Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 29 of 175
Found at i:7649074 original size:45 final size:45
Alignment explanation
Indices: 7648981--7649074 Score: 100
Period size: 45 Copynumber: 2.1 Consensus size: 45
7648971 TTATAAATTA
* ** * * *
7648981 TTTAGAGGTTACAAGATAATGAATTAGGGGTTATGGATATTTGTT
1 TTTAGAGGTTACAAGAAAATGAATTAGGGGTTACAGACATCTGAT
* *
7649026 TTTAGGGGTTACAATAAAATGGAATTAGGGGTTACAGACATCT-AT
1 TTTAGAGGTTACAAGAAAAT-GAATTAGGGGTTACAGACATCTGAT
7649071 TTTA
1 TTTA
7649075 TCAAATGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 22 0.55
46 18 0.45
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (45 bp):
TTTAGAGGTTACAAGAAAATGAATTAGGGGTTACAGACATCTGAT
Found at i:7649936 original size:42 final size:42
Alignment explanation
Indices: 7649863--7649942 Score: 97
Period size: 42 Copynumber: 1.9 Consensus size: 42
7649853 GATTTAGAAT
* * * * *
7649863 CACACGGCCAGGGACATAGGTGTGTGCCCAGGTCGTGTGACC
1 CACACGGACAAGGACATAGGCGTGCGCCCAGGCCGTGTGACC
* *
7649905 CACACGGACAAGGACATGGGCGTGCGTCCAGGCCGTGT
1 CACACGGACAAGGACATAGGCGTGCGCCCAGGCCGTGT
7649943 ACCTCACTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 31 1.00
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.15
Consensus pattern (42 bp):
CACACGGACAAGGACATAGGCGTGCGCCCAGGCCGTGTGACC
Found at i:7650004 original size:104 final size:104
Alignment explanation
Indices: 7649809--7650005 Score: 268
Period size: 104 Copynumber: 1.9 Consensus size: 104
7649799 TTCACATGAG
* * * *
7649809 CAAGGACATGGGTGTGTGTCCAGGTCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAG
1 CAAGGACATGGGCGTGCGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
** * * *
7649874 GGACATAGGTGTGTGCCCAGGTCGTGTGACCCACACGGA
66 GGACATAGGCATATGCCCAAGCCGTGTGACCCACACGGA
* *
7649913 CAAGGACATGGGCGTGCGTCCAGGCCGTGTACCTCACTGTTTATGATTTAGAATCACACGGGCAA
1 CAAGGACATGGGCGTGCGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
* * *
7649978 TGACATGGGCATATGTCCAAGCCGTGTG
66 GGACATAGGCATATGCCCAAGCCGTGTG
7650006 GCATTTAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 79 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (104 bp):
CAAGGACATGGGCGTGCGTCCAGGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAA
GGACATAGGCATATGCCCAAGCCGTGTGACCCACACGGA
Found at i:7656373 original size:104 final size:101
Alignment explanation
Indices: 7656191--7656519 Score: 320
Period size: 104 Copynumber: 3.3 Consensus size: 101
7656181 TCTCATGGGC
* * * * *
7656191 AAGGACATGGGCGTGTGTCCAGGCCTTGTAACTCACTATTTATGATTTGGAATCACACGGTCAGG
1 AAGGACATGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAGG
** *
7656256 GATATGGATGTGTGCCCAGTTCGTGTAAGCCAAACGGG
66 GATATGGGCGTGTGCCCAG-CCGTGTAAGCCAAAC-GG
* *
7656294 AAAGGATATGGACGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAG
1 -AAGGACATGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAG
* *
7656359 GGATATGGGCGTGTGCCCAGGCTGTGTGAGCC--AC--
65 GGATATGGGCGTGTGCCCA-GCCGTGTAAGCCAAACGG
* * *
7656393 ----AC--GGGTGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGGCAAG
1 AAGGACATGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAGG
* * * * *
7656452 GACATAGGCCTGTGCCCAGGCCATGTGAA-CCATACGAG
66 GATATGGGCGTGTGCCCA-GCCGTGT-AAGCCAAACG-G
*
7656490 CAAGGACATGGGCGTGTGTCCAGGCCGTGT
1 -AAGGACATGGGCGTGTGTCCAAGCCGTGT
7656520 GGCATCTGAA
Statistics
Matches: 186, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
92 76 0.41
93 1 0.01
94 3 0.02
102 4 0.02
104 101 0.54
105 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (101 bp):
AAGGACATGGGCGTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAGG
GATATGGGCGTGTGCCCAGCCGTGTAAGCCAAACGG
Found at i:7656479 original size:92 final size:92
Alignment explanation
Indices: 7656307--7656479 Score: 283
Period size: 92 Copynumber: 1.9 Consensus size: 92
7656297 GGATATGGAC
* * * *
7656307 GTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAGGGATATGGGCGTG
1 GTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAAGGACATAGGCCTG
**
7656372 TGCCCAGGCTGTGTGAGCCACACGGGT
66 TGCCCAGGCCATGTGAGCCACACGGGT
*
7656399 GTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGGCAAGGACATAGGCCTG
1 GTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAAGGACATAGGCCTG
7656464 TGCCCAGGCCATGTGA
66 TGCCCAGGCCATGTGA
7656480 ACCATACGAG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (92 bp):
GTGTGTCCAAGCCGTGTAACTCACTGTTTATGATTTAGAATCACACGGCCAAGGACATAGGCCTG
TGCCCAGGCCATGTGAGCCACACGGGT
Found at i:7665295 original size:14 final size:14
Alignment explanation
Indices: 7665276--7665304 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7665266 ATTTTGAATT
7665276 TCAAGTTAATCGAA
1 TCAAGTTAATCGAA
7665290 TCAAGTTAATCGAA
1 TCAAGTTAATCGAA
7665304 T
1 T
7665305 TATTCGATTC
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:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (14 bp):
TCAAGTTAATCGAA
Found at i:7665470 original size:19 final size:21
Alignment explanation
Indices: 7665426--7665475 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
7665416 TCTCTCTCAA
7665426 CAAAAATTACAAAATAATTTT
1 CAAAAATTACAAAATAATTTT
7665447 CAAAAATT-CAAAAT-ATTTAT
1 CAAAAATTACAAAATAATTT-T
*
7665467 AAAAAATTA
1 CAAAAATTA
7665476 AAATTTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 8 0.31
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
CAAAAATTACAAAATAATTTT
Found at i:7665516 original size:21 final size:21
Alignment explanation
Indices: 7665486--7665525 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
7665476 AAATTTATAG
7665486 TTTTAAAAAAAT-TATAAAAT
1 TTTTAAAAAAATGTATAAAAT
7665506 TTTTAAAAAAATGTATAAAA
1 TTTTAAAAAAATGTATAAAA
7665526 AAGTTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAAATGTATAAAAT
Found at i:7665532 original size:21 final size:20
Alignment explanation
Indices: 7665488--7665532 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
7665478 ATTTATAGTT
***
7665488 TTAAAAAAATTATAAAATTT
1 TTAAAAAAATTATAAAAAAG
7665508 TTAAAAAAATGTATAAAAAAG
1 TTAAAAAAAT-TATAAAAAAG
7665529 TTAA
1 TTAA
7665533 GATTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TTAAAAAAATTATAAAAAAG
Found at i:7667187 original size:18 final size:19
Alignment explanation
Indices: 7667166--7667209 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
7667156 AAAAAATTGA
*
7667166 GAATTTTTATAA-TATTTT
1 GAATTTTTAAAATTATTTT
*
7667184 GAATTTTAAAAATTATTTT
1 GAATTTTTAAAATTATTTT
7667203 -AATTTTT
1 GAATTTTT
7667210 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
GAATTTTTAAAATTATTTT
Found at i:7671264 original size:41 final size:42
Alignment explanation
Indices: 7671175--7671281 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 42
7671165 TCAGGCTTAG
* * *
7671175 CGTCTAGCAGGCTTATTACCAGTGAAACAATATCAGAATTTA
1 CGTCTAGCAGGCTTATTGCCGGTGAAACAATATCAGAATATA
* *
7671217 CGTCTAGCAGGCTTATTGCCGGTGAAAC-ATTTCAGACTATA
1 CGTCTAGCAGGCTTATTGCCGGTGAAACAATATCAGAATATA
* * * *
7671258 TGTCTAGAAGGCTAAGTGCCGGTG
1 CGTCTAGCAGGCTTATTGCCGGTG
7671282 TATTGAATCT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
41 30 0.54
42 26 0.46
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTCTAGCAGGCTTATTGCCGGTGAAACAATATCAGAATATA
Found at i:7680765 original size:41 final size:42
Alignment explanation
Indices: 7680677--7680771 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
7680667 CAGGCTTAGC
* *
7680677 GTCTAGCAGGCTTATTTCCAGAGAAACAATATCAGACTTTAT
1 GTCTAGCAGGCTTATTGCCAGAGAAACAATATCAGACTATAT
* * *
7680719 GTCTAGCAGGCTTATTGCCGGTGAAAC-ATTTCAGACTATAT
1 GTCTAGCAGGCTTATTGCCAGAGAAACAATATCAGACTATAT
*
7680760 GTCTAGAAGGCT
1 GTCTAGCAGGCT
7680772 AAGTGCCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 23 0.49
42 24 0.51
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
GTCTAGCAGGCTTATTGCCAGAGAAACAATATCAGACTATAT
Found at i:7680779 original size:41 final size:41
Alignment explanation
Indices: 7680699--7680825 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
7680689 TATTTCCAGA
* *
7680699 GAAACAATATCAGACTTTATGTCTAGCAGGCTTATTGCCGGT
1 GAAAC-ATATCAGACTTTATGTCTAGCAGGCTAAGTGCCGGT
* * * *
7680741 GAAACATTTCAGACTATATGTCTAGAAGGCTAAGTGCCGAT
1 GAAACATATCAGACTTTATGTCTAGCAGGCTAAGTGCCGGT
* *
7680782 G-TAC-TGAATCAGACTTTAAGTCTAGCAGGCTAAGTGCCGGT
1 GAAACAT--ATCAGACTTTATGTCTAGCAGGCTAAGTGCCGGT
7680823 GAA
1 GAA
7680826 TCTATTTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 2 0.03
41 61 0.88
42 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (41 bp):
GAAACATATCAGACTTTATGTCTAGCAGGCTAAGTGCCGGT
Found at i:7692019 original size:17 final size:18
Alignment explanation
Indices: 7691999--7692038 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7691989 GAAAAAGTGC
7691999 AAAAATA-AAAAATACA-A
1 AAAAATAGAAAAATA-ATA
7692016 AAAAA-AGAAAAATAATA
1 AAAAATAGAAAAATAATA
7692033 AAAAAT
1 AAAAAT
7692039 TTGTGGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAAATAGAAAAATAATA
Found at i:7693730 original size:43 final size:43
Alignment explanation
Indices: 7693631--7693988 Score: 486
Period size: 43 Copynumber: 8.3 Consensus size: 43
7693621 AGGTTACGTT
* * * * *
7693631 TTTAGCGACGTTTTTG-CAAGAAGCACCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGACAA-AAGCGCCGCTAAAGGTCATGATC
* * * *
7693673 TTTCGCGGCGTTTGTGACAAAAGCACTGCTAAAGGTCAAGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* * *
7693716 TTTAGCGGCATTTGTGACAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
*
7693759 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
7693802 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
