Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 98 of 235
Found at i:33761980 original size:147 final size:147
Alignment explanation
Indices: 33761713--33762006 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 147
33761703 CACCAATATC
33761713 ATCATAGAGATTAGTATCTATAGCTAAAGGTAGAGGTAGGGGATCTGGTAGAGGTGGTTTGGTTT
1 ATCATAGAGATTAGTATCTATAGCTAAAGGTAGAGGTAGGGGATCTGGTAGAGGTGGTTTGGTTT
33761778 CTAGAGGAGGTGGAGTTAAAAGAAGCAATGACATTGTTAGCCAGCAATTTGAGGCCAGAGTACCA
66 CTAGAGGAGGTGGAGTTAAAAGAAGCAATGACATTGTTAGCCAGCAATTTGAGGCCAGAGTACCA
33761843 ACCAGAGCTTATGTGAT
131 ACCAGAGCTTATGTGAT
33761860 ATCATAGAGATTAGTATCTATAGCTAAAGGTAGAGGTAGGGGATCTGGTAGAGGTGGTTTGGTTT
1 ATCATAGAGATTAGTATCTATAGCTAAAGGTAGAGGTAGGGGATCTGGTAGAGGTGGTTTGGTTT
33761925 CTAGAGGAGGTGGAGTTAAAAGAAGCAATGACATTGTTAGCCAGCAATTTGAGGCCAGAGTACCA
66 CTAGAGGAGGTGGAGTTAAAAGAAGCAATGACATTGTTAGCCAGCAATTTGAGGCCAGAGTACCA
*
33761990 GCCAGAGCTTATGTGAT
131 ACCAGAGCTTATGTGAT
33762007 CAGAACACGT
Statistics
Matches: 146, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 146 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (147 bp):
ATCATAGAGATTAGTATCTATAGCTAAAGGTAGAGGTAGGGGATCTGGTAGAGGTGGTTTGGTTT
CTAGAGGAGGTGGAGTTAAAAGAAGCAATGACATTGTTAGCCAGCAATTTGAGGCCAGAGTACCA
ACCAGAGCTTATGTGAT
Found at i:33765924 original size:24 final size:24
Alignment explanation
Indices: 33765871--33765927 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
33765861 ATATTGGTAC
* *
33765871 ATTTATAATTTAAATACTCAAATT
1 ATTTATAATTTAAATACTAAAATA
*
33765895 ACTTATAATTTAAATA-TAAAGATA
1 ATTTATAATTTAAATACTAAA-ATA
33765919 ATTTATAAT
1 ATTTATAAT
33765928 AATTAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
ATTTATAATTTAAATACTAAAATA
Found at i:33767444 original size:71 final size:71
Alignment explanation
Indices: 33767365--33767644 Score: 533
Period size: 71 Copynumber: 3.9 Consensus size: 71
33767355 TTAGCAAAAG
* * *
33767365 TTTTATATGAACTTATGATTATATTATAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
1 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
33767430 ATATGA
66 ATATGA
33767436 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
1 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
33767501 ATATGA
66 ATATGA
33767507 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
1 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
33767572 ATATGA
66 ATATGA
33767578 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
1 TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
33767643 AT
66 AT
33767645 CTAATTATCT
Statistics
Matches: 206, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 206 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (71 bp):
TTTTATATGTACTTATAATTATATTACAACATGTTCGATAATTATTTAAATATTAATCGTAAATT
ATATGA
Found at i:33770658 original size:44 final size:42
Alignment explanation
Indices: 33770610--33770766 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 42
33770600 TGTGTTTTTG
33770610 TGTAAGACCATGTCTGGGACATTGGCATCGACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGATTTACA
** *
33770654 TGTAAGACCATGTCTGGGACATCAGCATCGTATTTGATTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGATTTACA
* * *
33770696 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTG-GTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG--ATTTGATTTACA
* *
33770739 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
33770767 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
42 29 0.30
43 37 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATTTGATTTACA
Found at i:33771538 original size:22 final size:24
Alignment explanation
Indices: 33771507--33771551 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
33771497 GTTTTTGACT
33771507 TATGTAATG-ACATGA-ATTGGTA
1 TATGTAATGAACATGAGATTGGTA
*
33771529 TATGTTATGAACATGAGATTGGT
1 TATGTAATGAACATGAGATTGGT
33771552 TGATAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.38
Consensus pattern (24 bp):
TATGTAATGAACATGAGATTGGTA
Found at i:33773195 original size:30 final size:31
Alignment explanation
Indices: 33773171--33773229 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
33773161 GTAAATACTT
* *
33773171 AAAATTTGAGGGATTAA-AGTGTAAATATGA
1 AAAAGTTGAAGGATTAATAGTGTAAATATGA
*
33773201 AAAAGTTGAAGGATTAATAGTGCAAATAT
1 AAAAGTTGAAGGATTAATAGTGTAAATAT
33773230 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (31 bp):
AAAAGTTGAAGGATTAATAGTGTAAATATGA
Found at i:33783773 original size:18 final size:17
Alignment explanation
Indices: 33783746--33783811 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
33783736 ATTATAAAAT
*
33783746 AATTTTTAAAATTTAAA
1 AATTTATAAAATTTAAA
* *
33783763 ATATTTATAAAGGTTTCAA
1 A-ATTTATAAA-ATTTAAA
**
33783782 AATTTAT-ATTTTTAAA
1 AATTTATAAAATTTAAA
*
33783798 AAATTATAAAATTT
1 AATTTATAAAATTT
33783812 CTAAAAAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 11 0.30
17 6 0.16
18 14 0.38
19 6 0.16
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTATAAAATTTAAA
Found at i:33790123 original size:20 final size:18
Alignment explanation
Indices: 33790066--33790131 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 18
33790056 ATTTTAAGAC
33790066 TTTAATTTTTTTTATAATT
1 TTTAA-TTTTTTTATAATT
*
33790085 TCTAATTTTTTTAGT-ATT
1 TTTAATTTTTTTA-TAATT
33790103 TTTATATATTTTTTATAATT
1 TTTA-AT-TTTTTTATAATT
*
33790123 TTTTATTTT
1 TTTAATTTT
33790132 ATTTTTGAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 17 0.43
19 10 0.25
20 13 0.32
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATTTTTTTATAATT
Found at i:33790126 original size:10 final size:10
Alignment explanation
Indices: 33790087--33790128 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
33790077 TTATAATTTC
33790087 TAATTTTTT-
1 TAATTTTTTA
*
33790096 TAGTATTTTTA
1 TAAT-TTTTTA
33790107 TATATTTTTTA
1 TA-ATTTTTTA
33790118 TAATTTTTTA
1 TAATTTTTTA
33790128 T
1 T
33790129 TTTATTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 3 0.11
10 14 0.50
11 10 0.36
12 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:33790219 original size:10 final size:9
Alignment explanation
Indices: 33790171--33790297 Score: 64
Period size: 9 Copynumber: 13.7 Consensus size: 9
33790161 TTTAAATATG
33790171 TTTTATCAA-
1 TTTTAT-AAT
*
33790180 TTTTATACT
1 TTTTATAAT
*
33790189 TTTTAAAAT
1 TTTTATAAT
*
33790198 TTATTA-GA-
1 TT-TTATAAT
33790206 TTTTATAAAT
1 TTTTAT-AAT
33790216 TTTTATAAT
1 TTTTATAAT
*
33790225 ATTTATAAGT
1 TTTTATAA-T
* * *
33790235 TTGTGTGAT
1 TTTTATAAT
33790244 TTCTTATAAAT
1 TT-TTAT-AAT
33790255 TTTTATAAT
1 TTTTATAAT
33790264 TTTTA-AAGT
1 TTTTATAA-T
*
33790273 TTATATCAAT
1 TTTTAT-AAT
* *
33790283 TTTAATATT
1 TTTTATAAT
33790292 TTTTAT
1 TTTTAT
33790298 GAGAAAATAT
Statistics
Matches: 89, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
7 3 0.03
8 5 0.06
9 50 0.56
10 25 0.28
11 6 0.07
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:33790909 original size:23 final size:23
Alignment explanation
Indices: 33790878--33790941 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
33790868 TATATATATA
* *
33790878 TATTAATTTATGTGAGTAGTT-TT
1 TATTTATTTATATG-GTAGTTATT
33790901 TATTTATTTATTATGGTAGTTATT
1 TATTTATTTA-TATGGTAGTTATT
33790925 TATTTATTTATTATGGT
1 TATTTATTTA-TATGGT
33790942 TTTATTATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 15 0.41
24 22 0.59
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (23 bp):
TATTTATTTATATGGTAGTTATT
Found at i:33790931 original size:24 final size:23
Alignment explanation
Indices: 33790893--33790941 Score: 89
Period size: 24 Copynumber: 2.1 Consensus size: 23
33790883 ATTTATGTGA
33790893 GTAGTTTTTATTTATTTATTATG
1 GTAGTTTTTATTTATTTATTATG
33790916 GTAGTTATTTATTTATTTATTATG
1 GTAGTT-TTTATTTATTTATTATG
33790940 GT
1 GT
33790942 TTTATTATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.63
Consensus pattern (23 bp):
GTAGTTTTTATTTATTTATTATG
Found at i:33791500 original size:27 final size:27
Alignment explanation
Indices: 33791466--33791534 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
33791456 GTTATATTCA
33791466 ATGT-TTTATGTGTGTCAATTTGATTT
1 ATGTCTTTATGTGTGTCAATTTGATTT
33791492 ATGTCTTTATGTGTGTCAATTTGATTT
1 ATGTCTTTATGTGTGTCAATTTGATTT
*
33791519 AGGTCTTTATGTGTGT
1 ATGTCTTTATGTGTGT
33791535 TATACTAGTG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.55
Consensus pattern (27 bp):
ATGTCTTTATGTGTGTCAATTTGATTT
Found at i:33794009 original size:42 final size:42
Alignment explanation
Indices: 33793943--33794068 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
33793933 TATTTTAAGG
* * * * *
33793943 AGGAGCAGGCATAGGAGGATTCCTAATTAACCCGGAAGAAGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
* * *
33793985 AGGAGTAGTTATAGGAGAACTCCTAAGTAACTCGGAAAAAGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
* *
33794027 AGGAGTTGTCATATGAGAACTCCTAAGTAACCCGGAAGAAGT
1 AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
33794069 GGGACCAGCA
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.28, T:0.20
Consensus pattern (42 bp):
AGGAGTAGTCATAGGAGAACTCCTAAGTAACCCGGAAGAAGT
Found at i:33805502 original size:2 final size:2
Alignment explanation
Indices: 33805483--33805523 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
33805473 TTAGTTCTTT
* * *
33805483 TA TA TA TC TA TA TC TA TA TA TA TC TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33805524 TTCTGTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33805504 original size:16 final size:16
Alignment explanation
Indices: 33805483--33805521 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
33805473 TTAGTTCTTT
