Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 53 of 145
Found at i:18572873 original size:44 final size:45
Alignment explanation
Indices: 18572771--18573367 Score: 354
Period size: 44 Copynumber: 13.8 Consensus size: 45
18572761 TCGGCTTTAA
* * *
18572771 TCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGC-CATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTA-C-TTAG
*
18572816 TCTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTACGTAG
1 TCTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
* * * * * * *
18572860 TTTGCTCCACTGCAACCTCAGG-GAGATATGACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
* * *
18572901 TCTGCT-CTCTGCAACTTCAGGAG-GATAAGACTTGCGTATTTAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
*** * *
18572944 TCTGCTCCACTGCAACTTCAGG-GAGATAAGAC-TAAAT-GTGA-
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
* * *
18572985 TCTGCT-CTCTGCAACTTCA-GAGAGATAAGA--T-CTAAGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTA--C-TTAG
* * * * * *
18573028 ACCGCTCCACTGCAACTTCACG-GAGATAGGATTATCGGC-T--TTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACT-T--GCTTACTTAG
* *
18573072 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGCCTATTTAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
*
18573116 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTTGC-CATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTA-CTT-AG
* *
18573161 TCTGCCCCACTGCAACTTCAGGAG-GATAAGACTTGCTTACTTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
* * * * *
18573205 TCTGCTCCACTGCAACTTCAGG-GAGATAAAACTAG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
* * * * *
18573246 TATGCT-CTCTGCAACTTCAGGA-AGATAAGATCTGAGGTT--TTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGA-CT-TGCTTACTTAG
* * * *
18573289 TCTGCTCTACTGCAACTTCAGG-GAGATAAGA-TT-ATCGACTTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCT-TACTTAG
* *
18573332 TCTACTCCACTGTAACTTCAGG-GAGATAAGACTTGC
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGC
18573368 CATCTTCGAT
Statistics
Matches: 437, Mismatches: 69, Indels: 92
0.73 0.12 0.15
Matches are distributed among these distances:
39 2 0.00
40 65 0.15
41 22 0.05
42 12 0.03
43 59 0.14
44 200 0.46
45 71 0.16
46 4 0.01
47 1 0.00
50 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCTTACTTAG
Found at i:18572929 original size:84 final size:84
Alignment explanation
Indices: 18572771--18573319 Score: 477
Period size: 84 Copynumber: 6.4 Consensus size: 84
18572761 TCGGCTTTAA
* * * *
18572771 TCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCAT-CTTTAGTCTGCCTCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCACTGCAACTTC
*
18572835 AGGAGGATAAGACTTGCTTACGTAG
60 AGGAGGATAAGACTTGCTTACTTAG
* * * *
18572860 TTTGCTCCACTGCAACCTCAGGGAGATATGACTAGATGCGATCTGCTCTCTGCAACTTCAGGAGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCACTGCAACTTCAGGAGG
* *
18572925 ATAAGACTTGCGTATTTAG
66 ATAAGACTTGCTTACTTAG
* * *
18572944 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATGTGATCTGCTCTCTGCAACTTCA-GAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCACTGCAACTTCAGGAG-
* *
18573008 GATAAGA--T-CTAAGGCTTTAA
65 GATAAGACTTGCTTA--C-TTAG
* * * * * * ***
18573028 ACCGCTCCACTGCAACTTCACGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTGCT-CACTGCAACTTCAG