7693845 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* *** * * *
7693888 TTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
* *
7693931 TTTAACGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
*
7693974 TTTAGCGGCATTTGT
1 TTTAGCGGCGTTTGT
7693989 TCACATAAAT
Statistics
Matches: 279, Mismatches: 35, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
42 28 0.10
43 251 0.90
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGATC
Found at i:7694135 original size:208 final size:208
Alignment explanation
Indices: 7693884--7694300 Score: 834
Period size: 208 Copynumber: 2.0 Consensus size: 208
7693874 TAAAGGTCAT
7693884 GATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATCTTTAACGGCGTTTGTGAT
1 GATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATCTTTAACGGCGTTTGTGAT
7693949 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTTCACATAAATGCTTTTTGCTGACGC
66 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTTCACATAAATGCTTTTTGCTGACGC
7694014 TTAAAAGCGCCGCTAAAGGCCTAAAAAACGCCGCTAAAAGTCTATTTTGCTGTAGTGAGAGTTCG
131 TTAAAAGCGCCGCTAAAGGCCTAAAAAACGCCGCTAAAAGTCTATTTTGCTGTAGTGAGAGTTCG
7694079 CAAGGTGTGACGA
196 CAAGGTGTGACGA
7694092 GATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATCTTTAACGGCGTTTGTGAT
1 GATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATCTTTAACGGCGTTTGTGAT
7694157 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTTCACATAAATGCTTTTTGCTGACGC
66 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTTCACATAAATGCTTTTTGCTGACGC
7694222 TTAAAAGCGCCGCTAAAGGCCTAAAAAACGCCGCTAAAAGTCTATTTTGCTGTAGTGAGAGTTCG
131 TTAAAAGCGCCGCTAAAGGCCTAAAAAACGCCGCTAAAAGTCTATTTTGCTGTAGTGAGAGTTCG
7694287 CAAGGTGTGACGA
196 CAAGGTGTGACGA
7694300 G
1 G
7694301 TTGGGCTTCG
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 209 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (208 bp):
GATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTAAGATCTTTAACGGCGTTTGTGAT
AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGGCATTTGTTCACATAAATGCTTTTTGCTGACGC
TTAAAAGCGCCGCTAAAGGCCTAAAAAACGCCGCTAAAAGTCTATTTTGCTGTAGTGAGAGTTCG
CAAGGTGTGACGA
Found at i:7694164 original size:43 final size:43
Alignment explanation
Indices: 7694091--7694196 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
7694081 AGGTGTGACG
*** * *
7694091 AGATCTTTAGCGGCGTTTGTGTCGCTAGCGCCGCTATAGGTTA
1 AGATCTTTAGCGGCGTTTGTGTCAAAAGCGCCGCTAAAGGTCA
*
7694134 AGATCTTTAACGGCGTTTGTGAT-AAAAGCGCCGCTAAAGGTCA
1 AGATCTTTAGCGGCGTTTGTG-TCAAAAGCGCCGCTAAAGGTCA
* *
7694177 TGATCTTTAGCGGCATTTGT
1 AGATCTTTAGCGGCGTTTGT
7694197 TCACATAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 52 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
AGATCTTTAGCGGCGTTTGTGTCAAAAGCGCCGCTAAAGGTCA
Found at i:7695630 original size:17 final size:17
Alignment explanation
Indices: 7695608--7695653 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
7695598 AGCTCACATT
7695608 TTTTGGTGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
7695625 TTTTGGTGAGCTCGTAG
1 TTTTGGTGAGCTCGTAG
*
7695642 TTCTGGTGAGCT
1 TTTTGGTGAGCT
7695654 TGCAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.11, C:0.13, G:0.35, T:0.41
Consensus pattern (17 bp):
TTTTGGTGAGCTCGTAG
Found at i:7697306 original size:31 final size:31
Alignment explanation
Indices: 7697246--7697306 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
7697236 TAATTGAAAC
* *
7697246 GAAAGCTTTCATTTAAGTTATTGAATTATTT
1 GAAAGCTTTCATTTAAGTCACTGAATTATTT
* * *
7697277 GAAAGTTTTTATTTAAGTCACTGAGTTATT
1 GAAAGCTTTCATTTAAGTCACTGAATTATT
7697307 AAGCTCTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.15, T:0.48
Consensus pattern (31 bp):
GAAAGCTTTCATTTAAGTCACTGAATTATTT
Found at i:7702282 original size:46 final size:46
Alignment explanation
Indices: 7702180--7702398 Score: 338
Period size: 46 Copynumber: 4.8 Consensus size: 46
7702170 TACGTATGAT
* * * *
7702180 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
7702223 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
*
7702269 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCT-AAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
*
7702314 CACTTATCACTTTGTCACTTGATCAGATTAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
* *
7702360 CACTTATTACTTTGTCACTTGATCAGATAAGTGAAGCTA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
7702399 GCACTATCAC
Statistics
Matches: 162, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
43 10 0.06
44 5 0.03
45 62 0.38
46 85 0.52
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
Found at i:7702305 original size:91 final size:91
Alignment explanation
Indices: 7702180--7702429 Score: 357
Period size: 91 Copynumber: 2.8 Consensus size: 91
7702170 TACGTATGAT
* *
7702180 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
7702243 GATCAGATAAGTGTAGCTAAAGCTGC
66 GATCAGATAAGTGTAGCTAAAGCTGC
* * *
7702269 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGCTGCCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
*
7702334 GATCAGATTAGTGTAGCTAAAGCTGC
66 GATCAGATAAGTGTAGCTAAAGCTGC
* * * * *
7702360 CACTTATTACTTTGTCACTTGATCAGATAAGTGAAGCTAGCACTATCACTTGTCA--TTGTCAC-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAG-GCTACCACTTATCACTTTGTCACT
7702422 TGATCAGA
65 TGATCAGA
7702430 AGTACTCAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
89 18 0.12
90 12 0.08
91 104 0.72
92 10 0.07
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTGC
Found at i:7715149 original size:46 final size:46
Alignment explanation
Indices: 7715047--7715293 Score: 385
Period size: 46 Copynumber: 5.5 Consensus size: 46
7715037 TACGTATGAT
* * * *
7715047 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
7715090 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
*
7715136 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCT-AAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
*
7715181 CACTTATCACTTTGTCACTTGATCAGATTAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
* * *
7715227 CACTTATTACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
7715273 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
7715294 TCACTGATCA
Statistics
Matches: 188, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
43 10 0.05
44 5 0.03
45 62 0.33
46 111 0.59
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
Found at i:7715172 original size:91 final size:91
Alignment explanation
Indices: 7715047--7715293 Score: 399
Period size: 91 Copynumber: 2.7 Consensus size: 91
7715037 TACGTATGAT
* * *
7715047 CACTTATCAC-TTGTC-CCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
7715110 GATCAGATAAGTGTAGCTAAAGCTGC
66 GATCAGATAAGTGTAGCTAAAGCTGC
* *
7715136 CACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAGCTGCCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
*
7715201 GATCAGATTAGTGTAGCTAAAGCTGC
66 GATCAGATAAGTGTAGCTAAAGCTGC
* *
7715227 CACTTATTACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
7715292 TG
65 TG
7715294 TCACTGATCA
Statistics
Matches: 145, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
89 10 0.07
90 5 0.03
91 103 0.71
92 27 0.19
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTGC
Found at i:7715245 original size:137 final size:134
Alignment explanation
Indices: 7715047--7715293 Score: 395
Period size: 137 Copynumber: 1.8 Consensus size: 134
7715037 TACGTATGAT
* *
7715047 CACTTATCACTTGTCCCTGATTAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
* *
7715112 TCAGATAAGTGTAGCTAAAGCTGCCACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAG
66 TCAGATAAGTGAAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAG
7715177 CTGC
131 CTGC
* * * *
7715181 CACTTATCACTTTGTCACTTGATCAGATTAGTGTAGCTAAAGCTGCCACTTATTACTTTGTCACT
1 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
7715246 TGATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTTTGTCACTTG
63 TGATCAGATAAGTGAAGCTAAAGCTACCACTTATCACTTTGTCACTTG
7715294 TCACTGATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
134 10 0.10
135 5 0.05
136 18 0.18
137 69 0.68
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (134 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCAGATAAGTGAAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAATGTAGCTAAG
CTGC
Found at i:7725330 original size:91 final size:91
Alignment explanation
Indices: 7725184--7725384 Score: 300
Period size: 91 Copynumber: 2.2 Consensus size: 91
7725174 TACGTATGAT
* * *
7725184 CACTTATCAC-TTGTC-CCTGATCAGATAAGTATCGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAGCTACCACTTATCACTTTGTCACTT
*
7725247 GATCAGATAAGTGTAGCTAAAGCTGC
66 GATCAGATAAGTGTAGCTAAAGCTAC
* **
7725273 CACTTAT-ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGTCACTTATCACTTTGTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCT-AAGCTACCACTTATCACTTTGTCACT
*
7725337 TGATTAGATAAGTGTAGCTAAAGCTAC
65 TGATCAGATAAGTGTAGCTAAAGCTAC
7725364 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
7725385 TCACTGATCA
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
88 2 0.02
89 12 0.12
90 18 0.18
91 55 0.55
92 13 0.13
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCTAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:7725347 original size:46 final size:46
Alignment explanation
Indices: 7725184--7725384 Score: 302
Period size: 46 Copynumber: 4.5 Consensus size: 46
7725174 TACGTATGAT
* * * *
7725184 CACTTATCAC-TTGTC-CCTGATCAGATAAGTATCGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
