Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 49 of 279
Found at i:16384922 original size:6 final size:6
Alignment explanation
Indices: 16384911--16384954 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
16384901 TCTTTTTTTC
*
16384911 TTTAAT TTTAAT TTTAAT TTT-AT TTTTAT GTTT-AT TTTAAT TTT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT -TTTAAT TTTAAT TTT
16384955 CTTAGACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 8 0.23
6 24 0.69
7 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTAAT
Found at i:16384932 original size:18 final size:18
Alignment explanation
Indices: 16384911--16384954 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
16384901 TCTTTTTTTC
16384911 TTTAATTTTAAT-TTTAAT
1 TTTAATTTTAATGTTT-AT
*
16384929 TTT-ATTTTTATGTTTAT
1 TTTAATTTTAATGTTTAT
16384946 TTTAATTTT
1 TTTAATTTT
16384955 CTTAGACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATTTTAATGTTTAT
Found at i:16396789 original size:15 final size:15
Alignment explanation
Indices: 16396769--16396819 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
16396759 GAACCCCTTC
16396769 CCTTTCTCTTCTCTT
1 CCTTTCTCTTCTCTT
*
16396784 CCTTTCT-TTTTCTT
1 CCTTTCTCTTCTCTT
*
16396798 TCTTTCTC-TCTTCTT
1 CCTTTCTCTTC-TCTT
*
16396813 TCTTTCT
1 CCTTTCT
16396820 TTCCTCCTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
14 13 0.42
15 18 0.58
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
CCTTTCTCTTCTCTT
Found at i:16396821 original size:19 final size:18
Alignment explanation
Indices: 16396770--16396833 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 18
16396760 AACCCCTTCC
16396770 CTTTCTCTTCTCTTCCT-TT
1 CTTTCT-TTCT-TTCCTCTT
16396789 CTTTTTCTTTCTTTCTCTCTT
1 C--TTTCTTTCTTTC-CTCTT
16396810 CTTTCTTTCTTTCCTCCTT
1 CTTTCTTTCTTTCCT-CTT
16396829 CTTTC
1 CTTTC
16396834 CCTTTCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.05
19 24 0.60
20 6 0.15
21 8 0.20
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
CTTTCTTTCTTTCCTCTT
Found at i:16396857 original size:24 final size:25
Alignment explanation
Indices: 16396810--16396855 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
16396800 TTTCTCTCTT
*
16396810 CTTTCTTTCTTTCCTCCTTCTTTCC
1 CTTTCTTTCTTCCCTCCTTCTTTCC
16396835 CTTTC-TTCTTCCCT-CTTCTTT
1 CTTTCTTTCTTCCCTCCTTCTTT
16396856 TCTCCCCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 8 0.40
25 5 0.25
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (25 bp):
CTTTCTTTCTTCCCTCCTTCTTTCC
Found at i:16402053 original size:13 final size:13
Alignment explanation
Indices: 16402035--16402059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16402025 AACAACGCCA
16402035 GACACGGCCGTGC
1 GACACGGCCGTGC
16402048 GACACGGCCGTG
1 GACACGGCCGTG
16402060 TGCACCTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.40, T:0.08
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:16407998 original size:5 final size:5
Alignment explanation
Indices: 16407988--16408042 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 5
16407978 TAAGTCCATC
16407988 TATTT TATTTT TATTTT TATCTT TATTTT TATTT TATCTT TATTT TA-TT
1 TATTT TA-TTT TA-TTT TAT-TT TA-TTT TATTT TAT-TT TATTT TATTT
16408037 TATTT T
1 TATTT T
16408043 TGAAGACTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
4 4 0.09
5 16 0.36
6 24 0.53
7 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16408001 original size:6 final size:6
Alignment explanation
Indices: 16407990--16408037 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
16407980 AGTCCATCTA
* *
16407990 TTTTAT TTTTAT TTTTAT CTTTAT TTTTA- TTTTAT CTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
16408036 TT
1 TT
16408038 ATTTTTGAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 9 0.25
6 27 0.75
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16408007 original size:12 final size:11
Alignment explanation
Indices: 16407990--16408037 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
16407980 AGTCCATCTA
16407990 TTTTATTTTTAT
1 TTTTA-TTTTAT
16408002 TTTTATCTTTAT
1 TTTTAT-TTTAT
16408014 TTTTATTTTAT
1 TTTTATTTTAT
*
16408025 CTTTATTTTAT
1 TTTTATTTTAT
16408036 TT
1 TT
16408038 ATTTTTGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 17 0.52
12 16 0.48
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:16408022 original size:17 final size:17
Alignment explanation
Indices: 16407991--16408037 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
16407981 GTCCATCTAT
16407991 TTTATTTTTATTTTTATC
1 TTTATTTTTA-TTTTATC
16408009 TTTATTTTTATTTTATC
1 TTTATTTTTATTTTATC
16408026 TTTA-TTTTATTT
1 TTTATTTTTATTT
16408038 ATTTTTGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.28
17 11 0.38
18 10 0.34
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTATC
Found at i:16414411 original size:120 final size:120
Alignment explanation
Indices: 16414265--16414510 Score: 429
Period size: 120 Copynumber: 2.0 Consensus size: 120
16414255 AAAAATATCG
* *
16414265 TTAAGTAATTTTATTGATAAAGTGCTTAATTGGACTTTTAGGACTAAATTGCAAAAGTTACAAAA
1 TTAAATAATTTTATTGATAAAGTGCTTAATTGGACGTTTAGGACTAAATTGCAAAAGTTACAAAA
* *
16414330 TATGTGTTCTAATTCATAAGTACTTGATTGAAATGGGGGTTTAAAAAGGAGGTCC
66 TATGTGTTCTAATTCATAACTACTTGATTGAAATGAGGGTTTAAAAAGGAGGTCC
*
16414385 TTAAATAATTTTATTGATAAAGTGCTTAATTGGACGTTTAGGACTAAATTGCAAAAGTTGCAAAA
1 TTAAATAATTTTATTGATAAAGTGCTTAATTGGACGTTTAGGACTAAATTGCAAAAGTTACAAAA
**
16414450 TATGTGTTCTAATTCATAACTACTTGATTGAAATGAGGGTTTAAAGTGGAGGTCC
66 TATGTGTTCTAATTCATAACTACTTGATTGAAATGAGGGTTTAAAAAGGAGGTCC
16414505 TTAAAT
1 TTAAAT
16414511 GGCAATTAGA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (120 bp):
TTAAATAATTTTATTGATAAAGTGCTTAATTGGACGTTTAGGACTAAATTGCAAAAGTTACAAAA
TATGTGTTCTAATTCATAACTACTTGATTGAAATGAGGGTTTAAAAAGGAGGTCC
Found at i:16417893 original size:16 final size:16
Alignment explanation
Indices: 16417872--16417911 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
16417862 GAGCATAGGG
*
16417872 GCAAAAGTGTAAATAT
1 GCAAAAGTGTAAATAA
16417888 GCAAAAGTGTAAATAA
1 GCAAAAGTGTAAATAA
16417904 GCAAAAGT
1 GCAAAAGT
16417912 TTAGGGGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
GCAAAAGTGTAAATAA
Found at i:16424071 original size:35 final size:35
Alignment explanation
Indices: 16424032--16424101 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
16424022 TCCATCTCAG
16424032 AAGCCGGATTCATCATTAAGACTGAAGATCTCTCC
1 AAGCCGGATTCATCATTAAGACTGAAGATCTCTCC
16424067 AAGCCGGATTCATCATTAAGACTGAAGATCTCTCC
1 AAGCCGGATTCATCATTAAGACTGAAGATCTCTCC
16424102 TCAATTTCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (35 bp):
AAGCCGGATTCATCATTAAGACTGAAGATCTCTCC
Found at i:16434180 original size:19 final size:18
Alignment explanation
Indices: 16434156--16434200 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
16434146 TTCAGAACAA
16434156 TCATTTATCAAATATCATT
1 TCATTTATCAAATATCA-T
*
16434175 TCATTTCATTAAATATCAT
1 TCATTT-ATCAAATATCAT
16434194 TCATTTA
1 TCATTTA
16434201 CATTATACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.54
20 10 0.42
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.49
Consensus pattern (18 bp):
TCATTTATCAAATATCAT
Found at i:16434190 original size:20 final size:19
Alignment explanation
Indices: 16434156--16434205 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16434146 TTCAGAACAA
*
16434156 TCATTT-ATCAAATATCATT
1 TCATTTCATTAAATATCA-T
16434175 TCATTTCATTAAATATCAT
1 TCATTTCATTAAATATCAT
16434194 TCATTTACATTA
1 TCATTT-CATTA
16434206 TACATGTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (19 bp):
TCATTTCATTAAATATCAT
Found at i:16435837 original size:20 final size:20
Alignment explanation
Indices: 16435738--16435837 Score: 96
Period size: 20 Copynumber: 5.0 Consensus size: 20
16435728 CGTATAACCT
** *
16435738 GTAATTCATTAATATAACCA
1 GTAATTCATCCATATAAACA
*
16435758 GTAATTCATCCATATAAATA
1 GTAATTCATCCATATAAACA
*
16435778 GTAGTTCAT-CAGTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* * *
16435798 GTAGTTCATCCGTATCAACA
1 GTAATTCATCCATATAAACA
16435818 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
16435838 CATATCTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.05
20 61 0.94
21 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:16436022 original size:25 final size:24
Alignment explanation
Indices: 16435983--16436109 Score: 93
Period size: 23 Copynumber: 5.4 Consensus size: 24
16435973 GCCATGATCG
*
16435983 ATAAGCTCCTCTTGAGCTGATAAACA
1 ATAAGCT-CTATTGAGCTGA-AAACA
*
16436009 ATAAGCTCTATTGAGCTG-AAACG
1 ATAAGCTCTATTGAGCTGAAAACA
*
16436032 ATAAGCTCTATCGAGCTG--AACA
1 ATAAGCTCTATTGAGCTGAAAACA
* * * *
16436054 GTAAACTC-ATATGAGCTG-AATCG
1 ATAAGCTCTAT-TGAGCTGAAAACA
* * *
16436077 GTAAGCTCCAATGAGCTGAAAACA
1 ATAAGCTCTATTGAGCTGAAAACA
*
16436101 GTAAGCTCT
1 ATAAGCTCT
16436110 TACGAGCTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 37 0.45
24 12 0.14
25 10 0.12
26 7 0.08
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
ATAAGCTCTATTGAGCTGAAAACA
Found at i:16436082 original size:45 final size:46
Alignment explanation
Indices: 16436020--16436134 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 46
16436010 TAAGCTCTAT
*
16436020 TGAGCTGAAACGATAAGCT-CTATCGAGCTG-AACAGTAAACTCATA
1 TGAGCTGAAACGATAAGCTCCAAT-GAGCTGAAACAGTAAACTCATA
* * * *
16436065 TGAGCTGAATCGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTA
1 TGAGCTGAAACGATAAGCTCCAATGAGCTG-AAACAGTAAACTCATA
*
16436112 CGAGCTGATATATCGATAAGCTC
1 TGAGCTGA-A-A-CGATAAGCTC
16436135 ATACAAGCTG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
45 23 0.41
46 3 0.05
47 20 0.36
48 1 0.02
50 9 0.16
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (46 bp):
TGAGCTGAAACGATAAGCTCCAATGAGCTGAAACAGTAAACTCATA
Found at i:16440950 original size:18 final size:18
Alignment explanation
Indices: 16440929--16440963 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16440919 TAAGTAATGG
16440929 TTAGCTGTTAGCAGTTAA
1 TTAGCTGTTAGCAGTTAA
* *
16440947 TTAGTTGTTAGTAGTTA
1 TTAGCTGTTAGCAGTTA
16440964 TTGTCGTTAC
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:0.06, G:0.23, T:0.46
Consensus pattern (18 bp):
TTAGCTGTTAGCAGTTAA
Found at i:16453473 original size:18 final size:18
Alignment explanation
Indices: 16453452--16453515 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 18
16453442 AAAAATTCAA
16453452 AAAAAAATAAAATTATTT
1 AAAAAAATAAAATTATTT