* *
18573093 G-GAGATAAGACTTGCCTATTTAG
62 GAG-GATAAGACTTGCTTACTTAG
* * *
18573116 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTCTGCCCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG--ATGC--GA-TCTG-CTCACTGCAACTTC
*
18573180 AGGAGGATAAGACTTGCTTACTTAA
60 AGGAGGATAAGACTTGCTTACTTAG
* * * *
18573205 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGATGCGATATGCTCTCTGCAACTTCAGGAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCACTGCAACTTCAGGAGG
* * *
18573270 ATAAGATCTGAGGTT--TTAA
66 ATAAGA-CT-TGCTTACTTAG
*
18573289 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
18573320 TTATCGACTT
Statistics
Matches: 379, Mismatches: 58, Indels: 51
0.78 0.12 0.10
Matches are distributed among these distances:
81 2 0.01
82 1 0.00
83 3 0.01
84 185 0.49
85 10 0.03
86 5 0.01
87 14 0.04
88 55 0.15
89 99 0.26
90 3 0.01
91 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (84 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCACTGCAACTTCAGGAGG
ATAAGACTTGCTTACTTAG
Found at i:18580750 original size:9 final size:9
Alignment explanation
Indices: 18580736--18580805 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
18580726 CAAGTATAAA
18580736 TAAGTTATG
1 TAAGTTATG
18580745 TAAGTTATG
1 TAAGTTATG
* * *
18580754 ATATGCTATA
1 -TAAGTTATG
*
18580764 T-ATTTATG
1 TAAGTTATG
18580772 T-A-TTATG
1 TAAGTTATG
18580779 TAAGTTATG
1 TAAGTTATG
18580788 TAAGTTATG
1 TAAGTTATG
*
18580797 TGAGTTATG
1 TAAGTTATG
18580806 ATATGAATTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18580805 original size:34 final size:34
Alignment explanation
Indices: 18580740--18580805 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
18580730 TATAAATAAG
* *
18580740 TTATGTAAGTTATGATATGCTATATATTTATGTA
1 TTATGTAAGTTATGATAAGCTATATAGTTATGTA
* *
18580774 TTATGTAAGTTATG-TAAGTTATGTGAGTTATG
1 TTATGTAAGTTATGATAAGCTATAT-AGTTATG
18580806 ATATGAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATAAGCTATATAGTTATGTA
Found at i:18583081 original size:9 final size:9
Alignment explanation
Indices: 18583067--18583136 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
18583057 CAAGTATAAA
18583067 TAAGTTATG
1 TAAGTTATG
18583076 TAAGTTATG
1 TAAGTTATG
* * *
18583085 ATATGCTATA
1 -TAAGTTATG
*
18583095 T-ATTTATG
1 TAAGTTATG
18583103 T-A-TTATG
1 TAAGTTATG
18583110 TAAGTTATG
1 TAAGTTATG
18583119 TAAGTTATG
1 TAAGTTATG
*
18583128 TGAGTTATG
1 TAAGTTATG
18583137 ATATGATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18583136 original size:34 final size:34
Alignment explanation
Indices: 18583071--18583136 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
18583061 TATAAATAAG
* *
18583071 TTATGTAAGTTATGATATGCTATATATTTATGTA
1 TTATGTAAGTTATGATAAGCTATATAGTTATGTA
* *
18583105 TTATGTAAGTTATG-TAAGTTATGTGAGTTATG
1 TTATGTAAGTTATGATAAGCTATAT-AGTTATG
18583137 ATATGATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.26
34 20 0.74
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (34 bp):
TTATGTAAGTTATGATAAGCTATATAGTTATGTA
Found at i:18583294 original size:21 final size:21
Alignment explanation
Indices: 18583270--18583309 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18583260 TCAAATTTTG
18583270 AATAATAATACAAAGTTGTAA
1 AATAATAATACAAAGTTGTAA
18583291 AATAATAATACAAAGTTGT
1 AATAATAATACAAAGTTGT