7725227 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
**
7725273 CACTTAT-ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTGT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
7725318 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
7725364 CACTTATCACTTTGTCACTTG
1 CACTTATCACTTTGTCACTTG
7725385 TCACTGATCA
Statistics
Matches: 145, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
43 10 0.07
44 5 0.03
45 62 0.43
46 68 0.47
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:7739993 original size:22 final size:22
Alignment explanation
Indices: 7739965--7740016 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
7739955 GTTAATCTAC
*
7739965 CTCGAGACATTGG-AAATTGTGT
1 CTCGAGAC-TTGGTAAATTATGT
**
7739987 CTCGAGACTTGGTCCATTATGT
1 CTCGAGACTTGGTAAATTATGT
7740009 CTCGAGAC
1 CTCGAGAC
7740017 CAACCTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (22 bp):
CTCGAGACTTGGTAAATTATGT
Found at i:7752448 original size:26 final size:26
Alignment explanation
Indices: 7752418--7752489 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 26
7752408 AAGTCCTCAC
*
7752418 AGACTTCCCCAAAAGATAGTCCTGGT
1 AGACTTCCACAAAAGATAGTCCTGGT
* * *
7752444 GGACTTTCCACATATCAGATAGTCCTTGT
1 AGAC-TTCCACA-A-AAGATAGTCCTGGT
7752473 AGACTTCCACAAAAGAT
1 AGACTTCCACAAAAGAT
7752490 TTTCCTAACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 7 0.19
27 7 0.19
28 8 0.22
29 15 0.41
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (26 bp):
AGACTTCCACAAAAGATAGTCCTGGT
Found at i:7752580 original size:22 final size:22
Alignment explanation
Indices: 7752555--7752633 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
7752545 TCCCATAAAA
*
7752555 GGGCTCTCATACGTCCCCTGAG
1 GGGCTCTCATACGTCCCCTAAG
* * * *
7752577 GGGCTCTCAAATGTCCCATAAA
1 GGGCTCTCATACGTCCCCTAAG
* *
7752599 GGGCTCTTATACGTCCCGCACAAG
1 GGGCTCTCATACGTCCC-C-TAAG
7752623 GGGCTCTCATA
1 GGGCTCTCATA
7752634 TACAGGTGTG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 31 0.72
24 12 0.28
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.23
Consensus pattern (22 bp):
GGGCTCTCATACGTCCCCTAAG
Found at i:7753925 original size:100 final size:100
Alignment explanation
Indices: 7753747--7753945 Score: 353
Period size: 100 Copynumber: 2.0 Consensus size: 100
7753737 CTACCCGCCA
*
7753747 CTTAACTTTAATTACAAAAAGAACTTACCAGAATAGAAAACTTTTCAATTTAATCCACAATTCTC
1 CTTAACTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCACAATTCTC
7753812 CTTTGCAACATACGACTTAACAAATATGGGTGCAT
66 CTTTGCAACATACGACTTAACAAATATGGGTGCAT
* * **
7753847 CTTATCTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTTATCTGCAATTCTC
1 CTTAACTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCACAATTCTC
7753912 CTTTGCAACATACGACTTAACAAATATGGGTGCA
66 CTTTGCAACATACGACTTAACAAATATGGGTGCA
7753946 ACAATATCTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (100 bp):
CTTAACTTTAATTACAAAAAGAACTTACCAGAATAGAAAAATTTTCAATTTAATCCACAATTCTC
CTTTGCAACATACGACTTAACAAATATGGGTGCAT
Found at i:7773215 original size:22 final size:22
Alignment explanation
Indices: 7773167--7773216 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
7773157 CAATAACAAT
* * *
7773167 AAAATAGTAGCAATATAATAGC
1 AAAATAGTAGCAAAACAACAGC
*
7773189 GAAATAGTAGCAAAACAACAGC
1 AAAATAGTAGCAAAACAACAGC
7773211 AAAATA
1 AAAATA
7773217 ACTTATTTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.12, G:0.14, T:0.16
Consensus pattern (22 bp):
AAAATAGTAGCAAAACAACAGC
Found at i:7776598 original size:22 final size:21
Alignment explanation
Indices: 7776568--7776608 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7776558 GATATGATAA
*
7776568 TTTTATTTATGTTATTTTTAAT
1 TTTTATTTAT-TCATTTTTAAT
*
7776590 TTTTGTTTATTCATTTTTA
1 TTTTATTTATTCATTTTTA
7776609 TTGGTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTATTTATTCATTTTTAAT
Found at i:7776635 original size:19 final size:21
Alignment explanation
Indices: 7776581--7776635 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
7776571 TATTTATGTT
**
7776581 ATTTTTAATTTTTGTTTATTC
1 ATTTTTAATTTTTGAATATTC
*
7776602 ATTTTT-ATTGGTTGAAT-TTC
1 ATTTTTAATT-TTTGAATATTC
7776622 -TTTTTAATTTTTGA
1 ATTTTTAATTTTTGA
7776636 GGTTGTTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 9 0.32
20 9 0.32
21 10 0.36
ACGTcount: A:0.20, C:0.04, G:0.09, T:0.67
Consensus pattern (21 bp):
ATTTTTAATTTTTGAATATTC
Found at i:7784494 original size:54 final size:54
Alignment explanation
Indices: 7784392--7784561 Score: 205
Period size: 54 Copynumber: 3.1 Consensus size: 54
7784382 CAAGTCAGTC
* * * * *
7784392 AGTTACATGGCCTAACACACGGCTTGATACACGGGCGTGTGTGACAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
* * *
7784446 AGGTACACGACCTAGCACACGGTTTGACACACAGGCGTGTGTGGCAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
* * *** * *
7784500 AGTTAGACGACCTAGCACATGGCCCAACACACGGGCATGAGTGGCAACTTAGTG
1 AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
7784554 AGTTACAC
1 AGTTACAC
7784562 AGGTGAGGAC
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (54 bp):
AGTTACACGACCTAGCACACGGCTTGACACACGGGCGTGTGTGGCAACTTAGTG
Found at i:7786283 original size:72 final size:73
Alignment explanation
Indices: 7786195--7786331 Score: 204
Period size: 74 Copynumber: 1.9 Consensus size: 73
7786185 AATTAGTTAT
* * *
7786195 ATATCACAATTTCCATTTCATAAACTCAATG-ATAACTCATTTCATATACATGCCTTTTCAATCC
1 ATATCACAATTCCCATTTCATAAACTCAATGAATAACTCATTTCATAAACATACCTTTTCAATCC
7786259 CTTTACAC
66 CTTTACAC
* * *
7786267 ATATTACAATTCCCATTTCATAAGCTCAATGACATAACTCATTTCATAAACATACTTTTTCAATC
1 ATATCACAATTCCCATTTCATAAACTCAATGA-ATAACTCATTTCATAAACATACCTTTTCAATC
7786332 AAGCTCATTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 28 0.49
74 29 0.51
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (73 bp):
ATATCACAATTCCCATTTCATAAACTCAATGAATAACTCATTTCATAAACATACCTTTTCAATCC
CTTTACAC
Found at i:7806622 original size:17 final size:17
Alignment explanation
Indices: 7806591--7806625 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7806581 GTAAAATTAT
**
7806591 TTTAAATTTTTCTTGCA
1 TTTAAATTTGACTTGCA
7806608 TTTAAATTTGACTTGCA
1 TTTAAATTTGACTTGCA
7806625 T
1 T
7806626 GTATTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (17 bp):
TTTAAATTTGACTTGCA
Found at i:7807863 original size:47 final size:47
Alignment explanation
Indices: 7807802--7807972 Score: 272
Period size: 47 Copynumber: 3.6 Consensus size: 47
7807792 AAAAAAAAAA
* *
7807802 TTGACTGGATATAGTTTCAAACAAAGAAAATGAGAAAGGAAAAACTT
1 TTGACTGGTTATAGTTTCAAACAAAGAAAACGAGAAAGGAAAAACTT
*
7807849 TTGACTGGTTATAGTTTCAAACAAAGAAAACGAGAGAGGAAAAACTT
1 TTGACTGGTTATAGTTTCAAACAAAGAAAACGAGAAAGGAAAAACTT
* *
7807896 TTGACTGGTTATAGTTTCAAACAGAGAAAACGGGACAA-GAAAAACTT
1 TTGACTGGTTATAGTTTCAAACAAAGAAAACGAGA-AAGGAAAAACTT
*
7807943 TTGACTAGTTATAGTTTCAAACAAAGAAAA
1 TTGACTGGTTATAGTTTCAAACAAAGAAAA
7807973 TGGAAGAAGA
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 114 0.99
48 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.25
Consensus pattern (47 bp):
TTGACTGGTTATAGTTTCAAACAAAGAAAACGAGAAAGGAAAAACTT
Found at i:7810975 original size:14 final size:14
Alignment explanation
Indices: 7810956--7810982 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7810946 AACTACCATC
7810956 CTAGACAATCTTCT
1 CTAGACAATCTTCT
7810970 CTAGACAATCTTC
1 CTAGACAATCTTC
7810983 ACAGTCAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (14 bp):
CTAGACAATCTTCT
Found at i:7828631 original size:28 final size:28
Alignment explanation
Indices: 7828589--7828649 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
7828579 ATACGGATAC
*
7828589 CATAACCTAAAGCTTGTGTGAGCCATTT
1 CATAACCTAAAGCTTGTGTAAGCCATTT
*
7828617 CATAACCTAAGGCTTGTGTAAGCCATTT
1 CATAACCTAAAGCTTGTGTAAGCCATTT
7828645 CATAA
1 CATAA
7828650 ATAAAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (28 bp):
CATAACCTAAAGCTTGTGTAAGCCATTT
Found at i:7828660 original size:28 final size:28
Alignment explanation
Indices: 7828589--7828663 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
7828579 ATACGGATAC
* * *
7828589 CATAACCTAAAGCTTGTGTGAGCCATTT
1 CATAACATAAAACTTGTGTAAGCCATTT
* **
7828617 CATAACCTAAGGCTTGTGTAAGCCATTT
1 CATAACATAAAACTTGTGTAAGCCATTT
7828645 CATAA-ATAAAAACTTGTGT
1 CATAACAT-AAAACTTGTGT
7828664 GGGCAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (28 bp):
CATAACATAAAACTTGTGTAAGCCATTT
Found at i:7828915 original size:22 final size:22
Alignment explanation
Indices: 7828890--7828931 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7828880 TGGATGGTAT
7828890 AATATGCTATAT-TGAATGGTTG
1 AATATG-TATATGTGAATGGTTG
*
7828912 AATATGTATATGTGATTGGT
1 AATATGTATATGTGAATGGT
7828932 ATTATGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (22 bp):
AATATGTATATGTGAATGGTTG
Found at i:7832191 original size:4 final size:4
Alignment explanation
Indices: 7832182--7832211 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
7832172 TGGTTTATAT
7832182 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
7832212 GTTGGTGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:7837295 original size:12 final size:12
Alignment explanation
Indices: 7837278--7837328 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
7837268 ACTTAATCAC
7837278 TTTAATATTAAA
1 TTTAATATTAAA
*
7837290 TTTAAT-CTAATA
1 TTTAATATTAA-A
*
7837302 TTTATTAGATTAAA
1 TTTA--ATATTAAA
7837316 TTTAATATTAAA
1 TTTAATATTAAA
7837328 T
1 T
7837329 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 3 0.10