* *
16453470 -AAAAATTCAACAA-AATTT
1 AAAAAAAT-AA-AATTATTT
* *
16453488 AAAAAAATTAATATTTTTT
1 AAAAAAA-TAAAATTATTT
16453507 AAAAAAATA
1 AAAAAAATA
16453516 TCTACGCCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 6 0.17
18 9 0.26
19 19 0.54
20 1 0.03
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAAATAAAATTATTT
Found at i:16453960 original size:66 final size:66
Alignment explanation
Indices: 16453885--16454018 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
16453875 ACTAAAAAAG
* *
16453885 TAAGGCTAAAAAGAAATTGATGCATCTCTTTATTCTCTTTATTTTTTATTTCACCTTTTTCCTCT
1 TAAGGCTAAAAAGAAATTGACGCATCTCTTTATTCTCTTCATTTTTTATTTCACCTTTTTCCTCT
16453950 A
66 A
* * *
16453951 TAAGGCTAAAGAGAAATTGGCGCATCTCTTTATTCTCTTCATTTTTTATTTCGCCTTTTTCCTCT
1 TAAGGCTAAAAAGAAATTGACGCATCTCTTTATTCTCTTCATTTTTTATTTCACCTTTTTCCTCT
16454016 A
66 A
16454017 TA
1 TA
16454019 CTCTCTTTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (66 bp):
TAAGGCTAAAAAGAAATTGACGCATCTCTTTATTCTCTTCATTTTTTATTTCACCTTTTTCCTCT
A
Found at i:16463788 original size:18 final size:18
Alignment explanation
Indices: 16463765--16463835 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
16463755 AGGAAGTATC
16463765 ATTCATTTTCAAAACGTT
1 ATTCATTTTCAAAACGTT
*
16463783 ATTCATTGTCACAAA-GTT
1 ATTCATTTTCA-AAACGTT
*
16463801 ATAC-TCTTTCAAAACGTT
1 ATTCAT-TTTCAAAACGTT
*
16463819 ATTAATTTTCAAAACGT
1 ATTCATTTTCAAAACGT
16463836 CACTTATTGC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 36 0.82
19 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (18 bp):
ATTCATTTTCAAAACGTT
Found at i:16463941 original size:18 final size:18
Alignment explanation
Indices: 16463907--16463944 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16463897 TTGAGAGAGT
*
16463907 ATAACTTTGTGATAATGA
1 ATAACTTTGTGAAAATGA
16463925 ATAACGTTT-TGAAAATGA
1 ATAAC-TTTGTGAAAATGA
16463943 AT
1 AT
16463945 GACACGTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAACTTTGTGAAAATGA
Found at i:16464390 original size:26 final size:26
Alignment explanation
Indices: 16464360--16464412 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
16464350 ACCATTATTA
16464360 AGTTTA-TATATTAT-TTCATTAAGGAT
1 AGTTTAGTA-ATTATGTT-ATTAAGGAT
*
16464386 AGTTTAGTAATTATGTTATTAATGAT
1 AGTTTAGTAATTATGTTATTAAGGAT
16464412 A
1 A
16464413 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (26 bp):
AGTTTAGTAATTATGTTATTAAGGAT
Found at i:16465421 original size:18 final size:18
Alignment explanation
Indices: 16465354--16465424 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
16465344 GCAATAAGTG
*
16465354 ACGTTTTGAAAATTAATA
1 ACGTTTTGAAAATGAATA
*
16465372 ACGTTTTGAAAGA-GTATA
1 ACGTTTTGAAA-ATGAATA
*
16465390 AC-TTTGTGATAATGAATA
1 ACGTTT-TGAAAATGAATA
16465408 ACGTTTTGAAAATGAAT
1 ACGTTTTGAAAATGAAT
16465425 GACACATCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 36 0.82
19 4 0.09
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.37
Consensus pattern (18 bp):
ACGTTTTGAAAATGAATA
Found at i:16465947 original size:23 final size:23
Alignment explanation
Indices: 16465921--16465967 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16465911 CGAGAGTAAG
16465921 AACAACTGACTCTAGGTCGATTA
1 AACAACTGACTCTAGGTCGATTA
*
16465944 AACAACTGACTCTAGGTTGATTA
1 AACAACTGACTCTAGGTCGATTA
16465967 A
1 A
16465968 TTGAAATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (23 bp):
AACAACTGACTCTAGGTCGATTA
Found at i:16480656 original size:36 final size:36
Alignment explanation
Indices: 16480606--16480698 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
16480596 TACGACCGTT
*
16480606 TACGGTACTATTCACGTATATGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
16480642 TATGGTACTATTCACGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
* *
16480678 TACGGTACTGTTCACATATAC
1 TACGGTACTATTCACGTATAC
16480699 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:16480680 original size:18 final size:18
Alignment explanation
Indices: 16480606--16480698 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
16480596 TACGACCGTT
16480606 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
16480624 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
16480642 TATGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
16480660 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
16480678 TACGGTACTGTTCACATA
1 TACGGTACTATTCACGTA
16480696 TAC
1 TAC
16480699 AGTAGTTGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:16489505 original size:22 final size:22
Alignment explanation
Indices: 16489480--16489521 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16489470 AGCTTAATTA
16489480 AGCTCATTCAT-ATTTAAGTTCG
1 AGCTCATTCATGA-TTAAGTTCG
*
16489502 AGCTCGTTCATGATTAAGTT
1 AGCTCATTCATGATTAAGTT
16489522 GTATCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
AGCTCATTCATGATTAAGTTCG
Found at i:16500738 original size:29 final size:29
Alignment explanation
Indices: 16500700--16500778 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 29
16500690 ACTTTGTGCT
*
16500700 ATTCTGGTGTGTTTTGGATGGATTATATT
1 ATTCTGGTGTGTTTTGGATGGATTATATG
* *
16500729 CTTCTGGTGTGTTTGGGA-GGATTATATG
1 ATTCTGGTGTGTTTTGGATGGATTATATG
* *
16500757 ATACTGGTGTGTTTTGGTTGGA
1 ATTCTGGTGTGTTTTGGATGGA
16500779 CATTTTGGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 23 0.55
29 19 0.45
ACGTcount: A:0.15, C:0.05, G:0.33, T:0.47
Consensus pattern (29 bp):
ATTCTGGTGTGTTTTGGATGGATTATATG
Found at i:16501011 original size:21 final size:21
Alignment explanation
Indices: 16500963--16501028 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 21
16500953 GGCTATACTG
*
16500963 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
*
16500984 ATTTCAGGCACCTTGTGTGTCGT
1 A--TCAGGCACCTTATGTGTCGT
16501007 ATCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTTATGTGTCGT
16501027 AT
1 AT
16501029 AATGATCAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 13 0.32
21 8 0.20
23 19 0.47
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (21 bp):
ATCAGGCACCTTATGTGTCGT
Found at i:16502160 original size:46 final size:46
Alignment explanation
Indices: 16502110--16502259 Score: 140
Period size: 46 Copynumber: 3.1 Consensus size: 46
16502100 TGGTTAGACC
16502110 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
* * * * * *
16502156 ATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCT
* * *
16502209 ATGGCATCAGTGTGATATGTGAT-TCATGTAAGACCATGGCTGGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCT
16502255 ATGGC
1 ATGGC
16502260 TACGGTGTGT
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
46 30 0.37
47 5 0.06
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 5 0.06
53 28 0.35
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCT
Found at i:16505325 original size:25 final size:26
Alignment explanation
Indices: 16505291--16505351 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 26
16505281 AGTATAATAG
* *
16505291 AATAGGAGAAGAGAAAAAGAAAAGAA
1 AATAGGAGAACAGAAAAAAAAAAGAA
16505317 AATA-GAGAACAGAAAAAAAAAAGAA
1 AATAGGAGAACAGAAAAAAAAAAGAA
16505342 AA-ATGGAGAA
1 AATA-GGAGAA
16505352 ATTTTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 1 0.03
25 21 0.68
26 9 0.29
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (26 bp):
AATAGGAGAACAGAAAAAAAAAAGAA
Found at i:16511357 original size:23 final size:22
Alignment explanation
Indices: 16511331--16511412 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 22
16511321 TATTTCTTAG
16511331 TATTATATCTTATCATGTATTTT
1 TATTAT-TCTTATCATGTATTTT
* *
16511354 TATTATTCTT-TCACATTTTATATAT
1 TATTATTCTTAT--CA-TGTAT-TTT
*
16511379 TATTTAAGTCTTATCATGTATTTT
1 TA-TT-ATTCTTATCATGTATTTT
16511403 TATTATTCTT
1 TATTATTCTT
16511413 TCACATTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 15
0.69 0.09 0.22
Matches are distributed among these distances:
21 1 0.02
22 9 0.20
23 10 0.22
24 8 0.17
25 8 0.17
26 4 0.09
27 5 0.11
28 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.61
Consensus pattern (22 bp):
TATTATTCTTATCATGTATTTT
Found at i:16511397 original size:49 final size:49
Alignment explanation
Indices: 16511338--16511436 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
16511328 TAGTATTATA
16511338 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
1 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
16511387 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
1 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
16511436 T
1 T
16511437 TATCGTGTAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.60
Consensus pattern (49 bp):
TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
Found at i:16511731 original size:20 final size:20
Alignment explanation
Indices: 16511689--16511732 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16511679 TATTGCGCCA
*
16511689 TATTTATTGTTGTTGTATAT
1 TATTTATTATTGTTGTATAT
*
16511709 TATTTATTCATTGTTTTAT-T
1 TATTTATT-ATTGTTGTATAT
16511729 TATT
1 TATT
16511733 ATATCAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TATTTATTATTGTTGTATAT
Found at i:16515011 original size:40 final size:40
Alignment explanation
Indices: 16514954--16515180 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
16514944 CTAACGAGGT
* * *
16514954 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
16514994 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
16515034 TAAGTCCCGAAGGAATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
*
16515074 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT-CGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTCCGGGC
* * *
16515114 TAAGTCCTGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
16515154 TAAGACCCGAAGGC-CTTGTGCGAGTGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTGA
16515181 TTATCTCCGG
Statistics
Matches: 168, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 12 0.07
40 151 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:16519504 original size:46 final size:46
Alignment explanation
Indices: 16519345--16519516 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 46
16519335 TGTAACCAGC
* * * *** *
16519345 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * *
16519391 CCATAATTGAACTCGGAATCAACTCAACGAGCTT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA---C-ATTTGCAT
*
16519441 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
