGTCTTTC
* * *
66626886 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
66626939 GTTTTCCATT
Statistics
Matches: 187, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
146 11 0.06
147 139 0.74
148 37 0.20
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (148 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TTTGTTTATCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTCTTTC
Found at i:66627189 original size:183 final size:179
Alignment explanation
Indices: 66626867--66627408 Score: 577
Period size: 183 Copynumber: 3.0 Consensus size: 179
66626857 CGTTGAGGTA
* * *
66626867 TTTTC-AATTTCTGTCTTT-CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--A
1 TTTTCAAATTTATG-CTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * * * *
66626928 GACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTG
65 CACGCTGAGATATTTTCAATTTCTGTTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTG
*
66626993 CGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
128 CGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
* *
66627045 TTTTCAAATATTAT-TTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGA
1 TTTTCAAAT-TTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
*
66627109 CACGCTGAGATATTTTCAATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATAT
65 CACGCTGAGATATTTTCAATTTC--TGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATAT
* * * * *
66627174 TGCGAGAGGTGAGTTGAGCC-TCAGGTCACACGCCGAGGTATTTTC-AATTGATTT
126 TGCGAGAGGTGAGTTGAGCCTTGA-CTCACACGCTGAGGTATTTTCAAATT-CTGT
* * * *
66627228 TTTTTAAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTCAAATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
** * ** *
66627291 ACATACCGAGATATTTTCAAAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTG
64 ACACGCTGAGATATTTTCAATTTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTG
* * ** * *
66627353 CGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGT
128 CGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
66627405 TTTT
1 TTTT
66627409 AATGTTTAGT
Statistics
Matches: 305, Mismatches: 43, Indels: 33
0.80 0.11 0.09
Matches are distributed among these distances:
177 57 0.19
178 12 0.04
179 42 0.14
180 4 0.01
181 69 0.23
182 17 0.06
183 104 0.34
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (179 bp):
TTTTCAAATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGATATTTTCAATTTCTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
Found at i:66627279 original size:90 final size:89
Alignment explanation
Indices: 66626887--66627371 Score: 415
Period size: 90 Copynumber: 5.4 Consensus size: 89
66626877 CTGTCTTTCA
* * * * * * *
66626887 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA----AGACGCTGAGGTGTTTTCCAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAAT
* * *
66626948 T-TCTGTTCTTC-AATTTCTGTGTTTC
66 TAT-T-TTTTTCAAATTTATGT-TTGC
* * * * * *
66626973 AAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGACTCACACGCTGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GTCACACGCCGAGATATTTTC-
* * * *
66627037 AATTCTGTTTTTCAAATATTATTTTTCC
63 AATTATTTTTTTCAAAT-TTATGTTTGC
* *
66627065 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGATATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAA
*
66627128 TTTCTTTTTTTTTC-AATTTATGTTTGTC
65 --T-TATTTTTTTCAAATTTATGTTTG-C
*
66627156 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAA
*
66627221 TTGATTTTTTTTAAATTTATGCTTTGC
65 TT-ATTTTTTTCAAATTTATG-TTTGC
* * **
66627248 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAA-
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAAT
* *
66627311 AATCTGTTTTACAAATTT-TGTTT--
66 TAT-T-TTTTTCAAATTTATGTTTGC
* *
66627334 TAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66627372 TGGCTCACGT
Statistics
Matches: 340, Mismatches: 36, Indels: 44
0.81 0.09 0.10
Matches are distributed among these distances:
87 71 0.21
88 5 0.01
89 5 0.01
90 93 0.27
91 76 0.22
92 62 0.18
93 28 0.08
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAAT
TATTTTTTTCAAATTTATGTTTGC
Found at i:66638433 original size:26 final size:25
Alignment explanation
Indices: 66638395--66638457 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
66638385 TGATAATATT
** *
66638395 AAAAATATGTACATAATATAGTGTAA
1 AAAAATACATACATAATATAAT-TAA
66638421 AAAAATACATACATAATATAATTAA
1 AAAAATACATACATAATATAATTAA
*
66638446 AATATATACATA
1 AA-AAATACATA
66638458 AGATAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 27 0.84
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (25 bp):
AAAAATACATACATAATATAATTAA