12 19 0.61
14 6 0.19
15 3 0.10
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:7837307 original size:21 final size:21
Alignment explanation
Indices: 7837283--7837324 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7837273 ATCACTTTAA
*
7837283 TATTAAATTTAATCTAATATT
1 TATTAAATTAAATCTAATATT
* *
7837304 TATTAGATTAAATTTAATATT
1 TATTAAATTAAATCTAATATT
7837325 AAATCTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TATTAAATTAAATCTAATATT
Found at i:7839565 original size:11 final size:11
Alignment explanation
Indices: 7839551--7839598 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
7839541 ATTAATCATT
7839551 TAATAATAAAA
1 TAATAATAAAA
7839562 TAATAATAAAAA
1 TAATAAT-AAAA
*
7839574 TATTAATAAAA
1 TAATAATAAAA
* *
7839585 TATTAATTAAA
1 TAATAATAAAA
7839596 TAA
1 TAA
7839599 CATTTATCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
11 23 0.70
12 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:7839575 original size:12 final size:12
Alignment explanation
Indices: 7839551--7839584 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7839541 ATTAATCATT
7839551 TAATAAT-AAAA
1 TAATAATAAAAA
7839562 TAATAATAAAAA
1 TAATAATAAAAA
*
7839574 TATTAATAAAA
1 TAATAATAAAA
7839585 TATTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
TAATAATAAAAA
Found at i:7839595 original size:12 final size:12
Alignment explanation
Indices: 7839557--7839595 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
7839547 CATTTAATAA
*
7839557 TAAAATAATAAT
1 TAAAATATTAAT
*
7839569 AAAAATATTAA-
1 TAAAATATTAAT
7839580 TAAAATATTAAT
1 TAAAATATTAAT
7839592 TAAA
1 TAAA
7839596 TAACATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:7844193 original size:12 final size:12
Alignment explanation
Indices: 7844176--7844205 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7844166 TTAGGCTGTT
*
7844176 ACACGGCTTAGC
1 ACACGGCCTAGC
7844188 ACACGGCCTAGC
1 ACACGGCCTAGC
7844200 ACACGG
1 ACACGG
7844206 GTGTGTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:7852897 original size:40 final size:38
Alignment explanation
Indices: 7852822--7852899 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 38
7852812 TTTTATCCTA
* * * *
7852822 AAAAAAGAATTTAAAAATAAGATAATCTTGTGTTGTTG
1 AAAAAAGAATTTAAAAAGAAGATAAACATGGGTTGTTG
7852860 AAAAAAGAATTTAAAAAGAGAAGATAAACATGGGTTGTTG
1 AAAAAAGAATTT-AAAA-AGAAGATAAACATGGGTTGTTG
7852900 GATTTACCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 12 0.35
39 4 0.12
40 18 0.53
ACGTcount: A:0.50, C:0.03, G:0.19, T:0.28
Consensus pattern (38 bp):
AAAAAAGAATTTAAAAAGAAGATAAACATGGGTTGTTG
Found at i:7854930 original size:25 final size:26
Alignment explanation
Indices: 7854893--7854948 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
7854883 TTTCCTCTCA
* *
7854893 TCATTCACTAACCTTTCATTTTCCC-
1 TCATTCACTAACCCTCCATTTTCCCT
7854918 TCATTCA-TAAACCCTCCATTTTCCCT
1 TCATTCACT-AACCCTCCATTTTCCCT
7854944 TCATT
1 TCATT
7854949 TAGTTAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.78
26 5 0.19
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (26 bp):
TCATTCACTAACCCTCCATTTTCCCT
Found at i:7856078 original size:14 final size:14
Alignment explanation
Indices: 7856059--7856098 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7856049 TTGTTTGATT
7856059 GAAAATGGTTTCCA
1 GAAAATGGTTTCCA
* *
7856073 GAAAATGATTTCTA
1 GAAAATGGTTTCCA
*
7856087 GAAAATAGTTTC
1 GAAAATGGTTTC
7856099 GGAAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (14 bp):
GAAAATGGTTTCCA
Found at i:7864004 original size:26 final size:25
Alignment explanation
Indices: 7863975--7864034 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
7863965 TATTAAATTA
*
7863975 AATATTTTTATTAAATTATATTTAAT
1 AATATTATT-TTAAATTATATTTAAT
*
7864001 AATAATTATTTTAAATTATATTTTAT
1 AAT-ATTATTTTAAATTATATTTAAT
*
7864027 ATTATTAT
1 AATATTAT
7864035 ATATTATGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
AATATTATTTTAAATTATATTTAAT
Found at i:7864051 original size:120 final size:120
Alignment explanation
Indices: 7863913--7864377 Score: 765
Period size: 120 Copynumber: 3.9 Consensus size: 120
7863903 ATTAAATTAT
* *
7863913 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTAAAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
* * * *
7863978 ATTTTTATTA-AATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATT
66 ATTTTAATTATAA-TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
*
7864033 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
*
7864098 ATTTTAATTA-AATTATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATC
66 ATTTTAATTATAA-TATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
7864153 ATATATTATGATTTGAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTAAATTATA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAATTATA
7864217 TATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
65 TATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
* * * *
7864273 ATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTGTAT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
7864338 ATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
7864378 ATGATTAAAT
Statistics
Matches: 329, Mismatches: 12, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
119 4 0.01
120 315 0.96
121 10 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATAT
ATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATC
Found at i:7864107 original size:18 final size:17
Alignment explanation
Indices: 7864081--7864115 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
7864071 AATATTAAGA
7864081 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
7864098 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
7864116 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:7864235 original size:16 final size:16
Alignment explanation
Indices: 7864214--7864260 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7864204 TTATTAAATT
7864214 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
7864230 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
7864245 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
7864261 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:7864360 original size:15 final size:16
Alignment explanation
Indices: 7864335--7864375 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
7864325 TATTAAATTG
*
7864335 TATATTTTAATTATAA
1 TATATTTTAATAATAA
7864351 TATA-TTTAATAATAA
1 TATATTTTAATAATAA
7864366 T-TATGTTTAA
1 TATAT-TTTAA
7864376 ATATGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATATTTTAATAATAA
Found at i:7864602 original size:45 final size:44
Alignment explanation
Indices: 7864519--7864609 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
7864509 ACCTCTATTC
7864519 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
* * *
7864563 CATTCAACCAAACA-ATTGATTTGCTGTTACGCCTCTATTCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCATTA
7864608 CA
1 CA
7864610 CCTCTAATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
Found at i:7864613 original size:16 final size:16
Alignment explanation
Indices: 7864589--7864641 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
7864579 TGATTTGCTG
*
7864589 TTACGCCTCTATTCCA
1 TTACACCTCTATTCCA
*
7864605 TTACACCTCTAATCCA
1 TTACACCTCTATTCCA
*
7864621 TTACGCCTCTATTCCA
1 TTACACCTCTATTCCA
*
7864637 ATACA
1 TTACA
7864642 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.36, G:0.04, T:0.34
Consensus pattern (16 bp):
TTACACCTCTATTCCA
Found at i:7869218 original size:14 final size:14
Alignment explanation
Indices: 7869199--7869226 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7869189 CGTAAAATAA
7869199 GGAAAATATTTTAC
1 GGAAAATATTTTAC
7869213 GGAAAATATTTTAC
1 GGAAAATATTTTAC
7869227 TGGCAAATGA
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:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:7870575 original size:33 final size:33
Alignment explanation
Indices: 7870538--7870601 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
7870528 TTATTCAAAG
* *
7870538 AATAAAGGGAAAATATTTAATAAAATAGAAAAA
1 AATAAAGAGAAAATATTGAATAAAATAGAAAAA
* *
7870571 AATAAAGATAAATTATTGAATAAAATAGAAA
1 AATAAAGAGAAAATATTGAATAAAATAGAAA
7870602 CATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (33 bp):
AATAAAGAGAAAATATTGAATAAAATAGAAAAA
Found at i:7872897 original size:84 final size:84
Alignment explanation
Indices: 7872792--7873403 Score: 944
Period size: 84 Copynumber: 7.3 Consensus size: 84
7872782 AAGGACCCCA
* * * * * *
7872792 GTGGAATCAGCACTTTGCAACCACCTTATAATTAATTATACGGGGAATCAGTACATAGCAACCAC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
*
7872857 TTTCACAATCAAGGATACA
66 TTTCACAATCAAGGATACG
*
7872876 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
* *
7872941 TTTTACAGTCAAGGATACG
66 TTTCACAATCAAGGATACG
* * *
7872960 GTGGAATCAACACTTAGCAACCACCTTATAATCAATGATACAAGGAATTAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
7873025 -TTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
*
7873043 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
*
7873108 TTTCACAATCAAGGATACA
66 TTTCACAATCAAGGATACG
* *
7873127 GTGGAATCAGCACTTAGCAACCACCTTATAATCTATGATACAGGGAATCAGCACATAGCAACCCA
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
7873192 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
* *
7873211 GTGGAACCAGCACTTAGCAACCACTTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
7873276 TTTCACAATCAAGGATACG
66 TTTCACAATCAAGGATACG
* * *