*
33805483 TATATATCTATATCTA
1 TATATATCTATATATA
33805499 TATATATCTATATATA
1 TATATATCTATATATA
33805515 TATATAT
1 TATATAT
33805522 ATTTCTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATCTATATATA
Found at i:33805581 original size:26 final size:26
Alignment explanation
Indices: 33805552--33805626 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 26
33805542 TTTTAGTTCT
*
33805552 TTTATATGTTTATATATTTTTATAAA
1 TTTATATGTTTATAAATTTTTATAAA
* *
33805578 TTTATA-GATTT-TAGATTTTTTATTAA
1 TTTATATG-TTTATA-AATTTTTATAAA
*
33805604 TTTATAT-ATTATAAATTTTTATA
1 TTTATATGTTTATAAATTTTTATA
33805627 CGTTTTCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
25 13 0.33
26 26 0.67
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTATATGTTTATAAATTTTTATAAA
Found at i:33808839 original size:18 final size:18
Alignment explanation
Indices: 33808818--33808880 Score: 85
Period size: 18 Copynumber: 3.6 Consensus size: 18
33808808 ACATATTTAA
33808818 TTCACTTCACATGCCTAC
1 TTCACTTCACATGCCTAC
* *
33808836 TTCACTTCACGA-ACTTA-
1 TTCACTTCAC-ATGCCTAC
33808853 TTCACTTCACATGCCTAC
1 TTCACTTCACATGCCTAC
33808871 TTCACTTCAC
1 TTCACTTCAC
33808881 GAACTTATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 13 0.34
18 23 0.61
19 1 0.03
ACGTcount: A:0.24, C:0.37, G:0.05, T:0.35
Consensus pattern (18 bp):
TTCACTTCACATGCCTAC
Found at i:33808856 original size:35 final size:35
Alignment explanation
Indices: 33808817--33808899 Score: 166
Period size: 35 Copynumber: 2.4 Consensus size: 35
33808807 CACATATTTA
33808817 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
1 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
33808852 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
1 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
33808887 ATTCACTTCACAT
1 ATTCACTTCACAT
33808900 AACAATTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.27, C:0.34, G:0.05, T:0.35
Consensus pattern (35 bp):
ATTCACTTCACATGCCTACTTCACTTCACGAACTT
Found at i:33808858 original size:17 final size:17
Alignment explanation
Indices: 33808836--33808897 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
33808826 ACATGCCTAC
33808836 TTCACTTCACGAACTTA
1 TTCACTTCACGAACTTA
* *
33808853 TTCACTTCAC-ATGCCTA
1 TTCACTTCACGA-ACTTA
33808870 CTTCACTTCACGAACTTA
1 -TTCACTTCACGAACTTA
33808888 TTCACTTCAC
1 TTCACTTCAC
33808898 ATAACAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 23 0.61
18 13 0.34
19 1 0.03
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (17 bp):
TTCACTTCACGAACTTA
Found at i:33808913 original size:35 final size:35
Alignment explanation
Indices: 33808817--33808914 Score: 124
Period size: 35 Copynumber: 2.8 Consensus size: 35
33808807 CACATATTTA
** *
33808817 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
1 ATTCACTTCACATAACAACTTCACTTCACGAACTT
** *
33808852 ATTCACTTCACATGCCTACTTCACTTCACGAACTT
1 ATTCACTTCACATAACAACTTCACTTCACGAACTT
* *
33808887 ATTCACTTCACATAACAATTTTACTTCA
1 ATTCACTTCACATAACAACTTCACTTCA
33808915 GGTAGTGTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.29, C:0.32, G:0.04, T:0.36
Consensus pattern (35 bp):
ATTCACTTCACATAACAACTTCACTTCACGAACTT
Found at i:33809748 original size:28 final size:28
Alignment explanation
Indices: 33809712--33809767 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33809702 GGAAGGAAAG
*
33809712 AAAGAATATTAGAGTTTGTTGGTATGAT
1 AAAGAATATTAGAATTTGTTGGTATGAT
33809740 AAAGAATATTAGAATTTGTTGGTATGAT
1 AAAGAATATTAGAATTTGTTGGTATGAT
33809768 TTCCAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.39
Consensus pattern (28 bp):
AAAGAATATTAGAATTTGTTGGTATGAT
Found at i:33811016 original size:17 final size:17
Alignment explanation
Indices: 33810996--33811029 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33810986 AAGGATATGC
33810996 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
33811013 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
33811030 GATATGACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:33816700 original size:6 final size:6
Alignment explanation
Indices: 33816689--33816746 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
33816679 TTTCAAAAAT
* *
33816689 AAAGAA AAAG-A AAAGAA AAA-AA TATAAAAA TAAAAAA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA -A-AAGAA -AAAGAA AAAGAA AAAGAA
33816738 AAAGAA AAA
1 AAAGAA AAA
33816747 ATAAAAATGG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
5 7 0.15
6 29 0.62
7 7 0.15
8 4 0.09
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:33816718 original size:16 final size:16
Alignment explanation
Indices: 33816683--33816745 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
33816673 CTTCTATTTC
* *
33816683 AAAAATAAAGAAAAAG
1 AAAAAGAAAAAAAAAG
* *
33816699 -AAAAGAAAAAAATAT
1 AAAAAGAAAAAAAAAG
*
33816714 AAAAATAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
33816730 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAA-AAAA
33816746 AATAAAAATG
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 11 0.30
16 22 0.59
17 4 0.11
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:33816733 original size:37 final size:35
Alignment explanation
Indices: 33816683--33816754 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 35
33816673 CTTCTATTTC
*
33816683 AAAAATAAAGAAAAAGAAAAGAAAAAAATATAAAAAT
1 AAAAAAAAAGAAAAAGAAAA-AAAAAAA-ATAAAAAT
*
33816720 AAAAAAAAAGAAAAAGAAAAAGAAAAAATAAAAAT
1 AAAAAAAAAGAAAAAGAAAAAAAAAAAATAAAAAT
33816755 GGAGAGGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 8 0.24
36 6 0.18
37 19 0.58
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (35 bp):
AAAAAAAAAGAAAAAGAAAAAAAAAAAATAAAAAT
Found at i:33818056 original size:205 final size:205
Alignment explanation
Indices: 33817696--33818655 Score: 1561
Period size: 205 Copynumber: 4.7 Consensus size: 205
33817686 GCAGATCTGG
* * *
33817696 CTGAAGCAAGATCCAAGATGGTTTGGCGTCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* ** *
33817761 GATTTGGTTTTCGTGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * *
33817826 AGAGCAAATCGAAGTTTGGCATCTCCATTTTGACGGAGAGCAAATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
33817891 AGATGTTTATA
195 AGATGTTTATA
33817902 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* *
33817967 ATTTGGCTTTCACGTGTTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
33818032 GAACAAATTGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTTA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
33818097 GATGTTTATA
196 GATGTTTATA
*
33818107 CTGAAGCAGATCTAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
33818172 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
33818237 GAATAAATTGAAGTCTGGTATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
33818302 GATGTTTATA
196 GATGTTTATA
* * * *
33818312 CTAAAGCAGATCCAAGATGGTTTGGCATACTTGTGCTTACAAGGAAAAAAATCAAAGACATAGCT
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGG-AACAAATCGAAGACATAGCT
*
33818377 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * *
33818442 AGAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAAAGCAGATACATAACAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTC
33818507 AGATG-----A
195 AGATGTTTATA
* * *
33818513 CTAAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
33818578 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGA
66 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
33818643 GAACAAATCGAAG
131 GAACAAATCGAAG
33818656 AAATAGATTT
Statistics
Matches: 711, Mismatches: 42, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
200 92 0.13
201 43 0.06
205 422 0.59
206 154 0.22
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCA
GATGTTTATA
Found at i:33819001 original size:261 final size:256
Alignment explanation
Indices: 33818494--33818977 Score: 709
Period size: 261 Copynumber: 1.9 Consensus size: 256
33818484 GATACATAAC
*
33818494 AGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAA
1 AGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAA
* * ** * *
33818559 CAAATCGAAGGCATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTG
66 CAAATCGAAGACACAGCAAATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTG
* * * *
33818624 GCATCTCTGTATTGTTAGAGAACAAATCGAAGAAATAGATTTGGCGTCTCTGTATTCGACGGAGA
131 GCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCGACGGAGA
* *
33818689 GCAGATCGAAGATATCAACAGGTTAGTCATAAGTTTACAAGAAGCAGATTAAAGACATAGA
196 GCAGATCGAAGATATCAACAGGTCAATCATAAGTTTACAAGAAGCAGATTAAAGACATAGA
* *
33818750 AGATCTAACCTTCAGATGATTTTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG-TTCAC
1 AGATCTAACCTTCAGATG-----ACTAAAGCAGATCCAAGATGATTTGGCATCCTTATGCTT-AC
* * *
33818814 AAGGAGCAAATCGAAGACACAGCAAATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGAT
60 AAGGAACAAATCGAAGACACAGCAAATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGAT
* *
33818879 GATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAGCAGATTTGGCGTCTCTATGTTCGA
125 GATTTGGCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCGA
* *
33818944 CGGAGAGTAGATCGAAGATATCAACATGTCAATC
190 CGGAGAGCAGATCGAAGATATCAACAGGTCAATC
33818978 TTGATTTTGC
Statistics
Matches: 200, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
256 18 0.09
260 2 0.01
261 180 0.90
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (256 bp):
AGATCTAACCTTCAGATGACTAAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAA
CAAATCGAAGACACAGCAAATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTG
GCATCTCTGTATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTATATTCGACGGAGA
GCAGATCGAAGATATCAACAGGTCAATCATAAGTTTACAAGAAGCAGATTAAAGACATAGA