16519484 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
16519517 TGGATGCCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 56 0.57
47 26 0.26
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:16519512 original size:93 final size:93
Alignment explanation
Indices: 16519353--16519524 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
16519343 GCCCATAAGT
* *** *
16519353 GAACTCAGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAATTGAACTCGGAATCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
16519418 CGAGCTTGGATGCCTAGTTACATCTCTC
66 CGAGCTTGGATGCCTAGTTACATCTCTC
* * * *
16519446 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
*
16519511 CGAGTTTGGATGCC
66 CGAGCTTGGATGCC
16519525 CAAACATCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCAA
CGAGCTTGGATGCCTAGTTACATCTCTC
Found at i:16519539 original size:46 final size:46
Alignment explanation
Indices: 16519398--16519539 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 46
16519388 CATCCATAAT
* *
16519398 TGAACTCGGAATCAACTCAACGAGCTTGGATGCCTAGTTACATCTCT--
1 TGAACTCGGACTCAACTCAACGAGTTTGGATGCCTA--TACATC-CTAG
* * * * *
16519445 CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTTGGATGCCTATACATCC-T-AG
* *
16519491 TGAACTCGGACTCAACTCAACGAGTTTGGATGCCCAAACATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTTGGATGCCTATACATCCTAG
16519537 TGA
1 TGA
16519540 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 13
0.74 0.14 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.44
47 27 0.36
48 6 0.08
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTTGGATGCCTATACATCCTAG
Found at i:16522996 original size:49 final size:49
Alignment explanation
Indices: 16522822--16523122 Score: 488
Period size: 49 Copynumber: 6.3 Consensus size: 49
16522812 CCCTTCGGGA
* * * * *
16522822 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16522869 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16522916 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16522963 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16523012 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16523061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16523110 CTTATCACATATA
1 CTTATCACATATA
16523123 CTATCATGTA
Statistics
Matches: 239, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 88 0.37
49 150 0.63
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16526079 original size:40 final size:40
Alignment explanation
Indices: 16526047--16526388 Score: 304
Period size: 40 Copynumber: 8.6 Consensus size: 40
16526037 CCAGCATGAT
* * *
16526047 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
16526087 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
16526127 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
16526167 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * * *
16526207 TGCTCTTCGGAACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * * * * *
16526248 TGC-CTTCGGGACTTAACCCGAATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * *
16526288 TGC-CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATA-TA-TCACTAGCACGAA
* * *
16526327 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTACCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
16526367 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
16526389 CATCATTCGA
Statistics
Matches: 255, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
38 2 0.01
39 31 0.12
40 201 0.79
41 21 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:16526255 original size:120 final size:120
Alignment explanation
Indices: 16526021--16526388 Score: 354
Period size: 120 Copynumber: 3.1 Consensus size: 120
16526011 GGGCACGAAG
* * * * * *
16526021 GCCCGAATACACGTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGA
1 GCCCGGATACA-GTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-ATCACTAGCACGA
*** * * *
16526086 ATGCTCTTCGGGGTTTAGCACGGATATA-TCACTAGCACAAATGCTCTTCGGAACTTA
64 ATGCTCTTCGGAACTTAGCCCGGATATAGTCACTCGCACAAATGC-CTTCGGGACTTA
16526143 GCCCGGATACA-TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 GCCCGGATACAGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA-ATCACTAGCACGAA
* *
16526207 TGCTCTTCGGAACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA
65 TGCTCTTCGGAACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTA
* * ** * * ** * * * *
16526263 ACCCGAATTTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAA
1 GCCCGGATACAGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGG-A-TAATCACTAGCACGA
* * *
16526326 ATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAC-CACAAA-GCCTTCGGGACTTA
64 ATGCTCTTCGGAACTTAGCCCGGATATAGTCAC-T-CGCACAAATGCCTTCGGGACTTA
16526382 GCCCGGA
1 GCCCGGA
16526389 CATCATTCGA
Statistics
Matches: 206, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
119 52 0.25
120 115 0.56
121 29 0.14
122 10 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (120 bp):
GCCCGGATACAGTCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATAATCACTAGCACGAAT
GCTCTTCGGAACTTAGCCCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTA
Found at i:16532952 original size:93 final size:93
Alignment explanation
Indices: 16532838--16533009 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
16532828 GCCCATAAGT
* * * **
16532838 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATTCATAAGTGAACTCGGAATCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCACAATCAACTCAA
16532903 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
16532931 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCACACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCACAATCAACTCAA
*
16532996 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
16533010 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCACAATCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:16532996 original size:46 final size:46
Alignment explanation
Indices: 16532830--16533005 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
16532820 TGTAACTCGC
* * *
16532830 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
16532876 TCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
16532926 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
** *
16532969 CCATAAGTGAACTCACACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
16533006 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 61 0.58
47 27 0.26
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:16534985 original size:19 final size:19
Alignment explanation
Indices: 16534961--16535000 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
16534951 AATGTCTCAT
*
16534961 TTGCATT-CATGCATTTGCA
1 TTGCATTACAT-CATATGCA
16534980 TTGCATTACATCATATGCA
1 TTGCATTACATCATATGCA
16534999 TT
1 TT
16535001 AAAGACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 16 0.84
20 3 0.16
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (19 bp):
TTGCATTACATCATATGCA
Found at i:16543610 original size:46 final size:47
Alignment explanation
Indices: 16543547--16543665 Score: 132
Period size: 48 Copynumber: 2.5 Consensus size: 47
16543537 ACAGGACAAG
* * *
16543547 ACAGAAATGAGCCATGTAAGTCCATA-CCAGATATATGGCTTTGGAC
1 ACAGGAATGAGCCATGTAAGTCCATATACAGATATATGGCATTGGAC
* * * *
16543593 ACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATA-TACAGATATATGGCATTGGAC
* **
16543641 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16543666 GTCGAAGACA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 24 0.40
48 36 0.60
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (47 bp):
ACAGGAATGAGCCATGTAAGTCCATATACAGATATATGGCATTGGAC
Found at i:16543648 original size:48 final size:46
Alignment explanation
Indices: 16543545--16543648 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 46
16543535 GGACAGGACA
* * * *
16543545 AGACAGAAATGAGCCATGTAAGTCCATACCAGATATATGGCTTTGG
1 AGACAGGAATGAGCCATGTAAGCCCATAACAGATATATGGCATTGG
* * *
16543591 ACACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGG
1 AGACAGGAATGAGCCATGTAAGCCCATA--ACAGATATATGGCATTGG
16543639 AGACAGGAAT
1 AGACAGGAAT
16543649 AATTCATGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 25 0.52
48 23 0.48
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (46 bp):
AGACAGGAATGAGCCATGTAAGCCCATAACAGATATATGGCATTGG
Found at i:16550975 original size:46 final size:48
Alignment explanation
Indices: 16550908--16551004 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
16550898 ACAGGACAGA
* *
16550908 AATGAGCCATGTAAGTCCATA-T-CATATATATGGCTTTGGAGACAAG
1 AATGAGCCATGTAAGCCCATATTACATATATATGGCATTGGAGACAAG
* *
16550954 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTACATATATATGGCATTGGAGACAAG
16551002 AAT
1 AAT
16551005 AATTCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 20 0.44
47 1 0.02
48 24 0.53
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGCCCATATTACATATATATGGCATTGGAGACAAG
Found at i:16551013 original size:48 final size:46
Alignment explanation
Indices: 16550912--16551021 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 46
16550902 GACAGAAATG
* *
16550912 AGCCATGTAAGTCCATATCATATATATGGCTTTGGAGACAAGAATG
1 AGCCATGTAAGTCCATATCATATATATGGCATTGGAGACAAGAATA
* * *
16550958 AGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGGAATA
1 AGCCATGTAAGTCCATA-T-CATATATATGGCATTGGAGACAAGAATA
**
16551006 ATTCATGTAAGTCCAT
1 AGCCATGTAAGTCCAT
16551022 GTCGAAGACA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
46 16 0.30
47 1 0.02
48 37 0.69
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (46 bp):
AGCCATGTAAGTCCATATCATATATATGGCATTGGAGACAAGAATA
Found at i:16553705 original size:45 final size:43
Alignment explanation
Indices: 16553605--16553705 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
16553595 TACCACCAGC
* * **
16553605 CTTATCTCTCTGAGATAGTAAGAGAGCAGGTTGAAGAATGAGT
1 CTTATCTCCCTGAGATAGCAAGAGAGCAGACTGAAGAATGAGT
* * *
16553648 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCCCTGAGATAGCAAGAG-AGCAGACTGAAGAATG-AG-T
16553693 CTTATCTCCCTGA
1 CTTATCTCCCTGA
16553706 AGTTGCAGCG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
42 1 0.02
43 31 0.66
44 2 0.04
45 13 0.28
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
CTTATCTCCCTGAGATAGCAAGAGAGCAGACTGAAGAATGAGT
Found at i:16553919 original size:178 final size:177
Alignment explanation
Indices: 16553511--16554495 Score: 1258