7873295 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATTAGCACATAGCAACTCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
*** * *
7873360 TTT-TTGATCAATGATTCG
66 TTTCACAATCAAGGATACG
*
7873378 G-GGAATCTGCACTTAGCAACC-CCTTA
1 GTGGAATCAGCACTTAGCAACCACCTTA
7873404 CATTCAAAGA
Statistics
Matches: 489, Mismatches: 38, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
81 5 0.01
82 19 0.04
83 88 0.18
84 377 0.77
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.23
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACG
Found at i:7873242 original size:251 final size:252
Alignment explanation
Indices: 7872792--7873362 Score: 973
Period size: 251 Copynumber: 2.3 Consensus size: 252
7872782 AAGGACCCCA
* * * * *
7872792 GTGGAATCAGCACTTTGCAACCACCTTATAATTAATTATACGGGGAATCAGTACATAGCAACCAC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
*
7872857 TTTCACAATCAAGGATACAGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGA
66 TTTCACAATCAAGGATACAGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGA
* * * *
7872922 ATCAGCACATAGCAACCCCTTTTACAGTCAAGGATACGGTGGAATCAACACTTAGCAACCACCTT
131 ATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGTGGAACCAACACTTAGCAACCACCTT
*
7872987 ATAATCAATGATACAAGGAATTAGCACATAGCAACCCC-TTCACAATCAAGGATACG
196 ATAATCAATGATACAAGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
*
7873043 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACTGGGAATCAGCACATAGCAACCCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
*
7873108 TTTCACAATCAAGGATACAGTGGAATCAGCACTTAGCAACCACCTTATAATCTATGATACAGGGA
66 TTTCACAATCAAGGATACAGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGA
* *
7873173 ATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGTGGAACCAGCACTTAGCAACCACTTT
131 ATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGTGGAACCAACACTTAGCAACCACCTT
*
7873238 ATAATCAATGATACAGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
196 ATAATCAATGATACAAGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
* *
7873295 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATTAGCACATAGCAACTCC
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
7873360 TTT
66 TTT
7873363 TTGATCAATG
Statistics
Matches: 300, Mismatches: 19, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
251 217 0.72
252 83 0.28
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (252 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAGGATACAGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGA
ATCAGCACATAGCAACCCATTTCACAATCAAGGATACGGTGGAACCAACACTTAGCAACCACCTT
ATAATCAATGATACAAGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACG
Found at i:7875053 original size:20 final size:19
Alignment explanation
Indices: 7875018--7875055 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
7875008 ATCAATTAAA
*
7875018 AAATAATTATAGATAATAC
1 AAATAATTATAAATAATAC
7875037 AAATAATATATAAATAATA
1 AAATAAT-TATAAATAATA
7875056 TTTAATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AAATAATTATAAATAATAC
Found at i:7876593 original size:30 final size:30
Alignment explanation
Indices: 7876559--7876621 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
7876549 TCTTAGCAAT
* *
7876559 AAATTTTGGAGGTATCTAATTAAAATTTCA
1 AAATTTTGAAGGTATCTAATGAAAATTTCA
* * *
7876589 AAATTTTTAAGGTGTTTAATGAAAATTTCA
1 AAATTTTGAAGGTATCTAATGAAAATTTCA
7876619 AAA
1 AAA
7876622 AATATTGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.40
Consensus pattern (30 bp):
AAATTTTGAAGGTATCTAATGAAAATTTCA
Found at i:7878851 original size:23 final size:22
Alignment explanation
Indices: 7878825--7878868 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7878815 AAATTTCATA
*
7878825 GTTAAGAAAATTTATTTATTTTC
1 GTTAAGAAAA-TTAATTATTTTC
**
7878848 GTTATTAAAATTAATTATTTT
1 GTTAAGAAAATTAATTATTTT
7878869 TATAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (22 bp):
GTTAAGAAAATTAATTATTTTC
Found at i:7884961 original size:27 final size:28
Alignment explanation
Indices: 7884904--7884968 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
7884894 ATAAAAAATA
*
7884904 ACCAAAATATTATAACTTTTTTTTATAT
1 ACCAAAATATTATAACATTTTTTTATAT
*
7884932 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATAT
7884959 ACCAAAATAT
1 ACCAAAATAT
7884969 ACTAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATAT
Found at i:7885410 original size:19 final size:19
Alignment explanation
Indices: 7885386--7885451 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
7885376 ATTAAAATAG
7885386 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
7885405 TTTAATGTAATAAAT-TAT
1 TTTAATTTAATAACTCTAT
* *
7885423 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
7885442 TTTAATTTAA
1 TTTAATTTAA
7885452 AAAAATAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:7885558 original size:82 final size:82
Alignment explanation
Indices: 7885462--7885612 Score: 302
Period size: 82 Copynumber: 1.8 Consensus size: 82
7885452 AAAAATAAAT
7885462 TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
1 TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
7885527 ACTAAATAATGGAAACA
66 ACTAAATAATGGAAACA
7885544 TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
1 TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
7885609 ACTA
66 ACTA
7885613 TTTTAATTAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (82 bp):
TAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAACATAAACATGTTAG
ACTAAATAATGGAAACA
Found at i:7885720 original size:18 final size:19
Alignment explanation
Indices: 7885681--7885776 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
7885671 ATTTTATATT
7885681 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
7885700 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
7885718 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
7885737 TTAAATGAGAATA-ATTTA
1 TTAAATGAAAATAGAGTTA
*
7885755 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
7885774 TTA
1 TTA
7885777 CTTAATTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:7885722 original size:37 final size:37
Alignment explanation
Indices: 7885681--7885776 Score: 174
Period size: 37 Copynumber: 2.6 Consensus size: 37
7885671 ATTTTATATT
* *
7885681 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
7885718 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
7885755 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
7885777 CTTAATTAGA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAATTTA
Found at i:7886475 original size:27 final size:27
Alignment explanation
Indices: 7886445--7886505 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
7886435 ATTTTTTGGT
7886445 ATATTTTAATAAATAAAAAAAATTATA
1 ATATTTTAATAAATAAAAAAAATTATA
** * *
7886472 ATATTTTGGTGAATAAAAAAAGTTATA
1 ATATTTTAATAAATAAAAAAAATTATA
7886499 ATATTTT
1 ATATTTT
7886506 GGTTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATTTTAATAAATAAAAAAAATTATA
Found at i:7886506 original size:27 final size:27
Alignment explanation
Indices: 7886456--7886508 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
7886446 TATTTTAATA
7886456 AATAAAAAAAATTATAATATTTTGGTG
1 AATAAAAAAAATTATAATATTTTGGTG
*
7886483 AATAAAAAAAGTTATAATATTTTGGT
1 AATAAAAAAAATTATAATATTTTGGT
7886509 TATTTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (27 bp):
AATAAAAAAAATTATAATATTTTGGTG
Found at i:7894538 original size:48 final size:44
Alignment explanation
Indices: 7894486--7894602 Score: 112
Period size: 43 Copynumber: 2.6 Consensus size: 44
7894476 TTACATATTT
* *
7894486 AAAATATTGAAATATTATTATTTCATTGAATGAAAACCAAATGAAATA
1 AAAATATTGAAATATT-TTATTTAATT---TGAAAACAAAATGAAATA
** * *
7894534 AAAATATAAAAATA-TTTATTTAATTTGAAAATAAAATGAATTA
1 AAAATATTGAAATATTTTATTTAATTTGAAAACAAAATGAAATA
*
7894577 AAAATA-TGCAAATATTTTATTAAATT
1 AAAATATTG-AAATATTTTATTTAATT
7894603 AAATATTTTT
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
43 26 0.45
44 10 0.17
46 9 0.16
47 1 0.02
48 12 0.21
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (44 bp):
AAAATATTGAAATATTTTATTTAATTTGAAAACAAAATGAAATA
Found at i:7902518 original size:46 final size:46
Alignment explanation
Indices: 7902451--7902543 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
7902441 CGGGTAAAAA
*
7902451 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGCAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
7902497 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
1 TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
7902543 T
1 T
7902544 ATATGATTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (46 bp):
TTGTAAATGAAAAGGTGATGATATATCAAATGTTGGAAAAATAATG
Found at i:7904453 original size:6 final size:6
Alignment explanation
Indices: 7904442--7904469 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7904432 AAAAAATACA
7904442 TTCAAT TTCAAT TTCAAT TTCAAT TTCA
1 TTCAAT TTCAAT TTCAAT TTCAAT TTCA
7904470 TGTTAATCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCAAT
Found at i:7927156 original size:14 final size:14
Alignment explanation
Indices: 7927137--7927168 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7927127 CTTTCTTTAT
7927137 TTTATGTGGAAAAC
1 TTTATGTGGAAAAC
*
7927151 TTTATGTGGAAAAT
1 TTTATGTGGAAAAC
7927165 TTTA
1 TTTA
7927169 AATTTGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (14 bp):
TTTATGTGGAAAAC
Found at i:7930247 original size:27 final size:27
Alignment explanation
Indices: 7930216--7930552 Score: 320
Period size: 27 Copynumber: 12.5 Consensus size: 27