18583310 CTTCAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAATAATACAAAGTTGTAA
Found at i:18585295 original size:114 final size:114
Alignment explanation
Indices: 18585077--18585295 Score: 239
Period size: 114 Copynumber: 1.9 Consensus size: 114
18585067 CACAAGCGCC
* ** * *
18585077 GCTAAATCCCTACATATTGCGGCGTTTAACCGAAAATGCCACTAAAAAACCTACAAAAATGGCAC
1 GCTAAATCCCGACATATTGCGGCGTTTAACCGAAAACACCACTAAAAAACCTAAAAAAACGGCAC
* * *
18585142 CATTTTTATAAAAACAGAATAACATTTTGCAGCATTTTTTGGTAGCGTT
66 CATTTTGATAAAAACAGAATAACATTTTGCAGAAGTTTTTGGTAGCGTT
* * *
18585191 GCTAAATCCCGACCTATTGCGGCGTTTTGA-CGAAAACACCACTAAAAAA-ATCAAATAAAACGG
1 GCTAAATCCCGACATATTGCGGCG-TTTAACCGAAAACACCACTAAAAAACCT-AAA-AAAACGG
* * * *
18585254 CTCTATTTTGATTAAAACA-AATTAACCTTTTGC-GAAGTTTTT
63 CACCATTTTGATAAAAACAGAA-TAACATTTTGCAGAAGTTTTT
18585296 CACCTTGCGC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
113 1 0.01
114 50 0.58
115 35 0.41
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (114 bp):
GCTAAATCCCGACATATTGCGGCGTTTAACCGAAAACACCACTAAAAAACCTAAAAAAACGGCAC
CATTTTGATAAAAACAGAATAACATTTTGCAGAAGTTTTTGGTAGCGTT
Found at i:18586069 original size:14 final size:14
Alignment explanation
Indices: 18586033--18586107 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
18586023 TCAAAAAACA
*
18586033 TAAACCCTAAACCCC
1 TAAACCCTAAA-CCT
* *
18586048 TAACCCCCAAACCT
1 TAAACCCTAAACCT
** *
18586062 TAAACCCCGACCCT
1 TAAACCCTAAACCT
* *
18586076 TAAACCATAAACCA
1 TAAACCCTAAACCT
*
18586090 TAAACCATAAACCT
1 TAAACCCTAAACCT
18586104 TAAA
1 TAAA
18586108 ATAGTAACTC
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
14 39 0.81
15 9 0.19
ACGTcount: A:0.44, C:0.39, G:0.01, T:0.16
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:18586123 original size:22 final size:23
Alignment explanation
Indices: 18586097--18586202 Score: 76
Period size: 22 Copynumber: 4.5 Consensus size: 23
18586087 CCATAAACCA
18586097 TAAACCTTAAA-ATAGTAACTCC
1 TAAACCTTAAACATAGTAACTCC
* * *
18586119 TAAACCTTAAACCATAAACCATAAATCA
1 TAAACCTTAAA-CAT--A--GTAACTCC
* * *
18586147 TAATCCCTAAACACA-TAA-TCC
1 TAAACCTTAAACATAGTAACTCC
18586168 ATAAACCTTAAA-ATAGTAACTCC
1 -TAAACCTTAAACATAGTAACTCC
18586191 TAAACCTTAAAC
1 TAAACCTTAAAC
18586203 TCTAAACCAT
Statistics
Matches: 64, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
21 4 0.06
22 37 0.58
23 3 0.05
24 2 0.03
25 1 0.02
26 1 0.02
27 2 0.03
28 14 0.22
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (23 bp):
TAAACCTTAAACATAGTAACTCC
Found at i:18586127 original size:50 final size:50
Alignment explanation
Indices: 18586073--18586179 Score: 146
Period size: 50 Copynumber: 2.1 Consensus size: 50
18586063 AAACCCCGAC
* *
18586073 CCTTAAACCATAAACCATAAACCATAAACCTTAAA-ATAGTAACTCC-TAAA
1 CCTTAAACCATAAACCATAAACCATAAACCCTAAACACA-TAA-TCCATAAA
* *
18586123 CCTTAAACCATAAACCATAAATCATAATCCCTAAACACATAATCCATAAA
1 CCTTAAACCATAAACCATAAACCATAAACCCTAAACACATAATCCATAAA
18586173 CCTTAAA
1 CCTTAAA
18586180 ATAGTAACTC
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
49 3 0.06
50 46 0.90
51 2 0.04
ACGTcount: A:0.50, C:0.27, G:0.01, T:0.22
Consensus pattern (50 bp):
CCTTAAACCATAAACCATAAACCATAAACCCTAAACACATAATCCATAAA
Found at i:18586131 original size:7 final size:7
Alignment explanation
Indices: 18586119--18586231 Score: 61
Period size: 7 Copynumber: 15.9 Consensus size: 7