Found at i:66638447 original size:22 final size:22
Alignment explanation
Indices: 66638422--66638463 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
66638412 ATAGTGTAAA
*
66638422 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
66638444 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
66638464 CATGTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:66638478 original size:26 final size:24
Alignment explanation
Indices: 66638394--66638479 Score: 68
Period size: 26 Copynumber: 3.5 Consensus size: 24
66638384 GTGATAATAT
* * * *
66638394 TAAAAATATGTACATAATATAGTG
1 TAAAAAAATATACATAAGATAATG
*
66638418 TAAAAAAATACATACATAATATAAT-
1 TAAAAAAAT--ATACATAAGATAATG
*
66638443 T-AAAATATATACATAAGATAACATG
1 TAAAAAAATATACATAAGAT-A-ATG
66638468 TAAAAAAATATA
1 TAAAAAAATATA
66638480 TATATATAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 10 0.20
23 1 0.02
24 16 0.32
25 2 0.04
26 21 0.42
ACGTcount: A:0.59, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
TAAAAAAATATACATAAGATAATG
Found at i:66638504 original size:15 final size:14
Alignment explanation
Indices: 66638473--66638537 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
66638463 ACATGTAAAA
66638473 AAATATATATATAT
1 AAATATATATATAT
66638487 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
66638502 AAAGATATATACAT
1 AAATATATATATAT
66638516 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
66638529 ATATATATA
1 AAATATATA
66638538 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
13 14 0.33
14 18 0.42
15 6 0.14
16 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:66638509 original size:25 final size:25
Alignment explanation
Indices: 66638481--66638612 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 25
66638471 AAAAATATAT
*
66638481 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
66638506 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
66638531 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
66638555 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
66638577 A-ATATATATAATATAATATT-AAG
1 ATATATACATAATATAGTATTAAAG
*
66638600 AAATATA-ATAATA
1 ATATATACATAATA
66638613 ACAAAAAAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 24 0.28
24 11 0.13
25 34 0.40
26 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:66639967 original size:13 final size:13
Alignment explanation
Indices: 66639949--66640036 Score: 79
Period size: 13 Copynumber: 6.8 Consensus size: 13
66639939 TTCTTCATTA
66639949 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
66639962 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * * *
66639975 CTGTAGAAAAATA
1 CTTTTGAAAAGTG
*
66639988 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
* *
66640001 -TTGTGGAAAAGTA
1 CTT-TTGAAAAGTG
*
66640014 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
66640027 CTTTAGAAAA
1 CTTTTGAAAA
66640037 ATTTAAGTGT
Statistics
Matches: 56, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
12 2 0.04
13 52 0.93
14 2 0.04
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:66639991 original size:26 final size:26
Alignment explanation
Indices: 66639962--66640038 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
66639952 TTGAAAAGTG
*
66639962 CTTTTGAAAAGTGCTGTAGAAAAATA
1 CTTTTGAGAAGTGCTGTAGAAAAATA
* * *
66639988 CTTTTGAGAAGTGTTGTGGAAAAGTA
1 CTTTTGAGAAGTGCTGTAGAAAAATA
*
66640014 CTTTTGAGAAGTGCTTTAGAAAAAT
1 CTTTTGAGAAGTGCTGTAGAAAAAT
66640039 TTAAGTGTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (26 bp):
CTTTTGAGAAGTGCTGTAGAAAAATA
Found at i:66640265 original size:17 final size:17
Alignment explanation
Indices: 66640245--66640277 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
66640235 TATTTCTAAG
66640245 TAATT-AATATTAATTAT
1 TAATTAAAT-TTAATTAT
66640262 TAATTAAATTTAATTA
1 TAATTAAATTTAATTA
66640278 GAATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTAAATTTAATTAT
Found at i:66641100 original size:27 final size:26
Alignment explanation
Indices: 66641071--66641147 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
66641061 CCCCCCCCAA
**
66641071 AAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAACCTAACCCCCAAAAAAAAAG
*
66641097 AAAAAACCTAACCCCCCCAAAAAAAAG
1 AAAAAACCTAA-CCCCCAAAAAAAAAG
66641124 -AAAAACCTAACCCCCAAAAAAAAA
1 AAAAAACCTAACCCCCAAAAAAAAA
66641148 CTAAGAAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
25 13 0.28
26 21 0.46
27 12 0.26
ACGTcount: A:0.66, C:0.27, G:0.03, T:0.04
Consensus pattern (26 bp):
AAAAAACCTAACCCCCAAAAAAAAAG
Found at i:66641774 original size:10 final size:10
Alignment explanation