Found at i:33819309 original size:19 final size:19
Alignment explanation
Indices: 33819285--33819378 Score: 110
Period size: 19 Copynumber: 5.2 Consensus size: 19
33819275 AATCTTTAAG
*
33819285 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
33819304 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
33819323 GATAT--AATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
33819340 GATATG--AT-AT-GATAT
1 GATATGCAATCTTAGATAT
33819355 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
33819376 GAT
1 GAT
33819379 TTTGTAATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 21 0.32
18 1 0.02
19 23 0.35
21 8 0.12
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:33819343 original size:5 final size:5
Alignment explanation
Indices: 33819335--33819360 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33819325 TATAATCTTA
33819335 GATAT GATAT GATAT GATAT GATAT G
1 GATAT GATAT GATAT GATAT GATAT G
33819361 CAATCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:33822855 original size:27 final size:27
Alignment explanation
Indices: 33822763--33822912 Score: 144
Period size: 27 Copynumber: 5.5 Consensus size: 27
33822753 ATATTGAGCC
* *
33822763 CGCACACTCAGTGCTATACA-A-TCAAAT
1 CGCACACTTAGTGC-A-ACATAGTCAATT
* * *
33822790 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCAACATAGTCA-ATT
** *
33822818 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAACATAGTCAATT
* * *
33822845 CGCACACTTAGTGCATCATATTCATTT
1 CGCACACTTAGTGCAACATAGTCAATT
33822872 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCAACATAGTC-AATT
33822899 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33822913 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
25 3 0.03
26 1 0.01
27 75 0.74
28 23 0.23
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCAACATAGTCAATT
Found at i:33828575 original size:46 final size:46
Alignment explanation
Indices: 33828508--33828682 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
33828498 TGTAACCCGC
* *
33828508 CCATAAGCGAACTCGGACTCAACTCAACGTGCTT-GGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGGCATTTGCAT
* * *
33828554 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * *
33828604 -C-TCA-CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
33828647 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
33828683 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 4 0.04
46 58 0.55
47 27 0.25
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:33828622 original size:93 final size:93
Alignment explanation
Indices: 33828515--33828686 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
33828505 CGCCCATAAG
* * * *
33828515 CGAACTCGGACTCAACTCAACGTGCTT-GGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
33828579 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
33828608 CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33828673 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
33828687 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:33828702 original size:46 final size:44
Alignment explanation
Indices: 33828559--33828702 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
33828549 TGCATCCATA
33828559 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
33828606 CA-CGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
33828652 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
33828698 AGTGA
1 AGTGA
33828703 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:33830421 original size:177 final size:178
Alignment explanation
Indices: 33830194--33830741 Score: 739
Period size: 177 Copynumber: 3.1 Consensus size: 178
33830184 TTCATAGCCG
*** * * *
33830194 GATAAGATT-TGTAATTTCCAATTTGCTTCTTGCAACTTCAGGAAGATAAGACTTGTATCTTCAA
1 GATAAGATTCTGTAATTTCCAGCCTGCTTCCTACAACTTTAGGAAGATAAGACTTGTATCTTCAA
* * * * *
33830258 CCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTTCATAGCCAATCCAT
66 CCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATATCCGATACAT
*
33830323 GGAGATAAGATTCGCCATTTTCGATCTGCTCCAAAGCCGATACATGGA
131 GGAGATAAGATTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGA
** *
33830371 GATAAGATTC-GTAATTTGTAGCCTGCTTCCTACAACTTTAGGAAGATAAGACTTGTGTCTTCAA
1 GATAAGATTCTGTAATTTCCAGCCTGCTTCCTACAACTTTAGGAAGATAAGACTTGTATCTTCAA
* *
33830435 CCTGCTTTCTTGCTACCTCAGAGAGATAAGACTGGTGGCTAAAATCTGCCTCATATCCGATACAT
66 CCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATATCCGATACAT
* *
33830500 GGAGATAAGACTT-GCCA-TTTCTGATCTGCTCCATAGGCGGTACATGGA
131 GGAGATAAGA-TTCGCCATTTTC-GATCTGCTCCATAGCCGATACATGGA
* *
33830548 GATAAGA-TCTGTAATTTCCAGTCTGCTTCCTATAACTTTAGGAAGATAAGACTTGTATCTTCAA
1 GATAAGATTCTGTAATTTCCAGCCTGCTTCCTACAACTTTAGGAAGATAAGACTTGTATCTTCAA
* * * * * *
33830612 CCTGCTTTTTTGCTATCTAAGAGAGAAAAGGCTGGTGGCTAAAATTTGCTCCATATCCGATACAT
66 CCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATATCCGATACAT
* * * *
33830677 GGAGATAAGACTCGCCATTTTTGATCTGCTGCATAGCCGATACGTGGA
131 GGAGATAAGATTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGA
* *
33830725 AATAAGA-TCTATAATTT
1 GATAAGATTCTGTAATTT
33830742 TTGGCTTATT
Statistics
Matches: 325, Mismatches: 40, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
176 7 0.02
177 313 0.96
178 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (178 bp):
GATAAGATTCTGTAATTTCCAGCCTGCTTCCTACAACTTTAGGAAGATAAGACTTGTATCTTCAA
CCTGCTTTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTTCATATCCGATACAT
GGAGATAAGATTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGA
Found at i:33831090 original size:15 final size:15
Alignment explanation
Indices: 33831070--33831101 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33831060 TTAAGCTTGA
33831070 TGGGTTCTGAATAAT
1 TGGGTTCTGAATAAT
*
33831085 TGGGTTTTGAATAAT
1 TGGGTTCTGAATAAT
33831100 TG
1 TG
33831102 ACCTGTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.28, T:0.44
Consensus pattern (15 bp):
TGGGTTCTGAATAAT
Found at i:33838729 original size:19 final size:19
Alignment explanation
Indices: 33838688--33838731 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33838678 GTGAAGTTTG
* *
33838688 ATGCACATGATGCGATGTA
1 ATGCAAATGATGAGATGTA
33838707 ATGCAAATGCATGAGATGT-
1 ATGCAAATG-ATGAGATGTA
33838726 ATGCAA
1 ATGCAA
33838732 GACTAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (19 bp):
ATGCAAATGATGAGATGTA
Found at i:33856972 original size:12 final size:12
Alignment explanation
Indices: 33856955--33856986 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
33856945 TAAAATAAAT
33856955 GAGAATCGTTAA
1 GAGAATCGTTAA
33856967 GAGAATCGTTAA
1 GAGAATCGTTAA
*
33856979 AAGAATCG
1 GAGAATCG
33856987 ATATCGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (12 bp):
GAGAATCGTTAA
Found at i:33865639 original size:30 final size:30
Alignment explanation
Indices: 33865603--33865679 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
33865593 TAATCTATGC
* *
33865603 TAGCTTGTGTAAGCAACCTTGATATAATGT
1 TAGCTTGTGTGAGCAACCCTGATATAATGT
33865633 TAGCTTGTGTGAGCAACCCTGATATAATGT
1 TAGCTTGTGTGAGCAACCCTGATATAATGT
*
33865663 CAGCTTGTGTGAGCAAC
1 TAGCTTGTGTGAGCAAC
33865680 TTATTCACCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (30 bp):
TAGCTTGTGTGAGCAACCCTGATATAATGT
Found at i:33879058 original size:36 final size:36
Alignment explanation
Indices: 33879011--33879082 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
33879001 NNNNNNNNNN
33879011 AAGACGTCAGAGTTTTCAATCACGCTATCAATTGAA
1 AAGACGTCAGAGTTTTCAATCACGCTATCAATTGAA
33879047 AAGACGTCAGAGTTTTCAATCACGCTATCAATTGAA
1 AAGACGTCAGAGTTTTCAATCACGCTATCAATTGAA
33879083 TATTTGGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (36 bp):
AAGACGTCAGAGTTTTCAATCACGCTATCAATTGAA
Found at i:33887377 original size:3 final size:3
Alignment explanation
Indices: 33887369--33887417 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
33887359 TGGTTTAACC
33887369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33887417 T
1 T
33887418 TTTTGAATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33897698 original size:40 final size:40
Alignment explanation
Indices: 33897654--33897915 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
33897644 GCTCCTCGTT
* *
33897654 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
33897694 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
33897734 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
33897773 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
33897812 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
33897851 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
33897892 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33897916 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:33905678 original size:40 final size:40
Alignment explanation
Indices: 33905634--33905817 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
33905624 GCTCCTCGTT
*
33905634 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAATTCGCA
* *
33905674 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
*
33905714 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAT-TCGCA
* * *
33905753 CAAATGCCTTC-GGATCTTAGTCCGGATGTT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-AATTCGCA
33905794 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33905818 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
38 3 0.02
39 47 0.38
40 63 0.50
41 11 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
Found at i:33905816 original size:79 final size:81
Alignment explanation
Indices: 33905634--33905817 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