18586109 TAGTAACTCC
*
18586119 TAAACCT
1 TAAACCA
18586126 TAAACCA
1 TAAACCA
18586133 TAAACCA
1 TAAACCA
*
18586140 TAAATCA
1 TAAACCA
* *
18586147 TAATCCC
1 TAAACCA
18586154 TAAACACA
1 TAAAC-CA
*
18586162 TAATCCA
1 TAAACCA
*
18586169 TAAACCT
1 TAAACCA
18586176 TAAA--A
1 TAAACCA
*
18586181 TAGTAACTCC
1 TA--AAC-CA
*
18586191 TAAACCT
1 TAAACCA
18586198 TAAACTC-
1 TAAAC-CA
18586205 TAAACCA
1 TAAACCA
* *
18586212 TATACCC
1 TAAACCA
*
18586219 TTAACCA
1 TAAACCA
18586226 TAAACC
1 TAAACC
18586232 CAAAACTATA
Statistics
Matches: 79, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 65 0.82
8 9 0.11
10 2 0.03
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:18586138 original size:14 final size:14
Alignment explanation
Indices: 18586073--18586231 Score: 78
Period size: 14 Copynumber: 11.1 Consensus size: 14
18586063 AAACCCCGAC
18586073 CCTTAAACCATAAA
1 CCTTAAACCATAAA
*
18586087 CCATAAACCATAAA
1 CCTTAAACCATAAA
18586101 CCTTAAA--ATAGTAA
1 CCTTAAACCATA--AA
* *
18586115 CTCCTAAACCTTAAA
1 C-CTTAAACCATAAA
*
18586130 CCATAAACCATAAA
1 CCTTAAACCATAAA
* * * *
18586144 TCATAATCCCTAAA
1 CCTTAAACCATAAA
* *
18586158 CACATAATCCATAAA
1 C-CTTAAACCATAAA
18586173 CCTTAAA--ATAGTAA
1 CCTTAAACCATA--AA
* *
18586187 CTCCTAAACCTTAAA
1 C-CTTAAACCATAAA
*
18586202 -CTCTAAACCATATAC
1 CCT-TAAACCATA-AA
18586217 CCTT-AACCATAAA
1 CCTTAAACCATAAA
18586230 CC
1 CC
18586232 CAAAACTATA
Statistics
Matches: 112, Mismatches: 19, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
12 6 0.05
13 4 0.04
14 66 0.59
15 30 0.27
16 2 0.02
17 4 0.04
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTTAAACCATAAA
Found at i:18586230 original size:72 final size:70
Alignment explanation
Indices: 18586071--18586231 Score: 225
Period size: 72 Copynumber: 2.2 Consensus size: 70
18586061 TTAAACCCCG
18586071 ACCCTTAAACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAA
1 ACCCTT-AACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAA
18586136 ACCATA
65 ACCATA
** * * *
18586142 AATCATAATCCCTAAACACATAATCCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACTC-T
1 ACCCTTAA-CCATAAAC-CATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAAC-CAT
18586206 AAACCATA
63 AAACCATA
18586214 TACCCTTAACCATAAACC
1 -ACCCTTAACCATAAACC
18586232 CAAAACTATA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
70 2 0.03
71 11 0.14
72 58 0.75
73 6 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (70 bp):
ACCCTTAACCATAAACCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTTAAACCATAAA
CCATA
Found at i:18586868 original size:40 final size:38
Alignment explanation
Indices: 18586790--18586896 Score: 90
Period size: 40 Copynumber: 2.7 Consensus size: 38
18586780 AATTTTTTTG
* *
18586790 CGGCGTTTTTCATAAAGCGTCGCTAATTGTTGACCTATAA
1 CGGCG-TTTTCA-AAAGCGCCGCTAATGGTTGACCTATAA
* *
18586830 CGGCGTTTTCCAAGAAGCGCCGCTAATGGTCT-ATCTATAG
1 CGGCGTTTT-CAA-AAGCGCCGCTAATGGT-TGACCTATAA
* *
18586870 TGGCGATTTTTAAAAAGCGCCGCTAAT
1 CGGCG--TTTTCAAAAGCGCCGCTAAT
18586897 ACTCGTTCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
39 5 0.09
40 44 0.79
41 3 0.05
42 4 0.07
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (38 bp):
CGGCGTTTTCAAAAGCGCCGCTAATGGTTGACCTATAA
Found at i:18586907 original size:40 final size:40
Alignment explanation