Period size: 178 Copynumber: 5.6 Consensus size: 177
16553501 ATTGATAAAG
* * * * *
16553511 GAAGATCTTATCTCCCTGAAGTTGCAGAGGAGCAGATCGAATATAGTGAATCTTATCTCCATGTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
* * * *
16553576 TCGGTAATGGAGCAAATTTTACCACCAGCCTTATCTCTCTGAGATAGTAAGAGAGCAGGTTGAAG
66 TCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
* * *
16553641 AA-TGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
131 AATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
* * * * *
16553687 GAAGATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATCGAGGACGACAAATCTTATCTCCATGTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
* * * * * ** * * *
16553752 CCGGTAATGGAGCAGATTTAAGTCACCAGCCTTATCTCCCTGAAATTGC-AGTGGAACAGGTTGA
66 TCGGCAATGGAGCAGATTTTA-CCACCAGCCTTATCTCTCTGAGGTAGCAAG-AGAGCAGGTTGA
* * * * *
16553816 AGATATTG-GTTTTATCTTCCTGAGGTAGTAAGGAAGTAGACTAAAGATT
129 AGA-ATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
* * * * *
16553865 GAAGATTTTATCTCCCTAAAGTTGTAGCAGAACAGATTGAAGATGGCGAATCTTATCTCCATGTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
* * *
16553930 TCGGCAATGGAGCGGATTTTTACCGCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCGGGTTGAA
66 TCGGCAATGGAGCAGA-TTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
16553995 GAATTGAGTCTTATCTTTCTG-GCGTAGCAAGAAAGCAGACTAAAGATT
130 GAATTGAGTCTTATCTTTCTGAG-GTAGCAAGAAAGCAGACTAAAGATT
* * * *
16554043 GAAGATCTTATCTCCCTAAAGTTGTAGCGGAGCAGATTGAAGAAGGCGAATCTTATCTCCATCTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
* * * * *
16554108 TCAGCAATGGAGCATATTTTTACCGCCAGCCTTATCTCTCTGAGGTAGCAAGAGAACGGGTTGAA
66 TCGGCAATGGAGCAGA-TTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* * *
16554173 AAATTGAGTATTATCTTTCTGAGGTAGCAAGAAAGTAGACTAAAGATT
130 GAATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
* * * * *
16554221 GAAGATTTTATCTCCCTAAAGTTGTAGCGGAGCAGATAGAAGAAGGCGAATCTTATCTCCATCTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
* * * * * *
16554286 TCAGCAATGTAGCAGATTCTACCGCCAGCCATATCTCTTTGAGGTAGCAAGAGAGCAGGTTGAAG
66 TCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
*
16554351 AATTAAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
131 AATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
* * * * *
16554398 GAAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGTGGATTTTATCTCCATGTA
1 GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
*
16554463 TCGGCAATGGAGCATATTTTACCACCAGCCTTA
66 TCGGCAATGGAGCAGATTTTACCACCAGCCTTA
16554496 ATCTTTCTAA
Statistics
Matches: 709, Mismatches: 91, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
176 77 0.11
177 209 0.29
178 414 0.58
179 9 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (177 bp):
GAAGATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATCGAAGATGGCGAATCTTATCTCCATGTA
TCGGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAG
AATTGAGTCTTATCTTTCTGAGGTAGCAAGAAAGCAGACTAAAGATT
Found at i:16556173 original size:49 final size:49
Alignment explanation
Indices: 16556114--16556261 Score: 296
Period size: 49 Copynumber: 3.0 Consensus size: 49
16556104 TAGTATTATA
16556114 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
1 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
16556163 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
1 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
16556212 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
1 TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
16556261 T
1 T
16556262 TATCGTGTAC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 99 1.00
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.59
Consensus pattern (49 bp):
TCTTATCATGTATTTTTATTATTCTTTCACATTTTATATATTATTTAAG
Found at i:16556182 original size:27 final size:27
Alignment explanation
Indices: 16556152--16556234 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
16556142 ACATTTTATA
16556152 TATTATTTAAGTCTTATCATGTATTTT
1 TATTATTTAAGTCTTATCATGTATTTT
* *
16556179 TATTATTCT---T-TCA-CAT-T-TTATA
1 TATTATT-TAAGTCTTATCATGTATT-TT
16556201 TATTATTTAAGTCTTATCATGTATTTT
1 TATTATTTAAGTCTTATCATGTATTTT
16556228 TATTATT
1 TATTATT
16556235 CTTTCACATT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 3 0.07
22 9 0.21
23 3 0.07
24 3 0.07
25 3 0.07
26 3 0.07
27 16 0.37
28 3 0.07
ACGTcount: A:0.27, C:0.08, G:0.05, T:0.60
Consensus pattern (27 bp):
TATTATTTAAGTCTTATCATGTATTTT
Found at i:16556313 original size:16 final size:17
Alignment explanation
Indices: 16556281--16556314 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16556271 CATTGTCAAC
16556281 TTTAAAATGAATTTACA
1 TTTAAAATGAATTTACA
*
16556298 TTTAAAAT-ATTTTACA
1 TTTAAAATGAATTTACA
16556314 T
1 T
16556315 ATAATTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTAAAATGAATTTACA
Found at i:16556556 original size:20 final size:20
Alignment explanation
Indices: 16556514--16556557 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16556504 TATTGTGCCA
*
16556514 TATTTATTGTTGTTGTATAT
1 TATTTATTATTGTTGTATAT
*
16556534 TATTTATTCATTGTTTTAT-T
1 TATTTATT-ATTGTTGTATAT
16556554 TATT
1 TATT
16556558 ATATCAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (20 bp):
TATTTATTATTGTTGTATAT
Found at i:16557507 original size:17 final size:17
Alignment explanation
Indices: 16557485--16557523 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
16557475 ATTATTTTAA
* *
16557485 TTTAATTTTTGACATAT
1 TTTAATTATTAACATAT
*
16557502 TTTAATTATTAATATAT
1 TTTAATTATTAACATAT
16557519 TTTAA
1 TTTAA
16557524 AACTATCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTAATTATTAACATAT
Found at i:16573831 original size:25 final size:26
Alignment explanation
Indices: 16573772--16573859 Score: 108
Period size: 25 Copynumber: 3.5 Consensus size: 26
16573762 ACGAGCTGTA
16573772 AACGGTAAGCTCCTCCGAGCTGAAAT
1 AACGGTAAGCTCCTCCGAGCTGAAAT
* **
16573798 AATGGTAAGCTCCTTTGAGCT-AAAT
1 AACGGTAAGCTCCTCCGAGCTGAAAT
* *
16573823 AACGATAAGCTCCTCCGAGTTG-AAT
1 AACGGTAAGCTCCTCCGAGCTGAAAT
*
16573848 AACAGTAAGCTC
1 AACGGTAAGCTC
16573860 ATAAGAGCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
25 33 0.65
26 18 0.35
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (26 bp):
AACGGTAAGCTCCTCCGAGCTGAAAT
Found at i:16573868 original size:50 final size:51
Alignment explanation
Indices: 16573772--16573871 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
16573762 ACGAGCTGTA
* ** * **
16573772 AACGGTAAGCTCCTCCGAGCTGAAATAATGGTAAGCTCCTTTGAGCTAAAT
1 AACGATAAGCTCCTCCGAGCTGAAATAACAGTAAGCTCATAAGAGCTAAAT
*
16573823 AACGATAAGCTCCTCCGAGTTG-AATAACAGTAAGCTCATAAGAGCTAAA
1 AACGATAAGCTCCTCCGAGCTGAAATAACAGTAAGCTCATAAGAGCTAAA
16573872 ATCGGTAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 22 0.52
51 20 0.48
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (51 bp):
AACGATAAGCTCCTCCGAGCTGAAATAACAGTAAGCTCATAAGAGCTAAAT
Found at i:16578170 original size:75 final size:76
Alignment explanation
Indices: 16578020--16578170 Score: 250
Period size: 75 Copynumber: 2.0 Consensus size: 76
16578010 CATGAAACTT
*
16578020 GGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATG
1 GGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATA
*
16578085 ACTACGTGTGG
66 ACTACATGTGG
* *
16578096 GGAGATTATGTCCGGGTAAGACCC-ATGACTACGTGTGGAGATTTTGTCTGGGTAAGACCCGATA
1 GGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATA
*
16578160 ACTTCATGTGG
66 ACTACATGTGG
16578171 AGATTTCATC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 46 0.66
76 24 0.34
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (76 bp):
GGAGATTATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTATGTCCGGGTAAGACCCGATA
ACTACATGTGG
Found at i:16578176 original size:37 final size:37
Alignment explanation
Indices: 16578019--16578175 Score: 244
Period size: 37 Copynumber: 4.2 Consensus size: 37
16578009 ACATGAAACT
16578019 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
16578056 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
16578093 TGGGGAGATTATGTCCGGGTAAGACCC-ATGACTACGTG
1 T--GGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
* * * * *
16578131 TGGAGATTTTGTCTGGGTAAGACCCGATAACTTCATG
1 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
16578168 TGGAGATT
1 TGGAGATT
16578176 TCATCTGAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
36 22 0.20
37 54 0.48
38 12 0.11
39 24 0.21
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
Found at i:16599617 original size:28 final size:28
Alignment explanation
Indices: 16599577--16599704 Score: 213
Period size: 28 Copynumber: 4.6 Consensus size: 28
16599567 ATTCGATATT
16599577 TCGCACACTAAGTGCCATAC-CAAATGTC
1 TCGCACACTAAGTGCCATACTC-AATGTC
*
16599605 TCGCACACTAAGTGCCATATTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
16599633 TCGCACACTAAGTGTCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
*
16599661 TCACACACTAAGTGCCATACTCAATGTC
1 TCGCACACTAAGTGCCATACTCAATGTC
16599689 TCGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
16599705 GTATATAGCT
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 92 0.99
29 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATACTCAATGTC
Found at i:16613139 original size:41 final size:41
Alignment explanation
Indices: 16613094--16613191 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
16613084 CGGATACTTA
16613094 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
1 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
*
16613135 ACAGCCTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
1 ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
16613176 ACAGCTTGTGTGAGCA
1 ACAGCTTGTGTGAGCA
16613192 AGCCCGTCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (41 bp):
ACAGCTTGTGTGAGCAGCACCATATAGCTACGTCTTGACTG
Found at i:16614006 original size:15 final size:17
Alignment explanation
Indices: 16613976--16614007 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16613966 TTGACACTTG
16613976 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
16613993 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
16614008 AAACATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:16625469 original size:40 final size:40
Alignment explanation
Indices: 16625386--16625560 Score: 226
Period size: 40 Copynumber: 4.3 Consensus size: 40
16625376 CGACTTCTCG
* * * *
16625386 CACACTAAGGGCCAATACATAGCTGAACCTAT-TTTAATCTCA