33905624 GCTCCTCGTT
* *
33905634 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
*
33905698 GATTTAGTAACTCGCA
66 GATTTAGTAACTAGCA
**
33905714 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
*
33905775 CGGATGTT-GTCACTTAGCA
64 CGGAT-TTAGTAAC-TAGCA
33905794 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33905818 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 54 0.59
80 24 0.26
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTAGCA
Found at i:33909056 original size:20 final size:20
Alignment explanation
Indices: 33909028--33909066 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
33909018 CTGAGGACAC
*
33909028 AGGCGTGTTCCAAGCCACAT
1 AGGCATGTTCCAAGCCACAT
33909048 AGGCATGTTCCAAGCCACA
1 AGGCATGTTCCAAGCCACA
33909067 CGGGTGTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.18
Consensus pattern (20 bp):
AGGCATGTTCCAAGCCACAT
Found at i:33909100 original size:31 final size:31
Alignment explanation
Indices: 33909062--33909138 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
33909052 ATGTTCCAAG
*
33909062 CCACACGGGTGTGTGTGACCACACGGCCTAC
1 CCACACGGGCGTGTGTGACCACACGGCCTAC
*
33909093 CCACACGGGCGTGTGTGACCACACGGCTTAC
1 CCACACGGGCGTGTGTGACCACACGGCCTAC
*
33909124 CCACACGGACGTGTG
1 CCACACGGGCGTGTG
33909139 ACTCTCCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.35, G:0.30, T:0.16
Consensus pattern (31 bp):
CCACACGGGCGTGTGTGACCACACGGCCTAC
Found at i:33914063 original size:11 final size:10
Alignment explanation
Indices: 33914023--33914067 Score: 56
Period size: 11 Copynumber: 4.3 Consensus size: 10
33914013 TAGGATGTGG
33914023 ATTGAATTAA
1 ATTGAATTAA
33914033 ATTGAATATGAA
1 ATTGAAT-T-AA
33914045 A-TGAATTAA
1 ATTGAATTAA
33914054 ATTGACATTAA
1 ATTGA-ATTAA
33914065 ATT
1 ATT
33914068 CATTTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.10
10 11 0.35
11 14 0.45
12 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (10 bp):
ATTGAATTAA
Found at i:33921211 original size:47 final size:47
Alignment explanation
Indices: 33921148--33921428 Score: 375
Period size: 47 Copynumber: 6.0 Consensus size: 47
33921138 ATGATAGTAA
* * *
33921148 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAG
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAG
* *
33921195 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATTA-
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA-TAG
* * **
33921242 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAG
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAG
* * * *
33921289 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATATATGTGATAA
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAG
**
33921336 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGGCAG
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAG
* * * *
33921383 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
33921429 AGTCCCGAAG
Statistics
Matches: 209, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
46 1 0.00
47 206 0.99
48 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (47 bp):
GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAG
Found at i:33921308 original size:94 final size:94
Alignment explanation
Indices: 33921145--33921430 Score: 464
Period size: 94 Copynumber: 3.0 Consensus size: 94
33921135 GAAATGATAG
* ** * * * *
33921145 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
*
33921210 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGGATGTGAAAGTGTATATATGTGA
*
33921239 TTAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
33921304 GTGATGGATGTGAAAGTGTATATATGTGA
66 GTGATGGATGTGAAAGTGTATATATGTGA
* *
33921333 TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
*
33921398 GTGATGGATGTGAAAGTGTATAAATGTGA
66 GTGATGGATGTGAAAGTGTATATATGTGA
33921427 TAAG
1 TAAG
33921431 TCCCGAAGGG
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 179 1.00
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.27
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGCAGGGCCGAGTGGCCAAC
GTGATGGATGTGAAAGTGTATATATGTGA
Found at i:33923211 original size:45 final size:45
Alignment explanation
Indices: 33923147--33923238 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
33923137 GGGTAGATAA
33923147 CTAGGGATACGTGGGAGATGGCAATGATCGCAAAGGATTACTTCT
1 CTAGGGATACGTGGGAGATGGCAATGATCGCAAAGGATTACTTCT
*
33923192 CTAGGGATATGTGGGAGATGGCAATGATCGCAAAGGATTACTTCT
1 CTAGGGATACGTGGGAGATGGCAATGATCGCAAAGGATTACTTCT
33923237 CT
1 CT
33923239 GAACTATTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (45 bp):
CTAGGGATACGTGGGAGATGGCAATGATCGCAAAGGATTACTTCT
Found at i:33930257 original size:5 final size:5
Alignment explanation
Indices: 33930247--33930272 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33930237 TTTTTCTTGC
33930247 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
33930273 TTATTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:33938944 original size:20 final size:20
Alignment explanation
Indices: 33938921--33938958 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33938911 ACAAATTGTG
*
33938921 CATGTTATGCTTAAATGTTT
1 CATGTGATGCTTAAATGTTT
*
33938941 CATGTGATGGTTAAATGT
1 CATGTGATGCTTAAATGT
33938959 GGTATATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.21, T:0.45
Consensus pattern (20 bp):
CATGTGATGCTTAAATGTTT
Found at i:33942533 original size:26 final size:26
Alignment explanation
Indices: 33942495--33942544 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
33942485 TAGTTGACAC
*
33942495 GGCCATGATACACGGGCGTGTGGCTT
1 GGCCATGACACACGGGCGTGTGGCTT
33942521 GGCCATGACACACGGGCGTGTGGC
1 GGCCATGACACACGGGCGTGTGGC
33942545 CTACTCGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.16, C:0.26, G:0.40, T:0.18
Consensus pattern (26 bp):
GGCCATGACACACGGGCGTGTGGCTT
Found at i:33970444 original size:40 final size:40
Alignment explanation
Indices: 33970390--33970474 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
33970380 GGGGTGTTAC
33970390 AATA-ATAGGTCTTACTTTCCCAATTCCCAACTTACTAAA
1 AATAGATAGGTCTTACTTTCCCAATTCCCAACTTACTAAA
* *
33970429 AATAGATAGGTCTTACTTTCCCAATTCTCAACTTCCTAAA
1 AATAGATAGGTCTTACTTTCCCAATTCCCAACTTACTAAA
33970469 AATAGA
1 AATAGA
33970475 CATAAGTAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 4 0.09
40 39 0.91
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (40 bp):
AATAGATAGGTCTTACTTTCCCAATTCCCAACTTACTAAA
Found at i:33981175 original size:104 final size:107
Alignment explanation
Indices: 33981002--33981224 Score: 301
Period size: 104 Copynumber: 2.1 Consensus size: 107
33980992 TATTTTTTTT
* ** *
33981002 TGGGACACTGATGGACAGACCAACTTTATTAGATTTTTTTTTTTTTTGGTTTTGGGACACTGATG
1 TGGGACACTAATGGACAGACCAACTTTATTAGA---TTTTTTTTTGGGGTTTTGGGACACTGATC
*
33981067 GCCAGCACCAGCCTTATCAAATT-AAAAAA-A-TTTGTTTGGTTC
63 GCCAGCACCAACCTTATCAAATTAAAAAAATATTTTGTTTGGTTC
* *
33981109 TGGGACACTAATGGTCGGTACCAACTTTATTAGA-TTTTTTTTGGGGTTTTGGGACACTGATCGC
1 TGGGACACTAATGGACAG-ACCAACTTTATTAGATTTTTTTTTGGGGTTTTGGGACACTGATCGC
* *
33981173 CAGCACCAACCTTATCAGATTAAAAAAATATTTTTTTTGGTTC
65 CAGCACCAACCTTATCAAATTAAAAAAATATTTTGTTTGGTTC
33981216 TGGGACACT
1 TGGGACACT
33981225 GATGACCGGC
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
104 46 0.45
105 6 0.06
106 1 0.01
107 35 0.34
108 15 0.15
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (107 bp):
TGGGACACTAATGGACAGACCAACTTTATTAGATTTTTTTTTGGGGTTTTGGGACACTGATCGCC
AGCACCAACCTTATCAAATTAAAAAAATATTTTGTTTGGTTC
Found at i:33982514 original size:23 final size:23
Alignment explanation
Indices: 33982484--33982529 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33982474 TGTGAAATAC
33982484 TACCGAGTATCGGTATCGGCATT
1 TACCGAGTATCGGTATCGGCATT
33982507 TACCGAGTATCGGTATCGGCATT
1 TACCGAGTATCGGTATCGGCATT
33982530 CCGTAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TACCGAGTATCGGTATCGGCATT
Found at i:33982682 original size:46 final size:45
Alignment explanation
Indices: 33982629--33982804 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
33982619 TATTTGGGCA
33982629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
33982675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
33982722 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
33982768 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33982805 GCAGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:33982784 original size:93 final size:93
Alignment explanation
Indices: 33982625--33982796 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
33982615 AGGATATTTG
* *
33982625 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
33982690 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
33982718 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
33982782 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
33982797 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:33983681 original size:20 final size:20
Alignment explanation
Indices: 33983656--33983693 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33983646 CTGTTCTGAC
* *
33983656 TTTAAAAATTCATTATAAAT
1 TTTAAAAAATAATTATAAAT
33983676 TTTAAAAAATAATTATAA
1 TTTAAAAAATAATTATAA
33983694 GTCATCCTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAAAAATAATTATAAAT
Found at i:33984678 original size:89 final size:89
Alignment explanation
Indices: 33984514--33984810 Score: 332
Period size: 89 Copynumber: 3.4 Consensus size: 89
33984504 TATTCAAAAT
** * * *
33984514 TTTTGTATTATTTTTGTATCTGTAAATCAAATTTAGTTTGTATTATTTGTTGTTCGAATTTTATA
1 TTTT-TATT-TTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATA
* *
33984579 TTTTCATGTATTAATTTTTTGGAATG
64 TTTTCGTGTATTAATTTTTTAGAATG
* *
33984605 TTTTTATTTTTTTGTATTTGTAAATTTAATTTAGTCTGTATTATTTTTTCTTTGAATTTTATATT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
33984670 TTCGTGTATTAATTTTTTAGAATG
66 TTCGTGTATTAATTTTTTAGAATG
* * * ** * *
33984694 TTTGTGTTTTTTGGGGTCTCTAAATTTTA-TTAGTCTG---TATTTTTTGTTTGAATTTTATATT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
* * * *
33984755 TTCGTGTAGTAATATTCTAAAATG
66 TTCGTGTATTAATTTTTTAGAATG
* * * *
33984779 TTTATATTTTCTTGTATTTGTAAAGTTAATTT
1 TTTTTATTTTTTTGTATCTGTAAATTTAATTT
33984811 GTTGCGTATT
Statistics
Matches: 173, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
85 62 0.36
86 2 0.01
88 8 0.05
89 93 0.54
90 4 0.02
91 4 0.02
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (89 bp):
TTTTTATTTTTTTGTATCTGTAAATTTAATTTAGTCTGTATTATTTTTTGTTTGAATTTTATATT
TTCGTGTATTAATTTTTTAGAATG
Found at i:33984823 original size:85 final size:85
Alignment explanation
Indices: 33984557--33984823 Score: 268
Period size: 85 Copynumber: 3.1 Consensus size: 85
33984547 TAGTTTGTAT
* * * * *
33984557 TATTTGTTGTTCGAATTTTATATTTTCATGTATTAATTTTTTGGAATGTTTTTATTTTTTTGTAT
1 TATTTTTTGTTTGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTATA-TTTTTTGTAT
**
33984622 TTGTAAATTTAATTTAGTCTGTAT
65 TTGTAAATTTAATTT-GT-TG-CG
* * * **
33984646 TATTTTTTCTTTGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTGTGTTTTTTGGGGT
1 TATTTTTTGTTTGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTATATTTTTT-GTAT
* * * *
33984711 CTCTAAATTTTATTAG-T-CTG
65 TTGTAAATTTAATTTGTTGC-G
* * * *
33984731 TATTTTTTGTTTGAATTTTATATTTTCGTGTAGTAATATTCTAAAATGTTTATATTTTCTTGTAT
1 TATTTTTTGTTTGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTATATTTT-TTGTAT
*
33984796 TTGTAAAGTTAATTTGTTGCG
65 TTGTAAATTTAATTTGTTGCG
33984817 TATTTTT
1 TATTTTT
33984824 AATTTTTTGA
Statistics
Matches: 144, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
85 64 0.44
86 12 0.08
87 1 0.01
88 7 0.05
89 60 0.42
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (85 bp):
TATTTTTTGTTTGAATTTTATATTTTCGTGTATTAATTTTTTAGAATGTTTATATTTTTTGTATT
TGTAAATTTAATTTGTTGCG
Found at i:33984960 original size:20 final size:21
Alignment explanation
Indices: 33984915--33984953 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
33984905 TTTATATTGA
33984915 AAAATAGAATATTTACAAAAT
1 AAAATAGAATATTTACAAAAT
33984936 AAAAT-GAATATTTACAAA
1 AAAATAGAATATTTACAAA
33984954 TCAAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAATAGAATATTTACAAAAT
Found at i:33987120 original size:18 final size:18
Alignment explanation
Indices: 33987093--33987127 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33987083 GTCCACATTT
*
33987093 TTTTTCATTTCAATTTAA
1 TTTTTAATTTCAATTTAA
*
33987111 TTTTTAATTTCATTTTA
1 TTTTTAATTTCAATTTA
33987128 TATTCATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATTTCAATTTAA
Found at i:33987123 original size:23 final size:22
Alignment explanation
Indices: 33987088--33987161 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
33987078 GTTTTGTCCA
33987088 CATTTTT--TTTCATTTCAATTT
1 CATTTTTAATTTCATTT-AATTT
* *
33987109 AATTTTTAATTTCATTTTATATT
1 CATTTTTAATTTCATTTAAT-TT
**
33987132 CATTTCAAATTTCATTTGAATTT
1 CATTTTTAATTTCATTT-AATTT
33987155 CATTTTT
1 CATTTTT
33987162 CTCATGTCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
21 6 0.15
22 2 0.05
23 31 0.76
24 2 0.05
ACGTcount: A:0.26, C:0.11, G:0.01, T:0.62
Consensus pattern (22 bp):
CATTTTTAATTTCATTTAATTT
Found at i:33987126 original size:11 final size:11
Alignment explanation
Indices: 33987095--33987160 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
33987085 CCACATTTTT
*
33987095 TTTCATTTCAA
1 TTTCATTTTAA
*
33987106 TTTAATTTTTAA
1 TTTCA-TTTTAA
33987118 TTTCATTTT-A
1 TTTCATTTTAA
*
33987128 TATTCATTTCAAA
1 T-TTCATTT-TAA
*
33987141 TTTCATTTGAA
1 TTTCATTTTAA
33987152 TTTCATTTT
1 TTTCATTTT
33987161 TCTCATGTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 2 0.04
11 25 0.56
12 16 0.36
13 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTCATTTTAA
Found at i:33987135 original size:34 final size:33
Alignment explanation
Indices: 33987088--33987161 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
33987078 GTTTTGTCCA
* *
33987088 CATTTTTTTTCATTTC-AATTTAATTTTTAATTT
1 CATTTTTATTCATTTCAAATTTAA-TTTGAATTT
*
33987121 CATTTTATATTCATTTCAAATTTCATTTGAATTT
1 CATTTT-TATTCATTTCAAATTTAATTTGAATTT
33987155 CATTTTT
1 CATTTTT
33987162 CTCATGTCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 7 0.19
34 23 0.64
35 6 0.17
ACGTcount: A:0.26, C:0.11, G:0.01, T:0.62
Consensus pattern (33 bp):
CATTTTTATTCATTTCAAATTTAATTTGAATTT
Found at i:33987322 original size:17 final size:17
Alignment explanation
Indices: 33987300--33987333 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33987290 TTCTCATGTT
33987300 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
33987317 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
33987334 CTTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTTGAATTTCATTTCA
Found at i:33987518 original size:11 final size:11
Alignment explanation
Indices: 33987499--33987555 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
33987489 ATTTTTTCTC
* *
33987499 ATTTTATTTGA
1 ATTTCATTTCA
33987510 ATTTCATTTCA
1 ATTTCATTTCA
*
33987521 ATTTGATTTTC-
1 ATTTCA-TTTCA
33987532 ATTTCATTTTCAA
1 ATTTCA-TTTC-A
33987545 ATTTCATTTCA
1 ATTTCATTTCA
33987556 GCCAAAACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 25 0.64
12 8 0.21
13 6 0.15
ACGTcount: A:0.26, C:0.12, G:0.04, T:0.58
Consensus pattern (11 bp):
ATTTCATTTCA
Found at i:33987526 original size:17 final size:17
Alignment explanation
Indices: 33987504--33987555 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
33987494 TTCTCATTTT
33987504 ATTTGAATTTCATTTCA
1 ATTTGAATTTCATTTCA
*
33987521 ATTTGATTTTCATTTCA
1 ATTTGAATTTCATTTCA
* *
33987538 TTTTCAAATTTCATTTCA
1 ATTT-GAATTTCATTTCA
33987556 GCCAAAACAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (17 bp):
ATTTGAATTTCATTTCA
Found at i:33987536 original size:117 final size:117
Alignment explanation
Indices: 33987317--33987541 Score: 258
Period size: 117 Copynumber: 1.9 Consensus size: 117
33987307 TTTCATTTCA
* ** *
33987317 ATTTGAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTATTTTGTCATGTCAAGTTTTTC
1 ATTTAAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAAGTTTTTC
* * *
33987382 TTTTCTTTTAATTTCTTTTTAAATTTCATTTGAATTTCATTTTTTCTATTTT
66 TTTTATTTGAATTTCTATTTAAATTTCATTTGAATTTCATTTTTTCTATTTT
* * * **
33987434 ATTTAAATTTCATTTCACTTTTTTTCTTTTTTAATT-AAAACTTAAATTG-AATTTCATTTTTTC
1 ATTTAAATTTCATTTCAC-TTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAAGTTTT-
* * **
33987497 TCATTTTATTTGAATTTC-ATTTCAATTTGATTTTCATTTCATTTT
64 TC-TTTTATTTGAATTTCTATTTAAATTTCATTTGAATTTCATTTT
33987542 CAAATTTCAT
Statistics
Matches: 89, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
116 9 0.10
117 51 0.57
118 29 0.33
ACGTcount: A:0.25, C:0.10, G:0.04, T:0.61
Consensus pattern (117 bp):
ATTTAAATTTCATTTCACTTTTTTATTTTTTAATTAAAAAATTAAATTGTAATGTCAAGTTTTTC
TTTTATTTGAATTTCTATTTAAATTTCATTTGAATTTCATTTTTTCTATTTT
Found at i:33987838 original size:24 final size:25
Alignment explanation
Indices: 33987811--33987859 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
33987801 CTTTTTTTAT
*
33987811 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
33987835 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
33987860 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:33987852 original size:25 final size:23
Alignment explanation
Indices: 33987823--33987887 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
33987813 AATAAAAAAC
*
33987823 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
33987848 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
33987869 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
33987888 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:33987882 original size:19 final size:20
Alignment explanation
Indices: 33987849--33987887 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
33987839 TCAAATACAT
33987849 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
33987869 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
33987888 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:33987998 original size:22 final size:20
Alignment explanation
Indices: 33987945--33987999 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
33987935 AATAAAAAGT
*
33987945 AATTATATTAAAATTGAAACA
1 AATTATATT-AAATTAAAACA
*
33987966 AATTAAAATTAAATTAAGAACTA
1 AATT-ATATTAAATTAA-AAC-A
33987989 AATTATATTAA
1 AATTATATTAA
33988000 TAACAAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.36
22 13 0.46
23 5 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (20 bp):
AATTATATTAAATTAAAACA
Found at i:33988419 original size:22 final size:21
Alignment explanation
Indices: 33988379--33988443 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 21
33988369 TTATATTTTC
33988379 ATTTCAATTTCTATTCAATTTGA
1 ATTTC-ATTTC-ATTCAATTTGA
*
33988402 ATTTCATTTCATTCCAATTTTA
1 ATTTCATTTCATT-CAATTTGA
33988424 ATTTCATTTCATTTCAATTT
1 ATTTCATTTCA-TTCAATTT
33988444 CTTTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 3 0.08
22 29 0.74
23 7 0.18
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTTCATTTCATTCAATTTGA
Found at i:33988443 original size:11 final size:11
Alignment explanation
Indices: 33988375--33988444 Score: 65
Period size: 11 Copynumber: 6.4 Consensus size: 11
33988365 TTAATTATAT