Indices: 18586844--18586920 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
18586834 GTTTTCCAAG
** *
18586844 AAGCGCCGCTAATGGTCTATCTATAGTGGCGATTTTTAAA
1 AAGCGCCGCTAATACTCTATCTATAGAGGCGATTTTTAAA
*
18586884 AAGCGCCGCTAATACTCGT-TCTATAGAGGCGTTTTTT
1 AAGCGCCGCTAATACTC-TATCTATAGAGGCGATTTTT
18586921 GTCCGCCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
AAGCGCCGCTAATACTCTATCTATAGAGGCGATTTTTAAA
Found at i:18587303 original size:20 final size:20
Alignment explanation
Indices: 18587278--18587316 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18587268 TATTTTTTTT
*
18587278 ATTTTATGAGAGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
*
18587298 ATTTTACGAGGGTTTAATT
1 ATTTTACGAGAGTTTAATT
18587317 AATTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.03, G:0.21, T:0.49
Consensus pattern (20 bp):
ATTTTACGAGAGTTTAATTG
Found at i:18589325 original size:20 final size:20
Alignment explanation
Indices: 18589300--18589338 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18589290 TACTTTCTTC
18589300 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18589320 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18589339 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18589680 original size:50 final size:50
Alignment explanation
Indices: 18589644--18589767 Score: 239
Period size: 50 Copynumber: 2.5 Consensus size: 50
18589634 CGGTGCTCAT
*
18589644 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
1 GCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
18589694 GCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
1 GCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
18589744 GCCATGTCTCAGACATGGTCTTAC
1 GCCATGTCTCAGACATGGTCTTAC
18589768 ATGGGGTCTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.24
Consensus pattern (50 bp):
GCCATGTCTCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTACCAAC
Found at i:18591116 original size:33 final size:32
Alignment explanation
Indices: 18591079--18591143 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
18591069 TGTGAAATGG
*
18591079 TAGCAAAATAGTGAAAAAAAAACAACAAGAAAA
1 TAGCAAAATAAT-AAAAAAAAACAACAAGAAAA
* * *
18591112 TAGCAAAATAATAATAATAAACAACAATAAAA
1 TAGCAAAATAATAAAAAAAAACAACAAGAAAA
18591144 CAGTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (32 bp):
TAGCAAAATAATAAAAAAAAACAACAAGAAAA
Found at i:18591540 original size:10 final size:10
Alignment explanation
Indices: 18591519--18591599 Score: 51
Period size: 10 Copynumber: 8.1 Consensus size: 10
18591509 ATTTATAACA
*
18591519 TTTAAAAATT
1 TTTAATAATT
18591529 TTCT-ATAATT
1 TT-TAATAATT
18591539 TTTAATAATT
1 TTTAATAATT
* *
18591549 TGT-ATAACT
1 TTTAATAATT
* *
18591558 ATTGATAATT
1 TTTAATAATT
18591568 TTTAATATATAT
1 TTTAATA-AT-T
*
18591580 TTTTA-AATT
1 TTTAATAATT
*
18591589 TTTAACAATT
1 TTTAATAATT
18591599 T
1 T
18591600 CCTACTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
9 12 0.22
10 34 0.62
11 4 0.07
12 5 0.09
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (10 bp):
TTTAATAATT
Found at i:18594883 original size:20 final size:20
Alignment explanation
Indices: 18594858--18594897 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18594848 ATATTTTCAA
* *
18594858 TTATTTCAATTTTATTTTAT
1 TTATTTCAATGTTATGTTAT
*
18594878 TTATTTTAATGTTATGTTAT
1 TTATTTCAATGTTATGTTAT