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTTGAA--TCA
* * *
16625428 CACACTAAGTGTCATATATAGCCGAAGCTATCTCGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
*
16625468 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
**
16625508 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATTG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
16625548 CACACTAAGTGCC
1 CACACTAAGTGCC
16625561 TTACTTAACT
Statistics
Matches: 120, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 91 0.76
41 15 0.12
42 14 0.12
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
Found at i:16628840 original size:41 final size:41
Alignment explanation
Indices: 16628795--16628873 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 41
16628785 GGCTATATAT
* *
16628795 GGCACTTAGCGTGTGAGATTGA-GATAGCTTCAGCTATGAAA
1 GGCACTTAGCGTGCGAGATT-ATAATAGCTTCAGCTATGAAA
* *
16628836 GGCACTTAGTGTGCGAGATTATAATAGTTTCAGCTATG
1 GGCACTTAGCGTGCGAGATTATAATAGCTTCAGCTATG
16628874 TTTTGGCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 32 0.97
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCACTTAGCGTGCGAGATTATAATAGCTTCAGCTATGAAA
Found at i:16631157 original size:39 final size:39
Alignment explanation
Indices: 16631100--16631178 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
16631090 CAAAGCATCC
* * *
16631100 ACGACCACATTTTCTTTCCATGGGTGATAATCAATTACT
1 ACGACCACATTTTATTTCCATAGGTGATAATAAATTACT
*
16631139 ACGACCACATTTTATTTCCCTAGGTGATAATAAATTACT
1 ACGACCACATTTTATTTCCATAGGTGATAATAAATTACT
16631178 A
1 A
16631179 ACTCATAGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (39 bp):
ACGACCACATTTTATTTCCATAGGTGATAATAAATTACT
Found at i:16633227 original size:16 final size:16
Alignment explanation
Indices: 16633202--16633232 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16633192 TAAGTAAATA
16633202 AAATAAAATAAAGAAT
1 AAATAAAATAAAGAAT
*
16633218 AAATATAATAAAGAA
1 AAATAAAATAAAGAA
16633233 ACAAAAGAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:16635803 original size:64 final size:64
Alignment explanation
Indices: 16635723--16635905 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 64
16635713 AGACATTATG
* * *
16635723 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAGGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
16635787 ATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16635852 AA
63 AA
* * * *
16635854 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAG
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAG
16635906 TCGAACTATA
Statistics
Matches: 96, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16637953 original size:27 final size:27
Alignment explanation
Indices: 16637923--16637996 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
16637913 TTAGTTTACC
*
16637923 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTATA
* * *
16637950 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTATA
* *
16637977 AAATTATCGAAATACCCCTG
1 AAATTACCAAAATACCCCTG
16637997 TAGGGTAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTATA
Found at i:16638008 original size:27 final size:27
Alignment explanation
Indices: 16637978--16638199 Score: 286
Period size: 27 Copynumber: 8.3 Consensus size: 27
16637968 TTGTTTATAA
*
16637978 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
16638005 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
16638032 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
16638059 AATTACCAAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
16638086 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
16638113 AACTACCGGAATACCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
**
16638140 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
16638166 CAATTACCGAGATA-CCTTGTAGGGTAA
1 -AATTACCGAAATACCCCTGTAGGGTAG
16638193 AATTACC
1 AATTACC
16638200 ATTTTGCCCC
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 17 0.10
27 152 0.90
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:16638009 original size:54 final size:54
Alignment explanation
Indices: 16637924--16638172 Score: 227
Period size: 54 Copynumber: 4.6 Consensus size: 54
16637914 TAGTTTACCA
* ** * * ** *
16637924 AATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTTGT-TTATAA
1 AATTACCGAAATACCCCT-GTAGGGTAGAATTACTAAAATACCC-CTGTAGGATAG
* ** *
16637978 AATTATCGAAATACCCCTGTAGGGTAGAATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACT-AAAATACCCCTGTAGGATAG
* *
16638032 AGTTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
* *** * * *
16638086 AATTACCGAAATACCCCTGTAGGGTAGAACTACCGGAATACCCCTGTTGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
**
16638140 AATTACTAAAATACCCCTGTAGGGT-GCAATTAC
1 AATTACCGAAATACCCCTGTAGGGTAG-AATTAC
16638173 CGAGATACCT
Statistics
Matches: 162, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
53 7 0.04
54 155 0.96
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGATAG
Found at i:16638879 original size:27 final size:27
Alignment explanation
Indices: 16638849--16638950 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
16638839 ATTCTGTTAA
* *
16638849 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
16638876 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
16638903 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
16638930 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
16638951 ATAACTGAGT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:16639124 original size:6 final size:6
Alignment explanation
Indices: 16639109--16639193 Score: 68
Period size: 6 Copynumber: 13.8 Consensus size: 6
16639099 ATTCTGTTAC
* * *
16639109 CTGATA CTGATT CTGATT TTGATT CT-ATT ACCTGATT CTGATT CTG-TCAC
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGAT--T
*
16639159 CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
16639194 AATGTTTCTT
Statistics
Matches: 64, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
5 5 0.08
6 50 0.78
7 5 0.08
8 4 0.06
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:16639140 original size:31 final size:32
Alignment explanation
Indices: 16639086--16639154 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
16639076 TTGCATTCAC
* *
16639086 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGATTTTTGATTCTATTACCTGATACTG
*
16639118 ATTCTGA-TTTTGATTCTATTACCTGATTCTG
1 ATTCTGATTTTTGATTCTATTACCTGATACTG
16639149 ATTCTG
1 ATTCTG
16639155 TCACCTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 27 0.79
32 7 0.21
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTCTGATTTTTGATTCTATTACCTGATACTG
Found at i:16639145 original size:19 final size:19
Alignment explanation
Indices: 16639121--16639172 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
16639111 GATACTGATT
* *
16639121 CTGATTTTGATTCTATTAC
1 CTGATTCTGATTCTATCAC
*
16639140 CTGATTCTGATTCTGTCAC
1 CTGATTCTGATTCTATCAC
*
16639159 CTAATTCTGATTCT
1 CTGATTCTGATTCT
16639173 GATTCTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTATCAC
Found at i:16645616 original size:40 final size:40
Alignment explanation
Indices: 16645527--16645655 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
16645517 CTTCTCGCCT
* *
16645527 ACTAAGTGCAAATACATAGCTGAAGCTAT-TTTAATCTCGCAC
1 ACTAAGTGC-CATACATAGCTGAAGCTATCTTGAA--TCGCAC
* *
16645569 ACTAAGTGCCATATATAGCTGAAGCTATCTTGAGTCGCAC
1 ACTAAGTGCCATACATAGCTGAAGCTATCTTGAATCGCAC
* *
16645609 ACTAAGTGCCATACATAG-TCGAAGCTATCTTGAATTGTAC
1 ACTAAGTGCCATACATAGCT-GAAGCTATCTTGAATCGCAC
16645649 ACTAAGT
1 ACTAAGT
16645656 ACCTTACTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 47 0.61
41 17 0.22
42 12 0.16
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCTGAAGCTATCTTGAATCGCAC
Found at i:16650873 original size:40 final size:40
Alignment explanation
Indices: 16650779--16650963 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
16650769 TATTCGAATG
* *
16650779 ATATTCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
16650820 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* *
16650860 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
16650900 ATATCCGGGCTAAG-TCTTGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
*
16650940 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
16650964 CTTGTGCAAG
Statistics
Matches: 119, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
39 2 0.02
40 88 0.74
41 28 0.24
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:16650944 original size:80 final size:81
Alignment explanation
Indices: 16650779--16650963 Score: 232
Period size: 80 Copynumber: 2.3 Consensus size: 81
16650769 TATTCGAATG
* * * *
16650779 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
*
16650844 ATTCGTGCGAGTTGCT
66 ATTCATGCGAGTTGCT
* * * *
16650860 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCTTGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATC-CGAAGG
* *
16650923 CATTTATGCTAG-TGACT
65 CATTCATGCGAGTTG-CT
16650940 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
16650964 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
79 4 0.04
80 56 0.62
81 31 0.34
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCT
Found at i:16653780 original size:17 final size:17
Alignment explanation
Indices: 16653758--16653799 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
16653748 AATAACATAC
16653758 AGTAAGCTTCATAGCTT
1 AGTAAGCTTCATAGCTT
*
16653775 AGTAAGCTTCATAGTTT
1 AGTAAGCTTCATAGCTT
16653792 AGTAAGCT
1 AGTAAGCT
16653800 CGTAAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (17 bp):
AGTAAGCTTCATAGCTT
Found at i:16656675 original size:148 final size:148
Alignment explanation
Indices: 16656407--16656704 Score: 517
Period size: 148 Copynumber: 2.0 Consensus size: 148
16656397 CACACGCCCG
*
16656407 TGTTCGATTACTTCAGGCCATGTTCAAGCCTGCCAAATTGACACGGCCGTGTGGTCTGCCCGTGT
1 TGTTCGATTACTTCAGGCCATGTTCAAGCCTGCCAAATTGACACGGCCATGTGGTCTGCCCGTGT
* * *
16656472 GAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTTGGCCCATTTCTC
66 GAGGAGGTCCAGCCCGTGTTGATTTCATACTTGGGCCCATTTTCTCCGTTTTTGGCCCATTTCTC
16656537 GTT-CTTTTCACTCTCCTA
131 GTTCCTTTT-ACTCTCCTA
16656555 TGTTCGATTACTTCAGGCCATGTTCAAGCCTGCCAAATTGACACGGCCATGTGGTCTGCCCGTGT
1 TGTTCGATTACTTCAGGCCATGTTCAAGCCTGCCAAATTGACACGGCCATGTGGTCTGCCCGTGT
* *
16656620 GAGGAGGTCCAGCCCGTGTTGATTTCATGCTTGGGCCCATTTTCTCCGTTTTTGGCCCGTTTCTC
66 GAGGAGGTCCAGCCCGTGTTGATTTCATACTTGGGCCCATTTTCTCCGTTTTTGGCCCATTTCTC