33988375 TTTCATTTCAA
1 TTTCATTTCAA
33988386 TTTC-TATTCAA
1 TTTCAT-TTCAA
*
33988397 TTTGAATTTC-A
1 TTT-CATTTCAA
*
33988408 TTTCATTCCAA
1 TTTCATTTCAA
*
33988419 TTTTAATTTC-A
1 -TTTCATTTCAA
33988430 TTTCATTTCAA
1 TTTCATTTCAA
33988441 TTTC
1 TTTC
33988445 TTTTTAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 13 0.28
11 23 0.49
12 10 0.21
13 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.01, T:0.56
Consensus pattern (11 bp):
TTTCATTTCAA
Found at i:33988519 original size:17 final size:17
Alignment explanation
Indices: 33988489--33988529 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
33988479 TATCTTGTTA
33988489 TTTTC-ATTTCAATTTC
1 TTTTCAATTTCAATTTC
*
33988505 TTTTCAATTTGAATTTC
1 TTTTCAATTTCAATTTC
*
33988522 ATTTCAAT
1 TTTTCAAT
33988530 ACAAATTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.24, C:0.15, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTCAATTTCAATTTC
Found at i:33992466 original size:57 final size:56
Alignment explanation
Indices: 33992322--33992472 Score: 194
Period size: 57 Copynumber: 2.7 Consensus size: 56
33992312 CTATATATAT
* * * *
33992322 ATCTAATAAAGTTGGTGCCGACCATTACTATCCTAGAACCAAAAAAAATATTTTTA
1 ATCTAATAAAGTTGGTGCCGACCATTAGTGTCCCAAAACCAAAAAAAATATTTTTA
* * * **
33992378 ATCTGATAAGGTTGATGCCGACCATCGGTGTCCCAAAACCAAAAAAAAATATTTTTA
1 ATCTAATAAAGTTGGTGCCGACCATTAGTGTCCCAAAACC-AAAAAAAATATTTTTA
* *
33992435 ATCTAATAAAGTTGGTGTCGGCCATTAGTGTCCCAAAA
1 ATCTAATAAAGTTGGTGCCGACCATTAGTGTCCCAAAA
33992473 AAAAACAATT
Statistics
Matches: 78, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
56 31 0.40
57 47 0.60
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (56 bp):
ATCTAATAAAGTTGGTGCCGACCATTAGTGTCCCAAAACCAAAAAAAATATTTTTA
Found at i:33994538 original size:40 final size:40
Alignment explanation
Indices: 33994440--33995022 Score: 922
Period size: 40 Copynumber: 14.6 Consensus size: 40
33994430 TCCTCGTTCA
* * * ** *
33994440 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
33994479 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994519 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994559 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
33994599 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
33994639 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994679 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994719 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994759 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994799 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
33994839 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
33994879 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
33994919 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
33994959 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
33994999 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33995023 CAGCATTCAA
Statistics
Matches: 517, Mismatches: 22, Indels: 9
0.94 0.04 0.02
Matches are distributed among these distances:
39 37 0.07
40 472 0.91
41 8 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34003547 original size:10 final size:9
Alignment explanation
Indices: 34003542--34003594 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
34003532 TCAAATCAAT
34003542 AAAAATAAA
1 AAAAATAAA
34003551 AAAAATAAA
1 AAAAATAAA
34003560 ATAAAATAAA
1 A-AAAATAAA
* *
34003570 ACAAA-AAT
1 AAAAATAAA
*
34003578 AAAATTAAA
1 AAAAATAAA
34003587 GAAAAATA
1 -AAAAATA
34003595 GGAGGACTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
8 5 0.14
9 15 0.43
10 15 0.43
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (9 bp):
AAAAATAAA
Found at i:34003551 original size:5 final size:5
Alignment explanation
Indices: 34003543--34003582 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
34003533 CAAATCAATA
*
34003543 AAAAT AAAA- AAAAT AAAAT AAAAT AAAACA AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT
34003583 TAAAGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:34003576 original size:16 final size:15
Alignment explanation
Indices: 34003542--34003594 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 15
34003532 TCAAATCAAT
34003542 AAAAATAAAA-AAAA
1 AAAAATAAAATAAAA
*
34003556 TAAAATAAAATAAAA
1 AAAAATAAAATAAAA
*
34003571 CAAAAATAAAATTAAAG
1 -AAAAATAAAA-TAAAA
34003588 AAAAATA
1 AAAAATA
34003595 GGAGGACTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 9 0.27
15 4 0.12
16 16 0.48
17 4 0.12
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (15 bp):
AAAAATAAAATAAAA
Found at i:34003577 original size:21 final size:20
Alignment explanation
Indices: 34003543--34003592 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
34003533 CAAATCAATA
34003543 AAAAT-AAAAAAAATAAAAT
1 AAAATAAAAAAAAATAAAAT
34003562 AAAATAAAACAAAAATAAAAT
1 AAAATAAAA-AAAAATAAAAT
* *
34003583 TAAAGAAAAA
1 AAAATAAAAA
34003593 TAGGAGGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 18 0.67
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (20 bp):
AAAATAAAAAAAAATAAAAT
Found at i:34004257 original size:14 final size:14
Alignment explanation
Indices: 34004228--34004267 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
34004218 CTTCAACCTC
34004228 TGTATATTTTTT-T
1 TGTATATTTTTTAT
34004241 TGTATATTTTTTAT
1 TGTATATTTTTTAT
* *
34004255 TGTCTATCTTTTA
1 TGTATATTTTTTA
34004268 CAACTTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.70
Consensus pattern (14 bp):
TGTATATTTTTTAT
Found at i:34006729 original size:3 final size:3
Alignment explanation
Indices: 34006723--34006753 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34006713 CATCATCATC
34006723 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
34006754 AACATGACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34006800 original size:75 final size:75
Alignment explanation
Indices: 34006677--34006830 Score: 299
Period size: 75 Copynumber: 2.1 Consensus size: 75
34006667 AATAAATAAA
34006677 TAAACATGACTTCCATTATGTAAACATCATCATCATCATCATCATCATTATTATTATTATTATTA
1 TAAACATGACTTCCATTATGTAAACATCATCATCATCATCATCATCATTATTATTATTATTATTA
34006742 TTATTATTAT
66 TTATTATTAT
34006752 TAAACATGACTTCCATTATGTAAACATCATCATCATCATCATCATCATTATTATTATTATTATTA
1 TAAACATGACTTCCATTATGTAAACATCATCATCATCATCATCATCATTATTATTATTATTATTA
*
34006817 TTATTATTGT
66 TTATTATTAT
34006827 TAAA
1 TAAA
34006831 GAGAGCCTAG
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.45
Consensus pattern (75 bp):
TAAACATGACTTCCATTATGTAAACATCATCATCATCATCATCATCATTATTATTATTATTATTA
TTATTATTAT
Found at i:34006804 original size:3 final size:3
Alignment explanation
Indices: 34006798--34006824 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34006788 CATCATCATC
34006798 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
34006825 GTTAAAGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:34019341 original size:6 final size:6
Alignment explanation
Indices: 34019322--34019369 Score: 53
Period size: 7 Copynumber: 7.7 Consensus size: 6
34019312 ATCTAATTAG
*
34019322 TTTTA- TTTTGT TTTTAT TTTTCAT TTTTCAT TTTTCAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTTT-AT TTTT-AT TTTTAT TTTT
34019370 CCCAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
5 4 0.10
6 15 0.38
7 20 0.51
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:34019347 original size:7 final size:7
Alignment explanation
Indices: 34019332--34019370 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
34019322 TTTTATTTTG
34019332 TTTTT-A
1 TTTTTCA
34019338 TTTTTCA
1 TTTTTCA
34019345 TTTTTCA
1 TTTTTCA
34019352 TTTTTCA
1 TTTTTCA
34019359 TTTTT-A
1 TTTTTCA
34019365 TTTTTC
1 TTTTTC
34019371 CCAAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:34030910 original size:22 final size:22
Alignment explanation
Indices: 34030885--34030960 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
34030875 AGTAACATGT
*
34030885 CTTCAATGTCTCGACATCCAAC
1 CTTCAATGTCTCGACATCTAAC
* *
34030907 CTTCAAT-TTTGTGACATCTAAC
1 CTTCAATGTCT-CGACATCTAAC
* * * *
34030929 CTACAATGTCACAACATCTGAC
1 CTTCAATGTCTCGACATCTAAC
34030951 CTTCAATGTC
1 CTTCAATGTC
34030961 ACAACATTTG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
21 2 0.05
22 39 0.93
23 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTCAATGTCTCGACATCTAAC
Found at i:34030961 original size:22 final size:22
Alignment explanation
Indices: 34030920--34030967 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
34030910 CAATTTTGTG
34030920 ACATCTAACCTACAATGTCACA
1 ACATCTAACCTACAATGTCACA
* *
34030942 ACATCTGACCTTCAATGTCACA
1 ACATCTAACCTACAATGTCACA
34030964 ACAT
1 ACAT
34030968 TTGAGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.06, T:0.25
Consensus pattern (22 bp):
ACATCTAACCTACAATGTCACA
Found at i:34031110 original size:21 final size:22
Alignment explanation
Indices: 34031086--34031132 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
34031076 TTAAGCCTAT
*
34031086 AAATGACTTGAAAACCTTTA-A
1 AAATGACTTGAAAAACTTTATA
*
34031107 AAATGTCTTGAAAAACTTTATA
1 AAATGACTTGAAAAACTTTATA
34031129 AAAT
1 AAAT
34031133 TCTATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.32
Consensus pattern (22 bp):
AAATGACTTGAAAAACTTTATA
Found at i:34032340 original size:53 final size:53
Alignment explanation
Indices: 34032255--34032360 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
34032245 AATAGACAAA
* *
34032255 CATATTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCTTGTACT
1 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCGTGTACT
*
34032308 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAGTGCGTGTACT
1 CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCGTGTACT
34032361 TTATAACATA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (53 bp):
CATAGTTTACCTATCAACCAACACAATTTGTCAACAAGGTAAATGCGTGTACT
Found at i:34033868 original size:482 final size:481
Alignment explanation
Indices: 34033147--34034108 Score: 1852
Period size: 482 Copynumber: 2.0 Consensus size: 481
34033137 TCACTAGAAA
34033147 GTATTTACACATCATTAATTGTTCATATTATACCAAAAGTAGCTAAGTTTCTATACATGCCAACC
1 GTATTTACACATCATTAATTGTTCATATTATACCAAAAGTAGCTAAGTTTCTATACATGCCAACC
* *
34033212 CAAAACAAAACGTCTAATTATACCGAGTTATTTCTTTGATAGTGTGATCGGCCTCCGACGTTTCC
66 CAAAACAAAACGTCTAATTATACCGAGCTATTTCTTTGATAGTGTGATCGGCCTCCGACATTTCC
34033277 TTCGATCCCCGAGTGACTAGATAAGTACTATAAGAAGAAGAAAATAAAGAGATTAAGCACTAGGC
131 TTCGATCCCCGAGTGACTAGATAAGTACTATAAGAAGAAGAAAATAAAGAGATTAAGCACTAGGC
34033342 TTAGTAAGCTTACAAGCAAATAAATCACAACATTCAACATAATGGATAATTATGCATAATATCAT
196 TTAGTAAGCTTACAAGCAAATAAATCACAACATTCAACATAATGGATAATTATGCATAATATCAT
*
34033407 CTAACATCATAAATTTCTTTACTTCTCAATTTCTATCTTCTTCTTTATTCCCTTACCTTCTTTCT
261 CTAACATCATAAATTTCTTTACTTCTCAATTTCTATCTTCTTCTTTATTCCCTTACCTTATTTCT
**
34033472 TACCTGACCTTTCCTTTTTCATAAGTATAATCTACTTTTCCTTTGCCGTTAATTCACTGTAATTT
326 TACCTGACCTTTCAATTTTCATAAGTATAATCTACTTTTCCTTTGCCGTTAATTCACTGTAATTT
34033537 AACTCGTATCCTGACCCGTTGAACCACTCGAAATACTAAGGATACTAGGGTCGTTCCTGTCTATC
391 AACTCGTATCCTGACCCGTTGAACCACTCGAAATACTAAGGATACTAGGGTCGTTCCTGTCTATC
34033602 AATATCCTGCCAATGCCATGTCTTTG
456 AATATCCTGCCAATGCCATGTCTTTG
34033628 GTATTTACACATCATTAATTGTTCATATTATACCAAAAGTAGCTAAGTTTCTATACATGCCATAC
1 GTATTTACACATCATTAATTGTTCATATTATACCAAAAGTAGCTAAGTTTCTATACATGCCA-AC
34033693 CCAAAACAAAACGTCTAATTATACCGAGCTATTTCTTTGATAGTGTGATCGGCCTCCGACATTTC
65 CCAAAACAAAACGTCTAATTATACCGAGCTATTTCTTTGATAGTGTGATCGGCCTCCGACATTTC
34033758 CTTCGATCCCCGAGTGACTAGATAAGTACTATAAGAAGAAGAAAATAAAGAGATTAAGCACTAGG
130 CTTCGATCCCCGAGTGACTAGATAAGTACTATAAGAAGAAGAAAATAAAGAGATTAAGCACTAGG
34033823 CTTAGTAAGCTTACAAGCAAATAAATCACAACATTCAACATAATGGATAATTATGCATAATATCA
195 CTTAGTAAGCTTACAAGCAAATAAATCACAACATTCAACATAATGGATAATTATGCATAATATCA
34033888 TCTAACATCATAAATTTCTTTACTTCTCAATTTCTATCTTCTTCTTTATTCCCTTACCTTATTTC
260 TCTAACATCATAAATTTCTTTACTTCTCAATTTCTATCTTCTTCTTTATTCCCTTACCTTATTTC
*
34033953 TTACCTGACCTTTCAATTTTCATAAGTATAATCTACTTTTCCTTTGCTGTTAATTCACTGTAATT
325 TTACCTGACCTTTCAATTTTCATAAGTATAATCTACTTTTCCTTTGCCGTTAATTCACTGTAATT
*
34034018 TAACTCGTATCCTGACCCGTTGAACCACTCGGAATACTAAGGATACTAGGGTCGTTCCTGTCTAT
390 TAACTCGTATCCTGACCCGTTGAACCACTCGAAATACTAAGGATACTAGGGTCGTTCCTGTCTAT
34034083 CAATATCCTGCCAATGCCATGTCTTT
455 CAATATCCTGCCAATGCCATGTCTTT
34034109 AACATGGACT
Statistics
Matches: 473, Mismatches: 7, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
481 62 0.13
482 411 0.87
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (481 bp):
GTATTTACACATCATTAATTGTTCATATTATACCAAAAGTAGCTAAGTTTCTATACATGCCAACC
CAAAACAAAACGTCTAATTATACCGAGCTATTTCTTTGATAGTGTGATCGGCCTCCGACATTTCC
TTCGATCCCCGAGTGACTAGATAAGTACTATAAGAAGAAGAAAATAAAGAGATTAAGCACTAGGC
TTAGTAAGCTTACAAGCAAATAAATCACAACATTCAACATAATGGATAATTATGCATAATATCAT
CTAACATCATAAATTTCTTTACTTCTCAATTTCTATCTTCTTCTTTATTCCCTTACCTTATTTCT
TACCTGACCTTTCAATTTTCATAAGTATAATCTACTTTTCCTTTGCCGTTAATTCACTGTAATTT
AACTCGTATCCTGACCCGTTGAACCACTCGAAATACTAAGGATACTAGGGTCGTTCCTGTCTATC
AATATCCTGCCAATGCCATGTCTTTG
Found at i:34034216 original size:46 final size:44
Alignment explanation
Indices: 34034112--34034219 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
34034102 TGTCTTTAAC
** * * *
34034112 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
34034156 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
34034202 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
34034220 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:34034759 original size:205 final size:205
Alignment explanation
Indices: 34034407--34034815 Score: 764
Period size: 205 Copynumber: 2.0 Consensus size: 205
34034397 TTTACTGTAA
34034407 CTTACCTTGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCAAT
1 CTTACCTTGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCAAT
* *
34034472 CTACTCCCGAATTTTGTTCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATATTCGCATTT
66 CTACTCCCGAATTTCGTTCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATATTCACATTT
34034537 ATTAAAACAGTCCTTGACCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATT
131 ATTAAAACAGTCCTTGACCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATT
*
34034602 TTCACTTTTG
196 TGCACTTTTG
*
34034612 CTTACCTTGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCGAT
1 CTTACCTTGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCAAT
* *
34034677 CTACTCTCGAATTTCGTTCTTCTTGATCTATAATAGCAAATTTAACTTATTTAATATTCACATTT
66 CTACTCCCGAATTTCGTTCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATATTCACATTT
34034742 ATTAAAACAGTCCTTGACCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATT
131 ATTAAAACAGTCCTTGACCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATT
34034807 TGCACTTTT
196 TGCACTTTT
34034816 TCCCCAAGGC
Statistics
Matches: 198, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
205 198 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.43
Consensus pattern (205 bp):
CTTACCTTGATACAAAATGTGACTAAACTTTACAATTTAGTCCTTTACTTTTTCTTTTCCCCAAT
CTACTCCCGAATTTCGTTCTTCTTGATCTATAATAGAAAATTTAACTTATTTAATATTCACATTT
ATTAAAACAGTCCTTGACCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATT
TGCACTTTTG
Found at i:34035130 original size:79 final size:79
Alignment explanation
Indices: 34034999--34035155 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
34034989 TAAGTTGTTT
34034999 AACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCAGCCATGGGTA
1 AACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCAGCCATGGGTA
*
34035064 TTTTTTCAAATATG
66 TTTTTCCAAATATG
*
34035078 AACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCAGCCATGGTTA
1 AACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCAGCCATGGGTA
34035143 TTTTTCCAAATAT
66 TTTTTCCAAATAT
34035156 TAACCCTAGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (79 bp):
AACATAATTTAAAACCTCATATTCTATCATAAAACACCAAAATACACAAATTTCAGCCATGGGTA
TTTTTCCAAATATG
Found at i:34041854 original size:46 final size:44
Alignment explanation
Indices: 34041750--34041857 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
34041740 TGTCTTTGAC
** * * *
34041750 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
34041794 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
34041840 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
34041858 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:34042229 original size:30 final size:30
Alignment explanation
Indices: 34042195--34042289 Score: 108
Period size: 30 Copynumber: 3.2 Consensus size: 30
34042185 TCCTTGACCC
34042195 AAACTTTGGAAAATTTATATTTTTACCCCT
1 AAACTTTGGAAAATTTATATTTTTACCCCT
* * **
34042225 AAACTTT-CACATATTTGCACTTTTT--CCC-
1 AAACTTTGGA-AAATTTATA-TTTTTACCCCT
34042253 AAACTTTGGAAAATTTATATTTTTACCCCT
1 AAACTTTGGAAAATTTATATTTTTACCCCT
34042283 AAACTTT
1 AAACTTT
34042290 CACATATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 5 0.10
28 13 0.25
29 8 0.16
30 20 0.39
31 5 0.10
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTGGAAAATTTATATTTTTACCCCT
Found at i:34042255 original size:58 final size:58
Alignment explanation
Indices: 34042192--34042306 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
34042182 CAGTCCTTGA
34042192 CCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTT
1 CCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTT
*
34042250 CCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATTTTCACTTTT
1 CCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTT
34042307 GCCCCAAGGC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.43
Consensus pattern (58 bp):
CCCAAACTTTGGAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTT
Found at i:34042325 original size:58 final size:58
Alignment explanation
Indices: 34042203--34042325 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 58
34042193 CCAAACTTTG
* ** *
34042203 GAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTTCCCAAACTTTG
1 GAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTGCCCAAACGCTC
* * *
34042261 GAAAATTTATATTTTTACCCCTAAACTTTCACATATTTTCACTTTTGCCCCAAGGCTC
1 GAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTGCCCAAACGCTC
*
34042319 GTAAATT
1 GAAAATT
34042326 AAACTTCATC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (58 bp):
GAAAATTTATATTTTTACCCCTAAACTTTCACATATTTGCACTTTTGCCCAAACGCTC
Found at i:34046759 original size:40 final size:40
Alignment explanation
Indices: 34046692--34046867 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
34046682 ACCCAAGTAT
*
34046692 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
34046731 CTTCGGGTCCTAGCCCGGATACAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
34046771 CTTCGGGTCTTAGCCCGGATATAGCATCTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
34046811 CTTCGAGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
34046851 CTTTGGGTCTTAGCCCG
1 CTTCGGGTCTTAGCCCG
34046868 ATTATCATCC
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 114 0.91
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:34048987 original size:22 final size:22
Alignment explanation
Indices: 34048953--34048996 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34048943 ACATTGCCCA
*
34048953 AGGTATCGTGATATCCA-CTTTT
1 AGGTATCGCGATA-CCACCTTTT
*
34048975 AGGTATTGCGATACCACCTTTT