7930206 GTATAACTAA
7930216 CATTTTACCCTATGGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * **
7930243 TATTTTACACTATAGGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
7930270 CATTTTACCCTATGGAGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
7930297 TATTTTACCCTATGGGGGTATTTCATT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
7930324 CATTTTACCCTGTGGGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
* * *
7930351 TATTTTACCCTGTGGGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
7930378 CATTTTACCCTATAGGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
* * * *
7930405 CATTTTATCGTGTGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* ** * *
7930432 TATTTTACCCTGCGGGTGTATTTCAAT
1 CATTTTACCCTATGGGGGTATTTCAGT
** **
7930459 CATTTTACCCCGTAAGGGTATTTC-GAT
1 CATTTTACCCTATGGGGGTATTTCAG-T
* * * * *
7930486 CATTTTATCCTGTGGAGATATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
7930513 CATTTTACCCTATAGGGGTACTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
7930540 CATTTTACCCTAT
1 CATTTTACCCTAT
7930553 TTTGGGGTTT
Statistics
Matches: 250, Mismatches: 54, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.00
27 246 0.98
28 3 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCAGT
Found at i:7930329 original size:81 final size:80
Alignment explanation
Indices: 7930216--7930552 Score: 374
Period size: 81 Copynumber: 4.2 Consensus size: 80
7930206 GTATAACTAA
* * * * *
7930216 CATTTTACCCTATGGGGGTATTTC-AGTTATTTTA-CACTATAGGGGTATTTTGGTCATTTTACC
1 CATTTTACCCTATAGGGGTATTTCGA-TCATTTTATC-CTGTGGGGGTATTTCGGTCATTTTACC
*
7930279 CTATGGAGGTATTTCGGT
64 CTATGG-GGTATTTCAGT
* * * * *
7930297 TATTTTACCCTATGGGGGTATTTC-ATTCATTTTACCCTGTGGGGGTATTTCGATTATTTTACCC
1 CATTTTACCCTATAGGGGTATTTCGA-TCATTTTATCCTGTGGGGGTATTTCGGTCATTTTACCC
* *
7930361 TGTGGGGGTATTTTAGT
65 TAT-GGGGTATTTCAGT
* *
7930378 CATTTTACCCTATAGGGGTATTTCGATCATTTTATCGTGTGGGGGTATTTCGGTTATTTTACCCT
1 CATTTTACCCTATAGGGGTATTTCGATCATTTTATCCTGTGGGGGTATTTCGGTCATTTTACCCT
** *
7930443 GCGGGTGTATTTCAAT
66 ATGGG-GTATTTCAGT
** * * *
7930459 CATTTTACCCCGTAAGGGTATTTCGATCATTTTATCCTGTGGAGATATTTCGGTCATTTTACCCT
1 CATTTTACCCTATAGGGGTATTTCGATCATTTTATCCTGTGGGGGTATTTCGGTCATTTTACCCT
*
7930524 ATAGGGGTACTTCAGT
66 AT-GGGGTATTTCAGT
7930540 CATTTTACCCTAT
1 CATTTTACCCTAT
7930553 TTTGGGGTTT
Statistics
Matches: 219, Mismatches: 32, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
80 3 0.01
81 209 0.95
82 7 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (80 bp):
CATTTTACCCTATAGGGGTATTTCGATCATTTTATCCTGTGGGGGTATTTCGGTCATTTTACCCT
ATGGGGTATTTCAGT
Found at i:7945020 original size:16 final size:17
Alignment explanation
Indices: 7944994--7945025 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7944984 TAAATGTTAC
7944994 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAT
7945011 GTGA-TATATGCTTAA
1 GTGATTATATGCTTAA
7945026 AAGTGAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (17 bp):
GTGATTATATGCTTAAT
Found at i:7945026 original size:39 final size:39
Alignment explanation
Indices: 7944769--7945023 Score: 357
Period size: 39 Copynumber: 6.5 Consensus size: 39
7944759 AACATGTATT
* * *
7944769 TGAGTATTATAATAAATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
7944808 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
7944847 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
*
7944886 TGAGTATTGTAATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * **
7944925 TGAGTATTGTGATATATGCTTAAATATTATGTGAAAATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* * * * *
7944964 TGAGTGTTGTGGTATTTGCTTAAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
** *
7945003 TGCTTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
7945024 AAAAGTGAAC
Statistics
Matches: 192, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 192 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:7945031 original size:17 final size:17
Alignment explanation
Indices: 7944994--7945031 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7944984 TAAATGTTAC
*
7944994 GTGATTATATGCTTAAT
1 GTGATTATATGCTTAAA
7945011 GTGA-TATATGCTTAAAA
1 GTGATTATATGCTT-AAA
7945028 GTGA
1 GTGA
7945032 ACGTGATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.39
Consensus pattern (17 bp):
GTGATTATATGCTTAAA
Found at i:7948277 original size:35 final size:35
Alignment explanation
Indices: 7948236--7948323 Score: 140
Period size: 37 Copynumber: 2.5 Consensus size: 35
7948226 GTTTTTATGG
7948236 ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
1 ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
7948271 ATTTTTTTTTAAAAACTACAATTCCACAAAACACGAT
1 A--TTTTTTTAAAAACTACAATTCCACAAAACACGAT
* *
7948308 GTTTTTCTAAAAACTA
1 ATTTTTTTAAAAACTA
7948324 ATGTTTTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
35 15 0.31
37 34 0.69
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (35 bp):
ATTTTTTTAAAAACTACAATTCCACAAAACACGAT
Found at i:7948278 original size:37 final size:37
Alignment explanation
Indices: 7948237--7948313 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
7948227 TTTTTATGGA
7948237 TTTTTTTAAAAACTACAATTCCACAAAACACGATATT
1 TTTTTTTAAAAACTACAATTCCACAAAACACGATATT
*
7948274 TTTTTTTAAAAACTACAATTCCACAAAACACGATGTT
1 TTTTTTTAAAAACTACAATTCCACAAAACACGATATT
7948311 TTT
1 TTT
7948314 CTAAAAACTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (37 bp):
TTTTTTTAAAAACTACAATTCCACAAAACACGATATT
Found at i:7950427 original size:78 final size:78
Alignment explanation
Indices: 7950298--7950454 Score: 305
Period size: 78 Copynumber: 2.0 Consensus size: 78
7950288 GAGGTGATTG
*
7950298 TACTGAGCCCGCTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
1 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
7950363 CAAGAGACGGTAT
66 CAAGAGACGGTAT
7950376 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
1 TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
7950441 CAAGAGACGGTAT
66 CAAGAGACGGTAT
7950454 T
1 T
7950455 TCTGGCTGAT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (78 bp):
TACTGAGCCCACTGGGGCAATCTTTTAGAGTTAGCAAACTGTAAAGGGATGTTCCTTTAGAGGTT
CAAGAGACGGTAT
Found at i:7956642 original size:8 final size:8
Alignment explanation
Indices: 7956629--7956662 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
7956619 CACTCACATC
7956629 GTTTATTT
1 GTTTATTT
7956637 GTTTATTT
1 GTTTATTT
7956645 GTTTATTT
1 GTTTATTT
*
7956653 GTTTGTTT
1 GTTTATTT
7956661 GT
1 GT
7956663 ATGTTAGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (8 bp):
GTTTATTT
Found at i:7958053 original size:21 final size:21
Alignment explanation
Indices: 7958029--7958069 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7958019 TCTTAATTGT
*
7958029 TAAAATTTTTTGAGATTTTTC
1 TAAAATTTTTTGAAATTTTTC
*
7958050 TAAATTTTTTTGAAATTTTT
1 TAAAATTTTTTGAAATTTTT
7958070 TTATATTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
TAAAATTTTTTGAAATTTTTC
Found at i:7958058 original size:11 final size:11
Alignment explanation
Indices: 7958034--7958071 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7958024 ATTGTTAAAA
*
7958034 TTTTTTGAGAT
1 TTTTTTGAAAT
*
7958045 TTTTCT-AAAT
1 TTTTTTGAAAT
7958055 TTTTTTGAAAT
1 TTTTTTGAAAT
7958066 TTTTTT
1 TTTTTT
7958072 ATATTCTCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTTGAAAT
Found at i:7958950 original size:24 final size:22
Alignment explanation
Indices: 7958923--7958996 Score: 53
Period size: 24 Copynumber: 3.3 Consensus size: 22
7958913 TTAAAAATTA
7958923 AATTATAACTATTTTTAAATGTGT
1 AATTATAACTATTTTT-AATGT-T
* * * *
7958947 AATTGTCACAATTTTT-AT-TA
1 AATTATAACTATTTTTAATGTT
*
7958967 AATTATAATTATTTTTAGATGTAT
1 AATTATAACTATTTTTA-ATGT-T
7958991 AATTAT
1 AATTAT
7958997 CAAAACTTCT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
20 12 0.32
21 1 0.03
22 4 0.11
23 1 0.03
24 19 0.51
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (22 bp):
AATTATAACTATTTTTAATGTT
Found at i:7961130 original size:41 final size:41
Alignment explanation
Indices: 7961050--7961201 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
7961040 ATCGGAGTGT
* * * * *
7961050 AAACAGGGACACTTATGTGCAATTCAGGGGTATCAAAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
*
7961091 AAAGAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
* * * * * *
7961132 AAATAGTGGCACATATCTGTAATTTAGGGGTACCGGAGTAC
1 AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
* * *
7961173 AAACAAGGGCACGTATGTGCAATTCAGGG
1 AAACAGGGGCACATATATGCAATTCAGGG
7961202 AATAATTAAC
Statistics
Matches: 92, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 92 1.00
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCACATATATGCAATTCAGGGGTACCGAAGTAC
Found at i:7967219 original size:21 final size:21
Alignment explanation
Indices: 7967195--7967234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7967185 GGACTAAATC
*
7967195 GAAAAT-TTATAGAATTTTTTA
1 GAAAATATTAAAG-ATTTTTTA
7967216 GAAAATATTAAAGATTTTT
1 GAAAATATTAAAGATTTTT
7967235 AAAACTGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
GAAAATATTAAAGATTTTTTA
Found at i:7976692 original size:32 final size:31
Alignment explanation
Indices: 7976650--7976848 Score: 96
Period size: 29 Copynumber: 6.6 Consensus size: 31
7976640 ACAGTCGAAG
*
7976650 CTATCCCTTTTCATAATTTTGATGGTCGTCA
1 CTATCCCTTTTCATAATTTTAATGGTCGTCA
* *
7976681 CTATCCCCTTTT-AT--TGTTAATGGTTGTCA
1 CTAT-CCCTTTTCATAATTTTAATGGTCGTCA
* *
7976710 CCATCCCTTTTCATAATTTGATAAT--T-G-GA
1 CTATCCCTTTTCATAATTT--TAATGGTCGTCA