*
16656685 GTTCCTTTTGCTCTCCTA
131 GTTCCTTTTACTCTCCTA
16656703 TG
1 TG
16656705 CTCTCCTAAG
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
148 137 0.96
149 5 0.04
ACGTcount: A:0.13, C:0.28, G:0.23, T:0.36
Consensus pattern (148 bp):
TGTTCGATTACTTCAGGCCATGTTCAAGCCTGCCAAATTGACACGGCCATGTGGTCTGCCCGTGT
GAGGAGGTCCAGCCCGTGTTGATTTCATACTTGGGCCCATTTTCTCCGTTTTTGGCCCATTTCTC
GTTCCTTTTACTCTCCTA
Found at i:16662346 original size:41 final size:41
Alignment explanation
Indices: 16662301--16662431 Score: 92
Period size: 41 Copynumber: 3.1 Consensus size: 41
16662291 TTAATCCTTA
16662301 CATAATGCACTACTCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACTCCAACATGTTTATGACATGTTTTTAGC
** * *** *
16662342 CATAA--CATCTTGTCCACCCATGCTCTTTATTTTAT-TAATCCTTA-C
1 CATAATGCA-CTACTCCA-ACATG---TTTATGACATGT--T-TTTAGC
16662387 -ATAATGCACTACTCCAACATGTTTATGACATGTTTTTAGC
1 CATAATGCACTACTCCAACATGTTTATGACATGTTTTTAGC
16662427 CATAA
1 CATAA
16662432 CATCTTGTCC
Statistics
Matches: 63, Mismatches: 14, Indels: 26
0.61 0.14 0.25
Matches are distributed among these distances:
39 5 0.08
40 8 0.13
41 20 0.32
42 1 0.02
43 1 0.02
44 15 0.24
45 8 0.13
46 5 0.08
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (41 bp):
CATAATGCACTACTCCAACATGTTTATGACATGTTTTTAGC
Found at i:16662402 original size:85 final size:85
Alignment explanation
Indices: 16662273--16662621 Score: 671
Period size: 85 Copynumber: 4.1 Consensus size: 85
16662263 TATTTTATTG
* *
16662273 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACTCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16662338 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
16662358 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACTCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16662423 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16662443 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16662508 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16662528 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
16662593 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
16662613 CCCATGCTC
1 CCCATGCTC
16662622 ATGGCCGGCC
Statistics
Matches: 262, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 262 1.00
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.39
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:16662974 original size:27 final size:27
Alignment explanation
Indices: 16662943--16663093 Score: 178
Period size: 27 Copynumber: 5.6 Consensus size: 27
16662933 TTAGTTTACC
* * *
16662943 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
16662970 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
16662997 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
16663024 AAATTACTAAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
*
16663051 AAATTACTGAAATACCCTCGATTTTGTA
1 AAATTACTAAAATACCCTCGA-TTTGTA
16663079 AAATTACTAAAATAC
1 AAATTACTAAAATAC
16663094 TCCTGTAAGA
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 83 0.80
28 20 0.19
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:16663133 original size:27 final size:27
Alignment explanation
Indices: 16663105--16663247 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
16663095 CCTGTAAGAT
* *
16663105 AGAATTACCACTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
16663132 AGAATTATCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
16663159 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * * *
16663186 AAAATTACCGTCTTACCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
16663213 AGAATTATCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
16663240 AAAATTAC
1 AGAATTAC
16663248 TAAAATACCC
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Found at i:16663167 original size:54 final size:54
Alignment explanation
Indices: 16663103--16663247 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
16663093 CTCCTGTAAG
* * * * *
16663103 ATAGAATTACCACTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
*
16663157 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTTGATTT
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
* *
16663211 ACAGAATTATCATTTTACCCTCGATTTACAAAATTAC
1 ATAGAATTACCATTTTACCCTCGATTTACAAAATTAC
16663248 TAAAATACCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 83 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
ATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTCTTACCCTCGATTT
Found at i:16663256 original size:27 final size:27
Alignment explanation
Indices: 16662937--16663311 Score: 177
Period size: 27 Copynumber: 13.9 Consensus size: 27
16662927 AATACTTTAG
* ** *
16662937 TTTACCAAATTACTGAAATACCTTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ** *
16662964 CTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
16662991 TTTATAAAATTACCCAAATATCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
16663018 TTTGTAAAATTACTAAAATACCCTC-A
1 TTTACAAAATTACCAAAATACCCTCGA
* **
16663044 GTTTGCAAAATTACTGAAATACCCTCGA
1 -TTTACAAAATTACCAAAATACCCTCGA
** *
16663072 TTTTGTAAAATTACTAAAATACTCCT-G-
1 -TTTACAAAATTACCAAAATAC-CCTCGA
* * ***
16663099 -TAAGATAGAATTACCACTTTACCCTCGA
1 TTTACA-A-AATTACCAAAATACCCTCGA
* * * ****
16663127 TTTATAGAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
16663154 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
**** *
16663181 TTTACAAAATTACCGTCTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * ***
16663208 TTTACAGAATTATCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
16663235 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACCAAAATACCCTCGA
*
16663261 GTTTACAAAATTACCAAAATAGCCCT-GG
1 -TTTACAAAATTACCAAAATA-CCCTCGA
**
16663289 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
16663312 CTAATTTGTG
Statistics
Matches: 279, Mismatches: 59, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 9 0.03
27 237 0.85
28 25 0.09
29 6 0.02
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:16663257 original size:81 final size:81
Alignment explanation
Indices: 16663117--16663275 Score: 212
Period size: 81 Copynumber: 2.0 Consensus size: 81
16663107 AATTACCACT
* * * * ***
16663117 TTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGA-
1 TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCAAAATACCCT-GAG
16663181 TTTACAAAATTACCGTC
65 TTTACAAAATTACCGTC
* * *
16663198 TTACCCTTGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTAGT
1 TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTGAGT
16663263 TTACAAAATTACC
66 TTACAAAATTACC
16663276 AAAATAGCCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (81 bp):
TTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTACAAAATTACCAAAATACCCTGAGT
TTACAAAATTACCGTC
Found at i:16663319 original size:27 final size:27
Alignment explanation
Indices: 16663240--16663338 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
16663230 CTCGATTTAC
* * **
16663240 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
16663267 AAAATTACCAAAATAGCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
16663294 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* ** *
16663321 GATTTTACCGAAATACCC
1 AAAATTACCAAAATACCC
16663339 TTGTAGGGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:16663407 original size:28 final size:27
Alignment explanation
Indices: 16663329--16663545 Score: 310
Period size: 27 Copynumber: 8.0 Consensus size: 27
16663319 GTGATTTTAC
*
16663329 CGAAATACCCTTGTAGGGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAT
16663355 CTGAAATACCCCTGTAGGGTAGAATTAT
1 C-GAAATACCCCTGTAGGGTAGAATTAT
*
16663383 CGAAATACCCCTTGTAGGGTAGAATTAC
1 CGAAATACCCC-TGTAGGGTAGAATTAT
16663411 CGAAATACCCCTTGTAGGGTAGAATTAT
1 CGAAATACCCC-TGTAGGGTAGAATTAT
*
16663439 CGAAATACTCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
* *
16663466 CGAAATACCCCTATAGGGTAGAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAT
*
16663493 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAT
* * * *
16663520 CGAGATACCCTTGTGGGGTAAAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
16663546 CCATTTTGCC
Statistics
Matches: 174, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 120 0.69
28 53 0.30
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAT
Found at i:16663972 original size:6 final size:6
Alignment explanation
Indices: 16663941--16664040 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
16663931 TTGCATTCAC
* *
16663941 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
16663990 -TCACCTT ATTCTG ATTCTG ATTCTG ATTCTG ATTATG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
16664039 AT
1 AT
16664041 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 64 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:16663976 original size:31 final size:31
Alignment explanation
Indices: 16663941--16664020 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
16663931 TTGCATTCAC
* *
16663941 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
16663972 ATTCTGATTCTGATTCTGTCACCTTATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
16664003 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
16664021 ATTATGATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:16664049 original size:18 final size:18
Alignment explanation
Indices: 16663994--16664061 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
16663984 ATTCTGTCAC
**
16663994 CTTATTCTGATTCTGATT
1 CTTATTCTGATAATGATT
* *
16664012 CTGATTCTGATTATGATT
1 CTTATTCTGATAATGATT
*
16664030 C-TAGTTCTGATAATGTTT
1 CTTA-TTCTGATAATGATT
16664048 CTTATTCTG-TAATG
1 CTTATTCTGATAATG
16664062 GGTTAAAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.14
18 35 0.81
19 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (18 bp):
CTTATTCTGATAATGATT
Found at i:16665972 original size:28 final size:28
Alignment explanation
Indices: 16665937--16665992 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
16665927 GGCCGAGAAG
16665937 GGCTTTAGGCCCATTCGTATTGTTATCC
1 GGCTTTAGGCCCATTCGTATTGTTATCC
16665965 GGCTTTAGGCCCATTCGTATTGTTATCC
1 GGCTTTAGGCCCATTCGTATTGTTATCC
16665993 CTGTTCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (28 bp):
GGCTTTAGGCCCATTCGTATTGTTATCC
Found at i:16666306 original size:27 final size:27
Alignment explanation
Indices: 16666020--16666388 Score: 185
Period size: 27 Copynumber: 13.6 Consensus size: 27