Indices: 66641759--66641786 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
66641749 TGTATATATT
66641759 ATTATTACAA
1 ATTATTACAA
66641769 ATTATTACAA
1 ATTATTACAA
66641779 ATTATTAC
1 ATTATTAC
66641787 TATTGCTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (10 bp):
ATTATTACAA
Found at i:66652004 original size:73 final size:72
Alignment explanation
Indices: 66651843--66652085 Score: 338
Period size: 73 Copynumber: 3.4 Consensus size: 72
66651833 GCTTTTCAGG
* * * * * * *
66651843 AAAATCAACTCGTATTGCGAGAGATGA--TGAGCCTCAAACACGTTGA-ATACTTT-AATTTTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
66651904 TTT-TC-
66 TTTGTCA
*
66651909 AAAATCAACT-ATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCT
66651973 GTTTGTCA
65 GTTTGTCA
66651981 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTAATTTCAATTTCT
66652046 GTTTGTCA
65 GTTTGTCA
*
66652054 AAAATCAACTCATATTACGAGAGGTGAGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
66652086 TCTCGGCTCA
Statistics
Matches: 158, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
65 13 0.08
66 10 0.06
67 9 0.06
68 8 0.05
69 5 0.03
70 10 0.06
71 2 0.01
72 10 0.06
73 90 0.57
74 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
TTTGTCA
Found at i:66652204 original size:87 final size:86
Alignment explanation
Indices: 66652036--66652204 Score: 200
Period size: 87 Copynumber: 1.9 Consensus size: 86
66652026 CTGAGGTAAT
** * * *
66652036 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGATCTCGGCTCACTTGC
1 TTCAATTTCTGTTCATAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCTCGGCACAC-TGC
*
66652101 TGAGGTCTTTTCAATTTCGTTC
65 TGAGGTCTTTTAAATTTCGTTC
*
66652123 TTCAATTTCTGTTCATAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGG-ACAC-
1 TTCAATTTCTGTTCAT-AAAAAATCAACTCATATTACGAGAGGTGAGTTGA-CCTC-GGCACACT
*
66652185 GCTGAGGTATTTTTAAATTT
63 GCTGAGGT-CTTTTAAATTT
66652205 ATGTTTTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
86 8 0.11
87 32 0.46
88 28 0.40
89 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (86 bp):
TTCAATTTCTGTTCATAAAAAATCAACTCATATTACGAGAGGTGAGTTGACCTCGGCACACTGCT
GAGGTCTTTTAAATTTCGTTC
Found at i:66652278 original size:74 final size:73
Alignment explanation
Indices: 66652141--66652328 Score: 263
Period size: 74 Copynumber: 2.5 Consensus size: 73
66652131 CTGTTCATAA
* *
66652141 AAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATATTTAAATTT
*
66652205 ATGTTTTTCC
65 ATGTTTGT-C
*
66652215 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGAACACGCTGAGGTA-ATTTCAATTT
1 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGG-ACACGCTGAGGTATATTTAAATTT
*
66652279 CTGTTTGTC
65 ATGTTTGTC
* *
66652288 AAAAATTAACTCATATTGCGAGTAGGTGAGTTGAGCCTCGG
1 AAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCTCGG
66652329 CTCACATGCT
Statistics
Matches: 104, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
73 21 0.20
74 56 0.54
75 27 0.26
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTATATTTAAATTTA
TGTTTGTC
Found at i:66652366 original size:14 final size:14
Alignment explanation
Indices: 66652347--66652374 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
66652337 CTGAAGTCTT
66652347 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
66652361 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
66652375 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:66652486 original size:238 final size:234
Alignment explanation
Indices: 66651909--66652557 Score: 1004
Period size: 238 Copynumber: 2.8 Consensus size: 234
66651899 TTTTGTTTTC
* * *
66651909 AAAATCAACT-ATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCT
* *
66651973 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AAGACACGCTGAGGTAATT
66 GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA-ACACGCTGAGGTAATT
* * *
66652037 TCAATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAGGTGAGTTGATCTCGGCTCACTTGCT
130 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTCGGCTCACATGCT
*
66652102 GAGGTCTTTTCAATTTCGTTCTTCAATTTCTGTTCATAAA
195 GAAGTCTTTTCAATTTCGTTCTTCAATTTCTGTTCATAAA
*
66652142 AAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTT-AATTTC
*
66652206 TGTTTTTCCAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAAT
65 TGTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAAT
*
66652271 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGTAGGTGAGTTGAGCCTCGGCTCACAT
129 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAG-AGGTGAGTTGA-CCTCGGCTCACAT
*
66652336 GCTGAAGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