18594898 CCTATAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.68
Consensus pattern (20 bp):
TTATTTCAATGTTATGTTAT
Found at i:18595453 original size:21 final size:22
Alignment explanation
Indices: 18595429--18595480 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
18595419 ATATTTTCTC
*
18595429 TATTTTCTTTAAATTTTT-AAT
1 TATTTTCTTCAAATTTTTAAAT
*
18595450 TATTTAT-TTCAAGTTTTTAAAT
1 TATTT-TCTTCAAATTTTTAAAT
*
18595472 TTTTTTCTT
1 TATTTTCTT
18595481 ATGACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTTCTTCAAATTTTTAAAT
Found at i:18604108 original size:13 final size:13
Alignment explanation
Indices: 18604092--18604116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18604082 AAAATGCATA
18604092 AGTAAATACAACG
1 AGTAAATACAACG
18604105 AGTAAATACAAC
1 AGTAAATACAAC
18604117 TACAATGATT
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AGTAAATACAACG
Found at i:18606132 original size:23 final size:23
Alignment explanation
Indices: 18606102--18606147 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
18606092 TTTTTGAGGA
18606102 AGGAAGAAGAGAAACTCCCTCTT
1 AGGAAGAAGAGAAACTCCCTCTT
18606125 AGGAAGAAGAGAAACTCCCTCTT
1 AGGAAGAAGAGAAACTCCCTCTT
18606148 TTTTAACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (23 bp):
AGGAAGAAGAGAAACTCCCTCTT
Found at i:18611724 original size:21 final size:21
Alignment explanation
Indices: 18611673--18611724 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
18611663 TTACGTTTAA
*
18611673 TAATATTGAAAATTATAATAT
1 TAATATTTAAAATTATAATAT
18611694 TAATATTTTAAAAGTTA-AA-AT
1 TAATA-TTTAAAA-TTATAATAT
18611715 TAAATATTTA
1 T-AATATTTA
18611725 TATATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 12 0.44
22 12 0.44
23 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TAATATTTAAAATTATAATAT
Found at i:18613748 original size:41 final size:41
Alignment explanation
Indices: 18613690--18613839 Score: 237
Period size: 41 Copynumber: 3.6 Consensus size: 41
18613680 CTTAATTTAA
18613690 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* *
18613732 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
** *
18613773 CAGATCACCGGCACTTAGCCTGCTAAACTTATAGCCTGTTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
18613814 CAAATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
18613840 ACGTAAAGTC
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 95 0.96
42 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:18613895 original size:40 final size:40
Alignment explanation
Indices: 18613693--18613879 Score: 123
Period size: 41 Copynumber: 4.6 Consensus size: 40
18613683 AATTTAACAG
* * * * *
18613693 ATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATTCACCGGCACTTAGCCTGCTAGACGTAAAGCCTGA--AAA
*** * *
18613735 A-TCACCGGCACTTAGCCTGCTAGGTTTATAA-CCTGATTCAG
1 ATTCACCGGCACTTAGCCTGCTAGACGTA-AAGCCTGA--AAA
* * * **
18613776 A-TCACCGGCACTTAGCCTGCTAAACTTATAGCCTGTTTCAA
1 ATTCACCGGCACTTAGCCTGCTAGACGTAAAGCCTG--AAAA
*
18613817 A-TCACCGGCACTTAGCCTGCTAGACGTAAAGTCTGAAAA
1 ATTCACCGGCACTTAGCCTGCTAGACGTAAAGCCTGAAAA
18613856 ATTCACCGGCA-TTAAGCCTGCTAG
1 ATTCACCGGCACTT-AGCCTGCTAG
18613880 GCGCTTAGCC
Statistics
Matches: 125, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 5 0.04
40 20 0.16
41 98 0.78
42 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (40 bp):