16666010 TTAGTTTACC
* * * *
16666020 AAATTACTGAAATACGCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
* *
16666047 AAATTACC-AAAGTACCCCCAATTTATA
1 AAATTACCGAAA-TACCCTCGATTTATA
* * * *
16666074 AAATTACCCAAATATCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTATA
* **
16666101 AAATTACCGAAATACCCTCAATTTGCA
1 AAATTACCGAAATACCCTCGATTTATA
** * *
16666128 AAATTATTGAAATACCTTCGATTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTATA
* **
16666156 AAATTACTGAAATACTCCT--ATAAGATA
1 AAATTACCGAAATAC-CCTCGAT-TTATA
* ** *
16666183 GAATTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTATA
* ***
16666210 GAATTACCGCTTTACCCTCGATTTATA
1 AAATTACCGAAATACCCTCGATTTATA
* ** *
16666237 GAATTACC-ATTTTACCCTCGATTTACA
1 AAATTACCGA-AATACCCTCGATTTATA
* *** *
16666264 GAATTACCGTCTTACCCTCGATTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* * * *
16666291 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGATTTATA
* *
16666318 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCGAAATACCCTCGA-TTTATA
* * * *
16666345 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCGAAATACCCTC-GATTTATA
*
16666372 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
16666389 CTATAGGGTA
Statistics
Matches: 272, Mismatches: 57, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
26 8 0.03
27 237 0.87
28 25 0.09
29 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTATA
Found at i:16666389 original size:27 final size:27
Alignment explanation
Indices: 16666284--16666417 Score: 108
Period size: 27 Copynumber: 5.0 Consensus size: 27
16666274 CTTACCCTCG
* * *
16666284 ATTTACAAAATTACTGAAATACCCTTG
1 ATTTATAAAATTACTGAAATACCCCTA
* * **
16666311 GTTTACAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACTGAAATACCCCTA
* **
16666338 GTTTATAAAATTACCAAAATACCCCTA
1 ATTTATAAAATTACTGAAATACCCCTA
* *
16666365 ATTTGTGAAATTACTGAAATACCCCT-
1 ATTTATAAAATTACTGAAATACCCCTA
*** *
16666391 ATAGGGTAGAATTACTGAAATACCCCT
1 AT-TTATAAAATTACTGAAATACCCCT
16666418 GTAGGGTAGA
Statistics
Matches: 91, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.02
27 89 0.98
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
ATTTATAAAATTACTGAAATACCCCTA
Found at i:16666404 original size:81 final size:80
Alignment explanation
Indices: 16666319--16666596 Score: 229
Period size: 81 Copynumber: 3.4 Consensus size: 80
16666309 TGGTTTACAA
* ** * *
16666319 AATTACCAAAATACCCCTAGT-TTATAAAATTACCAAAATACCC-CTAATTTGT-GAAATTACTG
1 AATTACTAAAATACCCCT-GTAGGATAAAATTACCAAAATACCCTCTAA--GGTAG-AATTACCG
16666381 AAATACCCCTATAGGGTAG
62 AAATACCCCTATAGGGTAG
* * * * *
16666400 AATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCGAAA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATACCC-TCTAAGGTAGAATTACCGAAA
*
16666465 TACCCCTGTAGGGTAG
65 TACCCCTATAGGGTAG
** * * * * * * *
16666481 AATTACTAAAATACCCCTGTAGGGCAGAATTACCGAAATACTCTTGTAGGGTAGAAATACCAAAA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATAC-CCTCTAAGGTAGAATTACCGAAA
* *
16666546 TACCCCTGTAGGGTAA
65 TACCCCTATAGGGTAG
** * * * *
16666562 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTAAAATACCCCTGTAGGATAAAATTACCA
16666597 TTTTGCCCCT
Statistics
Matches: 166, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 159 0.96
82 2 0.01
83 3 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (80 bp):
AATTACTAAAATACCCCTGTAGGATAAAATTACCAAAATACCCTCTAAGGTAGAATTACCGAAAT
ACCCCTATAGGGTAG
Found at i:16666422 original size:27 final size:27
Alignment explanation
Indices: 16666373--16666595 Score: 293
Period size: 27 Copynumber: 8.3 Consensus size: 27
16666363 TAATTTGTGA
* *
16666373 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
16666400 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
16666427 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
16666454 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
16666481 AATTACTAAAATACCCCTGTAGGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
16666508 AATTACCGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
16666535 AAATACCAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
16666562 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
16666589 AATTACC
1 AATTACC
16666596 ATTTTGCCCC
Statistics
Matches: 172, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:16667020 original size:6 final size:6
Alignment explanation
Indices: 16666990--16667082 Score: 66
Period size: 6 Copynumber: 15.2 Consensus size: 6
16666980 TGCATTCACG
* *
16666990 TTCTGA TTTTGA TTCT-A TTACCTGA TACTGA TTCTGA TTCTGA TTCTG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * *
16667038 TCACCTGA TTCTGA TTTTGA TTTTGA TTTTGA TTCT-A GTTCTGA T
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA -TTCTGA T
16667083 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 57 0.80
7 6 0.08
8 3 0.04
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TTCTGA
Found at i:16667028 original size:31 final size:31
Alignment explanation
Indices: 16666990--16667065 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
16666980 TGCATTCACG
*
16666990 TTCTGATTTTGATTCTATTACCTGATACTGA
1 TTCTGATTTTGATTCTATCACCTGATACTGA
* * *
16667021 TTCTGATTCTGATTCTGTCACCTGATTCTGA
1 TTCTGATTTTGATTCTATCACCTGATACTGA
*
16667052 TTTTGATTTTGATT
1 TTCTGATTTTGATT
16667066 TTGATTCTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.51
Consensus pattern (31 bp):
TTCTGATTTTGATTCTATCACCTGATACTGA
Found at i:16685566 original size:93 final size:93
Alignment explanation
Indices: 16685407--16685670 Score: 483
Period size: 93 Copynumber: 2.8 Consensus size: 93
16685397 GCCCATAAGC
* * * * *
16685407 GAACTCAGACTCAACACAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16685472 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
16685500 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16685565 CGAGTTCGGATGCCTAGTTACATCTCAT
66 CGAGTTCGGATGCCTAGTTACATCTCAT
16685593 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16685658 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16685671 TCAACCATCC
Statistics
Matches: 166, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:16685667 original size:46 final size:46
Alignment explanation
Indices: 16685399--16685667 Score: 302
Period size: 46 Copynumber: 5.8 Consensus size: 46
16685389 TGTAACCCGC
* * * * * *
16685399 CCATAAGCGAACTCAGACTCAACACAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16685445 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16685495 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
16685538 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
16685588 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
16685631 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
16685668 TGCTCAACCA
Statistics
Matches: 191, Mismatches: 14, Indels: 36
0.79 0.06 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 4 0.02
45 4 0.02
46 92 0.48
47 60 0.31
48 4 0.02
49 4 0.02
50 7 0.04
51 4 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:16691419 original size:31 final size:31
Alignment explanation
Indices: 16691377--16691440 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
16691367 CCTTTTCATA
* *
16691377 TTTCATTTTTCATAACACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
16691408 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
16691439 TT
1 TT
16691441 AATTGTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:16691687 original size:24 final size:24
Alignment explanation
Indices: 16691635--16691823 Score: 262
Period size: 24 Copynumber: 8.0 Consensus size: 24
16691625 GCTTTATCAT
*
16691635 ATAACTGGAGGC-TTAGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
16691660 ATAACTGGGGCGA-AAGCCCTTTTT
1 ATAACTGGGGC-ATAAGCCCTTTTA
16691684 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
16691707 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16691731 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
16691755 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16691778 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16691801 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
16691824 GCACTTCCTC
Statistics
Matches: 150, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
23 66 0.44
24 72 0.48
25 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16691711 original size:47 final size:48
Alignment explanation
Indices: 16691634--16691823 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 48
16691624 TGCTTTATCA
*
16691634 TATAACTGGAGGC-TTAGCCTCTTTTAATAACTGGGGCGA-AAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGC-ATAAGCCCTTTT
*
16691683 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
16691730 GATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
16691777 AATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
16691824 GCACTTCCTC
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
46 21 0.16
47 69 0.54
48 24 0.19
49 14 0.11
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:16691714 original size:23 final size:23
Alignment explanation
Indices: 16691656--16691822 Score: 246
Period size: 23 Copynumber: 7.1 Consensus size: 23
16691646 CTTAGCCTCT
16691656 TTTAATAACTGGGGCGA-AAGCCC
1 TTTAATAACTGGGGC-ATAAGCCC
*
16691679 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
16691703 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
16691726 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
16691750 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
16691774 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
16691797 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
16691820 TTT
1 TTT
16691823 TGCACTTCCT
Statistics
Matches: 133, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
23 69 0.52
24 64 0.48
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:16691897 original size:20 final size:20
Alignment explanation
Indices: 16691869--16691919 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
16691859 GCATTTATGA
*
16691869 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
16691889 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
16691909 ACATATCATGT
1 ACATATCATGT
16691920 TTATCAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:16693241 original size:27 final size:27
Alignment explanation
Indices: 16693144--16693227 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
16693134 GGGCATATTC