* * * ** * *
7976739 GCTATCCTTTTTCATGA-TTCAACAGCCG-AA
1 -CTATCCCTTTTCATAATTTTAATGGTCGTCA
* * *
7976769 GCCATCCCTTTTCGTAATTTTGATGGTCGTCA
1 -CTATCCCTTTTCATAATTTTAATGGTCGTCA
* * * *
7976801 CCATCCCTTTTCAT--TGTTGATGGTCATCA
1 CTATCCCTTTTCATAATTTTAATGGTCGTCA
*
7976830 CCATCCCTTTTCATAATTT
1 CTATCCCTTTTCATAATTT
7976849 GATAGCCGAA
Statistics
Matches: 127, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
27 2 0.02
28 7 0.06
29 47 0.37
30 29 0.23
31 30 0.24
32 8 0.06
33 4 0.03
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (31 bp):
CTATCCCTTTTCATAATTTTAATGGTCGTCA
Found at i:7976718 original size:60 final size:60
Alignment explanation
Indices: 7976652--7976873 Score: 188
Period size: 60 Copynumber: 3.7 Consensus size: 60
7976642 AGTCGAAGCT
*
7976652 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCCTTTT-ATTGTTAATGGTTGTCACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTAT-CCCTTTTCATTGTTAATGGTCGTCACC
** * * * ** * *
7976712 ATCCCTTTTCATAA-TTTGATAATTG-GAGCTATCCTTTTTCA-TGATTCAACAGCCG-AAGCC
1 ATCCCTTTTCATAATTTTGATGGTCGTCA-CTATCCCTTTTCATTG-TT-AATGGTCGTCA-CC
* * * *
7976772 ATCCCTTTTCGTAATTTTGATGGTCGTCACCATCCCTTTTCATTGTTGATGGTCATCACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCTTTTCATTGTTAATGGTCGTCACC
* * *
7976832 ATCCCTTTTCATAA-TTTGATAGCCG-AAGCTATCCCTTTTCAT
1 ATCCCTTTTCATAATTTTGATGGTCGTCA-CTATCCCTTTTCAT
7976874 GAATCGACAG
Statistics
Matches: 124, Mismatches: 28, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
58 10 0.08
59 38 0.31
60 51 0.41
61 22 0.18
62 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTTGATGGTCGTCACTATCCCTTTTCATTGTTAATGGTCGTCACC
Found at i:7976805 original size:31 final size:30
Alignment explanation
Indices: 7976770--7976848 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
7976760 ACAGCCGAAG
*
7976770 CCATCCCTTTTCGTAATTTTGATGGTCGTCA
1 CCATCCCTTTTC-TAATTTTGATGGTCATCA
7976801 CCATCCCTTTTC--ATTGTTGATGGTCATCA
1 CCATCCCTTTTCTAATT-TTGATGGTCATCA
7976830 CCATCCCTTTTCATAATTT
1 CCATCCCTTTTC-TAATTT
7976849 GATAGCCGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.07
29 24 0.56
31 13 0.30
32 3 0.07
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (30 bp):
CCATCCCTTTTCTAATTTTGATGGTCATCA
Found at i:7976832 original size:120 final size:120
Alignment explanation
Indices: 7976619--7976904 Score: 387
Period size: 120 Copynumber: 2.4 Consensus size: 120
7976609 AGCTGAACTT
* * *
7976619 GCTATCCCTTTCCAT-AGTTCAACAGTCGAAGCTATCCCTTTTCATAATTTTGATGGTCGTCACT
1 GCTATCCCTTTTCATGA-TTCAACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACC
** ** *
7976683 ATCCCCTTTTATTGTTAATGGTTGTCACCATCCCTTTTCATAATTTGATAATTGGA
65 ATCCCCTTTTATTGTTAATGGTCATCACCATCCCTTTTCATAATTTGATAACCGAA
* * *
7976739 GCTATCCTTTTTCATGATTCAACAGCCGAAGCCATCCCTTTTCGTAATTTTGATGGTCGTCACCA
1 GCTATCCCTTTTCATGATTCAACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCA
* *
7976804 T-CCCTTTTCATTGTTGATGGTCATCACCATCCCTTTTCATAATTTGATAGCCGAA
66 TCCCCTTTT-ATTGTTAATGGTCATCACCATCCCTTTTCATAATTTGATAACCGAA
* * * *
7976859 GCTATCCCTTTTCATGAATCGACAGTTGAAGCCACCCCTTTTCATA
1 GCTATCCCTTTTCATGATTCAACAGTCGAAGCCATCCCTTTTCATA
7976905 GTTCGATCGC
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
119 7 0.05
120 136 0.94
121 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (120 bp):
GCTATCCCTTTTCATGATTCAACAGTCGAAGCCATCCCTTTTCATAATTTTGATGGTCGTCACCA
TCCCCTTTTATTGTTAATGGTCATCACCATCCCTTTTCATAATTTGATAACCGAA
Found at i:7977252 original size:9 final size:9
Alignment explanation
Indices: 7977238--7977264 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7977228 TAAAAATGAA
7977238 AATTCATGC
1 AATTCATGC
7977247 AATTCATGC
1 AATTCATGC
7977256 AATTCATGC
1 AATTCATGC
7977265 TTACCCCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCATGC
Found at i:7979775 original size:41 final size:41
Alignment explanation
Indices: 7979648--7979794 Score: 163
Period size: 41 Copynumber: 3.6 Consensus size: 41
7979638 ACCGGAGTGT
* *
7979648 AAACAAGGGCAC-TGATGTGCAATTTAGGGGTACTGAAGTAC
1 AAACAAGGGCACAT-ATGTACAATTTAGGGGTACCGAAGTAC
* * ** * * *
7979689 AAAAAAGGGCACGTATGTGTAATTCAGGGGTATCGAAGTAT
1 AAACAAGGGCACATATGTACAATTTAGGGGTACCGAAGTAC
*
7979730 AAACAGGGGCACATATGTACAATTTAGGGGTACCGAAGTAC
1 AAACAAGGGCACATATGTACAATTTAGGGGTACCGAAGTAC
*
7979771 AAAC-AGGGACATATATGTACAATT
1 AAACAAGGG-CACATATGTACAATT
7979795 CAAGGAATAA
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.03
41 84 0.95
42 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (41 bp):
AAACAAGGGCACATATGTACAATTTAGGGGTACCGAAGTAC
Found at i:8008922 original size:16 final size:16
Alignment explanation
Indices: 8008901--8008957 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
8008891 ATTGCAGTTC
8008901 TATTCCATTACAGCTT
1 TATTCCATTACAGCTT
**
8008917 TATTCCATT-CAATTT
1 TATTCCATTACAGCTT
* *
8008932 CTATTTCATTACAGCCT
1 -TATTCCATTACAGCTT
8008949 TATTCCATT
1 TATTCCATT
8008958 CACCCCAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 4 0.12
16 25 0.78
17 3 0.09
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.47
Consensus pattern (16 bp):
TATTCCATTACAGCTT
Found at i:8008942 original size:32 final size:32
Alignment explanation
Indices: 8008898--8008959 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
8008888 CTAATTGCAG
*
8008898 TTCTATTCCATTACAGCTTTATTCCATTCAAT
1 TTCTATTCCATTACAGCCTTATTCCATTCAAT
*
8008930 TTCTATTTCATTACAGCCTTATTCCATTCA
1 TTCTATTCCATTACAGCCTTATTCCATTCA
8008960 CCCCAACCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (32 bp):
TTCTATTCCATTACAGCCTTATTCCATTCAAT
Found at i:8010971 original size:4 final size:4
Alignment explanation
Indices: 8010962--8011247 Score: 563
Period size: 4 Copynumber: 71.5 Consensus size: 4
8010952 AAAATCTCCA
8010962 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
8011010 TATA TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8011058 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8011106 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8011154 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
8011202 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
8011248 AATGTTGGGA
Statistics
Matches: 280, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 280 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:8016468 original size:7 final size:7
Alignment explanation
Indices: 8016456--8016481 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8016446 ATCACATTTA
8016456 TCACTTG
1 TCACTTG
8016463 TCACTTG
1 TCACTTG
8016470 TCACTTG
1 TCACTTG
8016477 TCACT
1 TCACT
8016482 GATCAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (7 bp):
TCACTTG
Found at i:8016533 original size:51 final size:51
Alignment explanation
Indices: 8016457--8016626 Score: 272
Period size: 51 Copynumber: 3.4 Consensus size: 51
8016447 TCACATTTAT
* *
8016457 CACTTGTCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
8016508 CACTTATCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* *
8016559 CACTTATCA-ATTGTCACTTGTCACCGATCAGACAAGTGTAGCT-AAGCTAC
1 CACTTATCACA-TGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
*
8016609 CACTTATCACTTGTCACT
1 CACTTATCACATGTCACT
8016627 GATCAGAAGT
Statistics
Matches: 112, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
50 24 0.21
51 88 0.79
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
CACTTATCACATGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:8021899 original size:7 final size:7
Alignment explanation
Indices: 8021887--8021912 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8021877 ATCACATTTA
8021887 TCACTTG
1 TCACTTG
8021894 TCACTTG
1 TCACTTG
8021901 TCACTTG
1 TCACTTG
8021908 TCACT
1 TCACT
8021913 GATCAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (7 bp):
TCACTTG
Found at i:8021998 original size:43 final size:44
Alignment explanation
Indices: 8021895--8022006 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
8021885 TATCACTTGT
* *
8021895 CACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCGAC
8021939 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCGAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCGAC
*
8021982 CACTTATCACTTGTCACTAATCAGA
1 CACTTATCACTTGTCACTGATCAGA
8022007 AGTACTCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
43 30 0.46
44 35 0.54
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCGAC
Found at i:8029052 original size:18 final size:17
Alignment explanation
Indices: 8029008--8029060 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
8028998 GCAATAAGAA
8029008 AATATTTTGAAATTGAAT
1 AATATTTTGAAA-TGAAT
*
8029026 AACGA-TTTGTAAATGAAT
1 AA-TATTTTG-AAATGAAT
8029044 AATATTTTGGAAATGAA
1 AATATTTT-GAAATGAA
8029061 CGACACGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.03
18 23 0.79
19 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (17 bp):
AATATTTTGAAATGAAT
Found at i:8034722 original size:46 final size:44
Alignment explanation
Indices: 8034664--8034829 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 44
8034654 CCCATAAGCA
8034664 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTG
1 AACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATA-GTG
* *
8034710 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-CG
1 AACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCAT-AGTG
* ** *
8034757 AACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCAT-AGTG
*
8034803 AACTCGGACTCAACTCAACGAGTTCGG
1 AACTCGGACTCAACTCAACGAGCTCGG
8034830 ATGCCCAAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 54 0.53