ATTCACCGGCACTTAGCCTGCTAGACGTAAAGCCTGAAAA
Found at i:18618181 original size:66 final size:66
Alignment explanation
Indices: 18618083--18618208 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
18618073 GCTGTAGTTG
* *
18618083 GAGTTCGTCATATTTTCTTGTTGCATCTACTTC-CATC-ACTGCTGCCTCCACTTTAAGTTGTAG
1 GAGTTCATCATATTTTCTTGTAGCATCTACTTCTC-TCGA-TGCTGCCTCCACTTTAAGTTGTAG
18618146 CTA
64 CTA
*
18618149 GAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTG
1 GAGTTCATCATATTTTCTTGT-AGCATCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTG
18618209 AGCAATTTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
65 1 0.02
66 51 0.94
67 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.41
Consensus pattern (66 bp):
GAGTTCATCATATTTTCTTGTAGCATCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTGTAGCT
A
Found at i:18619231 original size:26 final size:26
Alignment explanation
Indices: 18619200--18619277 Score: 71
Period size: 26 Copynumber: 3.3 Consensus size: 26
18619190 AGAAAGTAAA
18619200 TATAAATGAAACTTAAACCAAAGTAT
1 TATAAATGAAACTTAAACCAAAGTAT
* * *
18619226 TATAAATTACA-TT----C-ATGT-T
1 TATAAATGAAACTTAAACCAAAGTAT
*
18619245 AATAAATGAAACTTAAACCAAAGTAT
1 TATAAATGAAACTTAAACCAAAGTAT
18619271 TATAAAT
1 TATAAAT
18619278 TACATTCACA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
19 9 0.24
20 5 0.14
21 1 0.03
24 1 0.03
25 5 0.14
26 16 0.43
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (26 bp):
TATAAATGAAACTTAAACCAAAGTAT
Found at i:18632736 original size:11 final size:11
Alignment explanation
Indices: 18632716--18632748 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18632706 GTTAAATTCG
18632716 TAATTGGTTGT
1 TAATTGGTTGT
*
18632727 TAATTTGTTGT
1 TAATTGGTTGT
18632738 TAATTGGTTGT
1 TAATTGGTTGT
18632749 GGTAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (11 bp):
TAATTGGTTGT
Found at i:18637045 original size:10 final size:10
Alignment explanation
Indices: 18637021--18637063 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
18637011 TATATGTTGA
*
18637021 ATAAAATGA-
1 ATAAAATTAG
18637030 ATAAAATTAG
1 ATAAAATTAG
*
18637040 ATAAAAAT-G
1 ATAAAATTAG
18637049 ATAAAATTAG
1 ATAAAATTAG
18637059 ATAAA
1 ATAAA
18637064 TAGATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (10 bp):
ATAAAATTAG
Found at i:18637045 original size:19 final size:18
Alignment explanation
Indices: 18637021--18637063 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
18637011 TATATGTTGA
18637021 ATAAAATGAATAAAATTAG
1 ATAAAATG-ATAAAATTAG
18637040 ATAAAAATGATAAAATTAG
1 AT-AAAATGATAAAATTAG
18637059 ATAAA
1 ATAAA
18637064 TAGATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATGATAAAATTAG
Found at i:18640014 original size:17 final size:18
Alignment explanation
Indices: 18639988--18640021 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18639978 TTTAAAAAGA
*
18639988 TATTTGTTT-AAATAATG
1 TATTTATTTAAAATAATG
18640005 TATTTATTTAAAATAAT
1 TATTTATTTAAAATAAT
18640022 TAATTTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATTTATTTAAAATAATG
Found at i:18643173 original size:64 final size:64
Alignment explanation
Indices: 18643094--18643305 Score: 182
Period size: 64 Copynumber: 3.3 Consensus size: 64
18643084 GCTATTCAGA
*
18643094 GTTGCGATCTTAAATCAACTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