* * *
16693144 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTATAGGGGCT-TTACG
16693171 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
16693198 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCACTTTACCCTATAGGGGCTTTACG
16693225 GTC
1 GTC
16693228 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTATAGGGGCTTTACG
Found at i:16693402 original size:27 final size:27
Alignment explanation
Indices: 16693274--16693545 Score: 181
Period size: 27 Copynumber: 10.0 Consensus size: 27
16693264 TACAAGAGTG
* * * *
16693274 TTTTGGTAAATCTACAAACCAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
** ** * *
16693301 TTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
16693328 TTTCT-ATAATTTTTAGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTA
* * ** *
16693357 TTTTTGTAACTTTGTAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
16693384 TTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* *
16693411 TTTCGGTAATTTCACAAA-CTAAGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
16693438 TTTTGGTAATTTTACAAA-CTAGGGGTA
1 TTTTGGTAATTTTACAAATC-AAGGGTA
*
16693465 TTTTGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* ** *
16693492 TTTTAGTAATTTTGTAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
*** * * *
16693519 AAATAGTAATTCTATAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
16693546 AAACAGTAAT
Statistics
Matches: 195, Mismatches: 44, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
27 167 0.86
28 15 0.08
29 13 0.07
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:16693490 original size:81 final size:81
Alignment explanation
Indices: 16693297--16693503 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 81
16693287 ACAAACCAAA
** ** * * * *
16693297 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAGGGTATTTT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTC-AGTAA-TTTCACAAACT-AAGGGTATTTT
* *
16693361 TGTAACTTTGTAAATCAGG
63 GGTAACTTTGTAAAACAGG
*** *
16693380 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACTAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGT
16693445 AA-TTT-TACAAACTAGG
66 AACTTTGTA-AAAC-AGG
*
16693461 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
16693504 TGTAAATCGA
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
79 2 0.02
80 6 0.06
81 56 0.55
82 8 0.08
83 30 0.29
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGT
AACTTTGTAAAACAGG
Found at i:16693528 original size:54 final size:54
Alignment explanation
Indices: 16693379--16693583 Score: 153
Period size: 54 Copynumber: 3.8 Consensus size: 54
16693369 TGTAAATCAG
* * * ** * * *
16693379 GGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATTTCACAAACTAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAT-AGTAATTTTACAAACCAA
* * * *** *
16693433 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAATAGTAATTTTACAAACCAA
* * * *
16693487 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTACAAACCAA
**** * *
16693541 GGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATT
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATT
16693584 CTGTAAATCG
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 119 0.95
55 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTACAAACCAA
Found at i:16693546 original size:27 final size:27
Alignment explanation
Indices: 16693496--16693653 Score: 219
Period size: 27 Copynumber: 5.9 Consensus size: 27
16693486 AGGGTATTTT
* *
16693496 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16693523 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
16693550 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
16693577 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16693604 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
16693631 -GATAATTATGTAAATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
16693654 CCTTGGTAAT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 118 0.99
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:16693555 original size:81 final size:81
Alignment explanation
Indices: 16693470--16693630 Score: 196
Period size: 81 Copynumber: 2.0 Consensus size: 81
16693460 GGGTATTTTG
* **** * *
16693470 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
16693535 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * *
16693551 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
* *
16693616 AGTCGAGGGTAAAAC
66 AATCAAGGGTAAAAC
16693631 GATAATTATG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACA
Found at i:16693673 original size:54 final size:54
Alignment explanation
Indices: 16693510--16693707 Score: 173
Period size: 54 Copynumber: 3.7 Consensus size: 54
16693500 ATTTTGTAAA
* * * * * * *
16693510 TCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* **
16693564 TCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAG
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* **** *
16693618 TCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTACCTTGGTAATTTTACAAG
1 TCGAGGGTAAAACAG-TAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* *** * **
16693672 TCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTA
1 TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTA
16693708 TTTCAGTATT
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.98
55 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (54 bp):
TCGAGGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
Found at i:16693755 original size:28 final size:27
Alignment explanation
Indices: 16693659--16693757 Score: 103
Period size: 27 Copynumber: 3.6 Consensus size: 27
16693649 GGGTACCTTG
* *
16693659 GTAATTTTACAAGTCGAA-GGTATTTCA
1 GTAATTTTACAA-ACTAAGGGTATTTCA
*
16693686 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGGGTATTTCA
* *
16693713 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGGGTATTTCA
*
16693740 GTAATTTTAGTAAACTAA
1 GTAATTTTA-CAAACTAA
16693758 AGTATTCTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.02
27 51 0.85
28 8 0.13
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGGGTATTTCA
Found at i:16698018 original size:27 final size:27
Alignment explanation
Indices: 16697988--16698239 Score: 276
Period size: 27 Copynumber: 9.3 Consensus size: 27
16697978 GGGGTAAAAT
* * *
16697988 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
16698015 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
16698042 AGTAATATTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
16698069 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
16698096 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
16698123 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
16698150 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
16698177 GGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
16698204 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
16698231 GGTAATTTT
1 GGTAATTTT
16698240 GTAAATCGAG
Statistics
Matches: 191, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.04
27 174 0.91
28 9 0.05
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:16698036 original size:54 final size:54
Alignment explanation
Indices: 16697988--16698237 Score: 306
Period size: 54 Copynumber: 4.6 Consensus size: 54
16697978 GGGGTAAAAT
* * * *
16697988 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** * *
16698042 AGTAATATTACCCTACAGGGGTATTTTAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * ** *
16698096 GGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
16698150 GGT-ATTTCTACCCTACAGGGGTATTTCGGTAGTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
*
16698204 GGT-ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTT-TACCCTACAGGGGTATTTCGGTAATT
16698238 TTGTAAATCG
Statistics
Matches: 169, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
53 3 0.02
54 166 0.98
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:16698116 original size:81 final size:81
Alignment explanation
Indices: 16697992--16698230 Score: 338
Period size: 81 Copynumber: 3.0 Consensus size: 81
16697982 TAAAATGGTA
* *
16697992 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATAT-TACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAAT-TCTACCC
*
16698055 TACAGGGGTATTTTAGT
65 TACAGGGGTATTTCAGT
* *
16698072 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
*
16698137 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCAGT
* * * ** *
16698153 ATTTCTACCCTACAGGGGTATTTCGGTAGTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
*
16698218 ACAAGGGTATTTC
66 ACAGGGGTATTTC
16698231 GGTAATTTTG
Statistics
Matches: 142, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 5 0.04
81 137 0.96
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCAGT
Found at i:16698306 original size:27 final size:28
Alignment explanation
Indices: 16698274--16698400 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 28
16698264 TCTATAAATT
*
16698274 AGGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGGTATTTTGGTAATTTTACAAGTCG
** *
16698302 A-GGGTATTTTAATAATTTTACAGGTCG
1 AGGGGTATTTTGGTAATTTTACAAGTCG
** * *
16698329 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAGTCG
* *
16698355 AGGGGTATTTTGGTAATTTTACAA-ACT
1 AGGGGTATTTTGGTAATTTTACAAGTCG
16698382 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
16698401 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 81 0.96
28 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAGTCG
Found at i:16707806 original size:39 final size:39
Alignment explanation
Indices: 16707752--16708012 Score: 495
Period size: 39 Copynumber: 6.7 Consensus size: 39
16707742 NNNNNNNNNN
*
16707752 CGGACTTTAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
16707791 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
16707830 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
16707869 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
16707908 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
16707947 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
1 CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
* *
16707986 CGGACTTCAAGTCTGGATATTTTTCCA
1 CGGACTTCAAGTCCGGATATATTTCCA
16708013 ATTCCATGCA
Statistics
Matches: 219, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 219 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
CGGACTTCAAGTCCGGATATATTTCCAGCATAAAGCCTG
Done.