192 GCTGAAGTCTTTTCAATTTC-GTTCTTCAATTTCTGTTCAT-AAA
*
66652381 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GACACGCTGAGGTATTTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCT
* *
66652445 GTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG-ACACGATGAGGTAAT
66 GTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTAAT
* * *
66652509 TTCAATTTCT-ATTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
129 TTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66652558 ACCTTTTAAT
Statistics
Matches: 383, Mismatches: 22, Indels: 19
0.90 0.05 0.04
Matches are distributed among these distances:
233 43 0.11
234 21 0.05
235 90 0.23
236 22 0.06
237 56 0.15
238 91 0.24
239 46 0.12
240 14 0.04
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (234 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCT
GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAATTT
CAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGACCTCGGCTCACATGCTG
AAGTCTTTTCAATTTCGTTCTTCAATTTCTGTTCATAAA
Found at i:66652557 original size:72 final size:73
Alignment explanation
Indices: 66652361--66652557 Score: 256
Period size: 73 Copynumber: 2.7 Consensus size: 73
66652351 ATTTCTGTTC
* *
66652361 TTCAATTTCTG-TTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGACACG
1 TTCAATTTCTGATT-GT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACG
* *
66652425 CTGAGGTATT
64 ATGAGGTAAT
* * * *
66652435 TTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGA
1 TTCAATTTCTGATTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGA
66652500 TGAGGTAAT
65 TGAGGTAAT
* *
66652509 TTCAATTTCT-ATTGTC-AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTCAATTTCTGATTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
66652558 ACCTTTTAAT
Statistics
Matches: 108, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
72 30 0.28
73 42 0.39
74 34 0.31
75 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (73 bp):
TTCAATTTCTGATTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGAT
GAGGTAAT
Found at i:66652615 original size:125 final size:126
Alignment explanation
Indices: 66652434--66652965 Score: 511
Period size: 127 Copynumber: 4.0 Consensus size: 126
66652424 GCTGAGGTAT
*
66652434 TTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACG
1 TTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * *
66652499 ATGAGGTAATTTCAATTTCTATTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CC
65 CTGAGGT-ATTTCAATTTCTATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCC
* * *
66652561 TTTTAATTTCTACTTTTTC-AAAATCAGCT-ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * *
66652624 CTGAGGTATTCTTAATTTTTATTGTTTCAAAAATCAACTCATGTTGCGAGAAGTGAGTT-AAGCC
65 CTGAGGTATT-TCAATTTCTATTG--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCC
*
66652688 TTTTAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* * * *
66652752 TGCTGAGGTCTTTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
63 CGCTGAGGT-ATTTCAATTTCTATT-GT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGA-
66652817 CCTCAGGACACGC
123 ----A-G---C-C
** * *
66652830 TGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTC
1 T----T-TTAA----TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
66652895 -GGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGT
57 AGGACACGCTGAGGT-ATTTCAATTTCT-ATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGT
66652959 TG-AGCC
120 TGAAGCC
66652965 T
1 T
66652966 CGGCTCACAT
Statistics
Matches: 336, Mismatches: 34, Indels: 62
0.78 0.08 0.14
Matches are distributed among these distances:
124 3 0.01
125 49 0.15
126 16 0.05
127 64 0.19
128 32 0.10
129 1 0.00
130 19 0.06
131 32 0.10
132 1 0.00
135 2 0.01
136 1 0.00
137 1 0.00
138 1 0.00
139 1 0.00
140 1 0.00
141 1 0.00
142 2 0.01
146 32 0.10
147 2 0.01
148 24 0.07
149 2 0.01
151 49 0.15
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (126 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTCAATTTCTATTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAGCC
Found at i:66652832 original size:205 final size:211
Alignment explanation
Indices: 66652580--66652996 Score: 557
Period size: 205 Copynumber: 2.0 Consensus size: 211
66652570 CTACTTTTTC
* * *
66652580 AAAATCAGCTATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTCTT-AATTTTT
1 AAAATCAACTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTCTTAAATTTCT
* *
66652644 ATTGTTTCAAAAATCAACTCATGTTGCGAGAA-GTGAG-T-T-A-A-GC-CT-TTT-AATTTCTG
66 ATT-TTTCAAAAATCAACTCATATTGAGA-AAGGTGAGTTCTGACACGCGCTATTTCAATTTCTG
66652700 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTT
129 TTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTT
66652765 TCAATTTCTGTTCGTAAAA
194 T-AATTTCTGTTCGTAAAA
*
66652784 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACT-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTCTTAAATTTC
* *
66652849 TGTTTTTCAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTT
65 TATTTTTCAAAAATCAACTCATATTGAGAAAGGTGAGTT----CT--GACACGC---GCT-ATTT
*
66652914 CAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
120 CAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCT
66652979 GAGGTCTTTTAATTTCTG
185 GAGGTCTTTTAATTTCTG
66652997 CTTTCAATTT
Statistics
Matches: 183, Mismatches: 9, Indels: 24
0.85 0.04 0.11
Matches are distributed among these distances:
204 11 0.06
205 73 0.40
206 9 0.05
211 1 0.01
214 1 0.01
215 1 0.01
216 2 0.01
220 1 0.01
222 11 0.06
223 73 0.40
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (211 bp):
AAAATCAACTATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTCTTAAATTTCT
ATTTTTCAAAAATCAACTCATATTGAGAAAGGTGAGTTCTGACACGCGCTATTTCAATTTCTGTT
TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTA
ATTTCTGTTCGTAAAA
Found at i:66652955 original size:72 final size:72
Alignment explanation
Indices: 66652688--66652996 Score: 406
Period size: 72 Copynumber: 4.2 Consensus size: 72
66652678 GAGTTAAGCC
66652688 TTTT-AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACA
* *
66652752 TGCTGAGGTC
63 CGCTGAGGTA
* *
66652762 TTTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACA
66652827 CGCTGAGGTA
63 CGCTGAGGTA
* * * *
66652837 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGAGAAAGGTGAGTTGAGCCTCGGACACG
1 -TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACG
66652902 CTGAGGTA
65 CTGAGGTA
* *
66652910 ATTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA
1 TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACA
* *
66652975 TGCTGAGGTC
63 CGCTGAGGTA
66652985 TTTT-AATTTCTG
1 TTTTCAATTTCTG
66652997 CTTTCAATTT
Statistics
Matches: 208, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
72 53 0.25
73 15 0.07
74 48 0.23
75 37 0.18
76 15 0.07
77 38 0.18
78 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGC
TGAGGTA
Found at i:66653146 original size:57 final size:59
Alignment explanation
Indices: 66653026--66653147 Score: 135
Period size: 57 Copynumber: 2.1 Consensus size: 59
66653016 CAATTTATAT
* * *
66653026 TTTTCAAAATCAATCATATGCGAGATGTGAGTTGAGCCTTGGGTTCACATGTCAAGGTA
1 TTTTCAAAATCAATCATATGCGAGAGGTGAGTTGAGCCTTGGGCTCACATGTCAAGCTA
* * * * *
66653085 -TTTCAAAATCTA-CTTTTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGTG-CTGAGCTA
1 TTTTCAAAATCAATCATATGCGAGAGGTGAGTTGAGCCTTGGGCTCACATGTC-AAGCTA
66653141 TTTTCAA
1 TTTTCAA
66653148 TTTCTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
55 1 0.02
56 12 0.23
57 29 0.55
58 11 0.21
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (59 bp):
TTTTCAAAATCAATCATATGCGAGAGGTGAGTTGAGCCTTGGGCTCACATGTCAAGCTA
Found at i:66653805 original size:30 final size:30
Alignment explanation
Indices: 66653769--66653832 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
66653759 ACTTTTCTCA
66653769 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
66653799 ACTAGCCACTCCTTTTCCACCACCTACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
66653829 ACTA
1 ACTA
66653833 ATCACACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:66654054 original size:16 final size:16
Alignment explanation
Indices: 66654035--66654067 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
66654025 TATTGTGAAG
66654035 GCTAGTTTTTGGAGAA
1 GCTAGTTTTTGGAGAA
66654051 GCTAGTTTTTGGAGAA
1 GCTAGTTTTTGGAGAA
66654067 G
1 G
66654068 ATTAATCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.36
Consensus pattern (16 bp):
GCTAGTTTTTGGAGAA
Found at i:66654363 original size:21 final size:21
Alignment explanation
Indices: 66654330--66654449 Score: 63
Period size: 21 Copynumber: 5.6 Consensus size: 21
66654320 TCTCCTTTTT
66654330 TATTATTATTATAT-TTCTTAA
1 TATTATTATTATATATT-TTAA
66654351 TATTAATTA-TATATATTTTAA
1 TATT-ATTATTATATATTTTAA
** *
66654372 TA-TATTA-GGTATATTTAAA
1 TATTATTATTATATATTTTAA
* * *
66654391 TTCTATATTACGTATATATATTATAC
1 -TAT-TATTA--T-TATATATTTTAA
66654417 TATT-TTATGTATATATCTTTAA
1 TATTATTAT-TATATAT-TTTAA
66654439 TATTA-TATTAT
1 TATTATTATTAT
66654450 TTATATATAT
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
19 13 0.17
20 2 0.03
21 26 0.35
22 21 0.28
23 3 0.04
24 1 0.01
25 2 0.03
26 7 0.09
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (21 bp):
TATTATTATTATATATTTTAA
Done.