47 26 0.26
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (44 bp):
AACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAGTG
Found at i:8034823 original size:93 final size:93
Alignment explanation
Indices: 8034664--8034834 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
8034654 CCCATAAGCA
** * *
8034664 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
8034729 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGCTCGGATGCCTAGTTACATCTCACG
* *
8034757 AACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
8034822 GAGTTCGGATGCC
66 GAGCTCGGATGCC
8034835 CAAATATTCT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACG
Found at i:8034849 original size:46 final size:47
Alignment explanation
Indices: 8034707--8034849 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 47
8034697 GCATCCATAG
* * * * *
8034707 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTA-TTCTAA
* * * *
8034755 -CGAACTCGGACTCAACTCAACGAGTTC-GA---ACATTTGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--ATTC-TAA
*
8034800 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATTCT-A
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATTCTAA
8034846 GTGA
1 GTGA
8034850 CATGTCACTT
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 3 0.04
46 33 0.45
47 28 0.38
48 3 0.04
50 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATTCTAA
Found at i:8037024 original size:30 final size:30
Alignment explanation
Indices: 8036972--8037064 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 30
8036962 TTATGGAGCA
8036972 AAGATAAGAAGAAAACC-GAATAAAGAAATCC
1 AAGAT-AG-AGAAAACCAGAATAAAGAAATCC
*
8037003 AAGATAGAGAAACCCAGAATAAAGAAATCC
1 AAGATAGAGAAAACCAGAATAAAGAAATCC
* * * * *
8037033 -AGAATAAAGAGATCCAGGATAAAGAAACCC
1 AAG-ATAGAGAAAACCAGAATAAAGAAATCC
8037063 AA
1 AA
8037065 TATACGATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.17
30 38 0.72
31 6 0.11
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGATAGAGAAAACCAGAATAAAGAAATCC
Found at i:8037028 original size:15 final size:15
Alignment explanation
Indices: 8036980--8037059 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
8036970 CAAAGATAAG
*
8036980 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
8036994 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
8037009 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
8037024 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
8037039 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
8037054 AAGAAA
1 AAGAAA
8037060 CCCAATATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:8040048 original size:46 final size:44
Alignment explanation
Indices: 8039989--8040155 Score: 160
Period size: 46 Copynumber: 3.6 Consensus size: 44
8039979 GCCCATAAGC
8039989 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGCGTT-GCATCCATA-GT
* *
8040035 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTGCATCCAT-AGT
* ** *
8040082 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGGC-GTTGCATCCAT-AGT
*
8040128 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
8040156 ATGCCCAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 55 0.54
47 26 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCGTTGCATCCATAGT
Found at i:8040147 original size:93 final size:93
Alignment explanation
Indices: 8039988--8040160 Score: 283
Period size: 93 Copynumber: 1.9 Consensus size: 93
8039978 CGCCCATAAG
** * *
8039988 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
8040053 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
8040081 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
8040146 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
8040161 CAAATATTCT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:8040175 original size:46 final size:47
Alignment explanation
Indices: 8040033--8040175 Score: 118
Period size: 46 Copynumber: 3.1 Consensus size: 47
8040023 GCATCCATAG
* * * * *
8040033 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTA-TTCTAA
* * * *
8040081 -CGAACTCGGACTCAACTCAACGAGTTC-GA---ACATTTGCATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATT--ATTC-TAA
*
8040126 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATTCT-A
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATTCTAA
8040172 GTGA
1 GTGA
8040176 CATGTCACTT
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 3 0.04
46 33 0.45
47 28 0.38
48 3 0.04
50 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (47 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATTATTCTAA
Found at i:8042368 original size:24 final size:24
Alignment explanation
Indices: 8042337--8042390 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
8042327 GACTTTGAAA
*
8042337 AATTATTAAACATTGTATACAAAT
1 AATTATTAAAAATTGTATACAAAT
8042361 AATTATTAAAAATTGTATACAAAT
1 AATTATTAAAAATTGTATACAAAT
8042385 AATTAT
1 AATTAT
8042391 GGGTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (24 bp):
AATTATTAAAAATTGTATACAAAT
Found at i:8044828 original size:32 final size:33
Alignment explanation
Indices: 8044753--8044830 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
8044743 CACACGGCCG
** * *
8044753 TGTGGGCCACACAGGCTGGGTTATTTGGGGATA
1 TGTGGGCCACACAGGCTGGGCCAGTTGAGGATA
*
8044786 TGTGGACCACACAGGCTGGGCCAGTT-AGG-TCA
1 TGTGGGCCACACAGGCTGGGCCAGTTGAGGAT-A
8044818 TGTGGGCCACACA
1 TGTGGGCCACACA
8044831 AGGGTAAACC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.03
32 15 0.39
33 22 0.58
ACGTcount: A:0.21, C:0.22, G:0.36, T:0.22
Consensus pattern (33 bp):
TGTGGGCCACACAGGCTGGGCCAGTTGAGGATA
Found at i:8045749 original size:66 final size:66
Alignment explanation
Indices: 8045664--8045806 Score: 218
Period size: 66 Copynumber: 2.2 Consensus size: 66
8045654 TTTTTTAAAT
* * *
8045664 TGCAAACCTATATGGTTTTACAAACTAAATCACGATTTTCAAATTTAAGAACTCA-AAACTTTTC
1 TGCAAAACTATATGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAA-TTTTC
8045728 GC
65 GC
*
8045730 TGCAAAACTATCTGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
1 TGCAAAACTATATGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
*
8045795 T
66 C
8045796 TGCAAAA-TATA
1 TGCAAAACTATA
8045807 GTATTCACTT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
65 3 0.04
66 64 0.91
67 3 0.04
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (66 bp):
TGCAAAACTATATGATTTTACAAACTAAATCACAATTTTCAAATTTAAGAACTCATAAATTTTCG
C
Found at i:8054385 original size:15 final size:15
Alignment explanation
Indices: 8054365--8054421 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
8054355 TATATTAGAT
8054365 AATTAAATAATTAAG
1 AATTAAATAATTAAG
* * *
8054380 AATTAATTAAATAAA
1 AATTAAATAATTAAG
8054395 ATATTAAAATAATT-AG
1 A-ATT-AAATAATTAAG
8054411 AATT-AATAATT
1 AATTAAATAATT
8054422 TTAGGTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
13 7 0.21
15 16 0.47
16 5 0.15
17 6 0.18
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AATTAAATAATTAAG
Found at i:8056650 original size:17 final size:18
Alignment explanation
Indices: 8056618--8056652 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8056608 CCAAGAAGTT
*
8056618 CACTCGTGTGGGCCCACA
1 CACTCGAGTGGGCCCACA
8056636 CACTCGAGT-GGCCCACA
1 CACTCGAGTGGGCCCACA
8056653 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.40, G:0.26, T:0.14
Consensus pattern (18 bp):
CACTCGAGTGGGCCCACA
Found at i:8058972 original size:36 final size:36
Alignment explanation
Indices: 8058925--8059006 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 36
8058915 TTGTGAACCA
* * * *
8058925 TGTTAACTTGGTGAAT-TATATTATTATGGCAAACTG
1 TGTTAATTTGGTG-ATCTATATTAATACGGAAAACTG
8058961 TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
1 TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
*
8058997 TATTAATTTG
1 TGTTAATTTG
8059007 TCAAACTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 2 0.05
36 38 0.95
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
Found at i:8061888 original size:33 final size:31
Alignment explanation
Indices: 8061824--8061889 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 31
8061814 AACTGGAAAG
8061824 AAACTAAAAATAAAACTAAAATATTATTCTA
1 AAACTAAAAATAAAACTAAAATATTATTCTA
* *
8061855 AAACTAAGAATAGAAACCTAACAT-TTGATTCTA
1 AAACTAAAAATA-AAA-CTAAAATATT-ATTCTA
8061888 AA
1 AA
8061890 TTGAACCCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 11 0.37
32 5 0.17
33 14 0.47
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (31 bp):
AAACTAAAAATAAAACTAAAATATTATTCTA
Found at i:8068009 original size:51 final size:51
Alignment explanation
Indices: 8067928--8068142 Score: 286
Period size: 51 Copynumber: 4.2 Consensus size: 51
8067918 GTGGGCAGTC
*
8067928 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCGTACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * *
8067979 GATTATGTAAAGTTATATATATGAATTGTGAATGCAAGATATGTGCATACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * * **
8068030 GATTTTGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGTGTACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
* * * * *
8068081 AATTATGTAAAGTTCTATCTGTGAATTGTGAATGCAAGGTTTGTGCATACT
1 AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
8068132 AATTATGTAAA
1 AATTATGTAAA
8068143 AATTTTATGT
Statistics
Matches: 142, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 142 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.37
Consensus pattern (51 bp):
AATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACT
Done.