1 AGGTATCGCGATACCACCTTTT
34048997 TCAGAGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (22 bp):
AGGTATCGCGATACCACCTTTT
Found at i:34049194 original size:11 final size:11
Alignment explanation
Indices: 34049165--34049197 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
34049155 AGTTTTAGGT
34049165 TTAGTTTTCTC
1 TTAGTTTTCTC
*
34049176 -TAGGTTTCTC
1 TTAGTTTTCTC
34049186 TTAGTTTTCTC
1 TTAGTTTTCTC
34049197 T
1 T
34049198 GCATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.18, G:0.12, T:0.61
Consensus pattern (11 bp):
TTAGTTTTCTC
Found at i:34055463 original size:39 final size:39
Alignment explanation
Indices: 34055387--34055491 Score: 122
Period size: 39 Copynumber: 2.7 Consensus size: 39
34055377 CAGAAAATCT
* * * *
34055387 TATTCAGTATAATCAGTGGATAATGCTTGTTTGAGCAAAC
1 TATTCAGTATAATCAGTGGATATTGCTCGTCTAAGC-AAC
34055427 -ATTCAGTATAATCAGTGGATATTGCTCGTCTAAGCAAC
1 TATTCAGTATAATCAGTGGATATTGCTCGTCTAAGCAAC
* * * *
34055465 TATTTAGTAGAATCAATAGATATTGCT
1 TATTCAGTATAATCAGTGGATATTGCT
34055492 TATTCGAGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
38 3 0.05
39 53 0.95
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.35
Consensus pattern (39 bp):
TATTCAGTATAATCAGTGGATATTGCTCGTCTAAGCAAC
Found at i:34055526 original size:36 final size:36
Alignment explanation
Indices: 34055472--34055591 Score: 145
Period size: 36 Copynumber: 3.3 Consensus size: 36
34055462 AACTATTTAG
34055472 TAGAATCAATAGATATTGCTTATTCGAGCAC-TTCAA
1 TAGAATCAATAGATATTGCTTATT-GAGCACATTCAA
* * *
34055508 TAGAATCAGTAGACATTGCTCGT-TTGAGCACATTCAG
1 TAGAATCAATAGATATTGCT--TATTGAGCACATTCAA
* * *
34055545 TGGGATCAATAGATATTGCTTATTGAGCACTTTCAA
1 TAGAATCAATAGATATTGCTTATTGAGCACATTCAA
34055581 TAGAATCAATA
1 TAGAATCAATA
34055592 TTCCTTTTTT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
35 1 0.01
36 45 0.65
37 22 0.32
38 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (36 bp):
TAGAATCAATAGATATTGCTTATTGAGCACATTCAA
Found at i:34056020 original size:18 final size:18
Alignment explanation
Indices: 34055999--34056038 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34055989 CCAACAATAA
*
34055999 AATTAACTCATTTTATGC
1 AATTAACTCATTTTAGGC
* *
34056017 AATTAAGTCCTTTTAGGC
1 AATTAACTCATTTTAGGC
34056035 AATT
1 AATT
34056039 TTACTAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (18 bp):
AATTAACTCATTTTAGGC
Found at i:34057578 original size:23 final size:23
Alignment explanation
Indices: 34057552--34057599 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34057542 AGCATTCCAA
34057552 TGCTCCTAAAACTAGCACTTTAG
1 TGCTCCTAAAACTAGCACTTTAG
* **
34057575 TGCTTCTAAATTTAGCACTTTAG
1 TGCTCCTAAAACTAGCACTTTAG
34057598 TG
1 TG
34057600 TTCCCGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (23 bp):
TGCTCCTAAAACTAGCACTTTAG
Found at i:34057612 original size:22 final size:22
Alignment explanation
Indices: 34057564--34057622 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
34057554 CTCCTAAAAC
*
34057564 TAGCACTTTAGTGCTTCTAAATT
1 TAGCACTTTAGTG-TTCCAAATT
**
34057587 TAGCACTTTAGTGTTCCCGATT
1 TAGCACTTTAGTGTTCCAAATT
34057609 TAGCA-TTTA-TGTTC
1 TAGCACTTTAGTGTTC
34057623 TCTTGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 11 0.33
23 13 0.39
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (22 bp):
TAGCACTTTAGTGTTCCAAATT
Found at i:34062783 original size:46 final size:47
Alignment explanation
Indices: 34062691--34062834 Score: 191
Period size: 47 Copynumber: 3.1 Consensus size: 47
34062681 GAAATGATAG
34062691 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
34062738 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATTTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
34062784 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
34062831 TAAG
1 TAAG
34062835 TCCCGAAGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
46 39 0.47
47 44 0.53
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:34063009 original size:37 final size:37
Alignment explanation
Indices: 34062953--34063031 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
34062943 CCGAGCTCTA
* * *
34062953 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
34062990 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
34063027 AAGAC
1 AAGAC
34063032 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:34068127 original size:33 final size:33
Alignment explanation
Indices: 34068085--34068151 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
34068075 TTCTTGGAAA
34068085 AATCGAAGGCAATGTCACACCCCTATCATGCAT
1 AATCGAAGGCAATGTCACACCCCTATCATGCAT
34068118 AATCGAAGGCAATGTCACACCCCTATCATGCAT
1 AATCGAAGGCAATGTCACACCCCTATCATGCAT
34068151 A
1 A
34068152 GTACACCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (33 bp):
AATCGAAGGCAATGTCACACCCCTATCATGCAT
Found at i:34078957 original size:21 final size:22
Alignment explanation
Indices: 34078931--34078971 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34078921 CACTTGACAC
*
34078931 AGGGGC-ACACGCTCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
34078952 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
34078972 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:34082838 original size:23 final size:23
Alignment explanation
Indices: 34082812--34082871 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
34082802 TGTCCCAAAG
34082812 TACACGGGCGTGTGCAATGTCTC
1 TACACGGGCGTGTGCAATGTCTC
34082835 TACACGGGCGTGTGCAATGTCTC
1 TACACGGGCGTGTGCAATGTCTC
*
34082858 TACACGGGTGTGTG
1 TACACGGGCGTGTG
34082872 AAACATTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (23 bp):
TACACGGGCGTGTGCAATGTCTC
Found at i:34083370 original size:46 final size:46
Alignment explanation
Indices: 34083281--34083497 Score: 221
Period size: 46 Copynumber: 4.6 Consensus size: 46
34083271 TATTTCAAGT
*
34083281 CGATGCCATGTCCCCA-ACATGGTCTTACACTGACTATCATCTCGTA-GC
1 CGATG-CATGT-CCCAGACAT-GTCTTACACTGGCT-TCATCTCGTAGGC
*
34083329 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGTAGGC
* * * * * *
34083375 CGATACATGTCCGAGACATGTCTTACACTAGCCCTCATCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATCTCGTAGGC
*
34083421 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGTAGGC
34083469 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
34083498 AGCTCACACA
Statistics
Matches: 144, Mismatches: 15, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.01
46 74 0.51
47 41 0.28
48 26 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGTAGGC
Found at i:34083479 original size:94 final size:92
Alignment explanation
Indices: 34083327--34083500 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 92
34083317 TCATCTCGTA
* * *
34083327 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGATACATGTCCGAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGAC
34083392 ATGTCTTACACTAGCCCTCATCTCAAT
66 ATGTCTTACACTAGCCCTCATCTCAAT
* *
34083419 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATACATGTCCC
34083482 AGACATGTCTTACACTAGC
62 AGACATGTCTTACACTAGC
34083501 TCACACAAGT
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 50 0.68
95 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATACATGTCCCAGAC
ATGTCTTACACTAGCCCTCATCTCAAT
Found at i:34091925 original size:13 final size:13
Alignment explanation
Indices: 34091907--34091934 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34091897 TTACCCCTTC
34091907 CAGCTCCTAGTTA
1 CAGCTCCTAGTTA
34091920 CAGCTCCTAGTTA
1 CAGCTCCTAGTTA
34091933 CA
1 CA
34091935 CCCTTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (13 bp):
CAGCTCCTAGTTA
Found at i:34102280 original size:7 final size:7
Alignment explanation
Indices: 34102270--34102307 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
34102260 AAAATAAAAA
34102270 ATTGAGG
1 ATTGAGG
34102277 ATTGAGG
1 ATTGAGG
34102284 ATTGAGG
1 ATTGAGG
34102291 ATTGAGG
1 ATTGAGG
34102298 ATTGAGG
1 ATTGAGG
34102305 ATT
1 ATT
34102308 AGAAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (7 bp):
ATTGAGG
Found at i:34109343 original size:20 final size:20
Alignment explanation
Indices: 34109318--34109366 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
34109308 AGGGGCACAT
* *
34109318 GCCCGTGTGGCTTGGGACAC
1 GCCCGTGTGGCCTGGAACAC
*
34109338 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAC
34109358 GCCCGTGTG
1 GCCCGTGTG
34109367 CTGCAGCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.39, T:0.20
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAC
Found at i:34110261 original size:52 final size:52
Alignment explanation
Indices: 34110130--34110339 Score: 177
Period size: 52 Copynumber: 4.1 Consensus size: 52
34110120 CACATTGTCA
* * * * *
34110130 CACATCACACACCGAAGCCATAGCCCTGCCATGGTCTTACACGG-ATTACATAT
1 CACATCAC-C-CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
* **
34110183 --CAT-A--CCGATGCCATATCCCAAATATGGTCTTATAC-GAATCACATTAT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACA-TAT
*
34110230 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCTCGA-AT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-ATAT
* **** *
34110282 CATATTGTACTGATGCCATAGCCCAGCTATGGTCTTATACGGAAGT-ACATAT
1 CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAA-TCACATAT
34110334 CACATC
1 CACATC
34110340 TTTTCCGTCA
Statistics
Matches: 125, Mismatches: 21, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
45 1 0.01
46 29 0.23
47 3 0.02
49 3 0.02
50 2 0.02
51 4 0.03
52 75 0.60
53 7 0.06
54 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (52 bp):
CACATCACCCCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAT
Done.