1 GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
* * * * * * * * ***
18643158 GTTGCGATCTTAAATCGGCGAAC-CTTAATAATATGAATT-GTGATCTTAAATC-AGCTAGTTGT
1 GTTGCGATCTTAAATCAGCTAACTC-AAATAAAAT-TATTCATGATCTGAAATCGA-AT-GAACT
*
18643220 TCGG
62 T-AG
* * *
18643224 AGTTGTGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTA
1 -GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATC-GAATGAACTTA
18643288 G
64 G
18643289 GTTGCGAT-TTAAATCAG
1 GTTGCGATCTTAAATCAG
18643306 TGAACCTTAA
Statistics
Matches: 109, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
63 11 0.10
64 46 0.42
65 7 0.06
66 7 0.06
67 36 0.33
68 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (64 bp):
GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
Found at i:18643366 original size:130 final size:131
Alignment explanation
Indices: 18642982--18643396 Score: 566
Period size: 131 Copynumber: 3.2 Consensus size: 131
18642972 GTGAAAAAAT
* * * * * *
18642982 TAACTCCAATAAAATTGTTAATGATTTTAAATCGAATGAA-TGTAAGTTGCTATCTTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACT-TAGGTTGCGATCTTAAATCAGT
* * * * * * * *
18643046 GAACCTTAACAATATCAGCTGCGATATTAAATCAGCGAGCTATTCAGAGTTGCGATCTTAAATCA
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCA
*
18643111 AC
130 GC
* * *
18643113 TAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCGGCG
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
* * * *
18643178 AACCTTAATAATATGAATTGTGATCTTAAATCAGCTAGTTGTTCGGAGTTGTGATCTTAAATCAG
66 AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCAG
18643243 C
131 C
*
18643244 TAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTAGGTTGCGAT-TTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATC-GAATGAACTTAGGTTGCGATCTTAAATCAGT
*
18643307 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATTA
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCA
18643372 GC
130 GC
*
18643374 AAACTCAAATAAAATTGTTCATG
1 TAACTCAAATAAAATTGTTCATG
18643397 TTAAATAAAG
Statistics
Matches: 251, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
130 93 0.37
131 157 0.63
132 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (131 bp):
TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCAG
C
Found at i:18646634 original size:24 final size:24
Alignment explanation
Indices: 18646607--18646670 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
18646597 AACACAATGT
* *
18646607 AGATACAGAA-ACAAGTTCAGTTAC
1 AGATACA-AATACAAATTCAATTAC
*
18646631 AGATGCAAATACAAATTCAATTAC
1 AGATACAAATACAAATTCAATTAC
*
18646655 AGATACAAATGCAAAT
1 AGATACAAATACAAAT
18646671 GCAAACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
AGATACAAATACAAATTCAATTAC
Found at i:18650820 original size:112 final size:109
Alignment explanation
Indices: 18650582--18650801 Score: 244
Period size: 112 Copynumber: 2.0 Consensus size: 109
18650572 TATAATATTC
* * *
18650582 AAAAAAATAATTTTTTTTTGTGCTGGCACACTGATGGCCAACTCCCACTTTATCAGATAAAAAAA
1 AAAAAAAT-ATTTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAA
* * * * * **
18650647 TTTTGGTTTGGGAGAATTAGATGGCCAGCATCACCTTTTTCATATT
65 TTTTGGTTAGGGAGAACTAAATGGACAACATCACCTTTTT-ATAGG
* *
18650693 AAAAAAATAATTTTTTTTAGATGCTGGCACACTAATGGCTAACACCCACTTTATCAAATAAAAAA
1 AAAAAAAT-ATTTTTTTTTG-TGCTGGCACACTAATGGCCAACACCCACTTTATCAAAT-AAAAA
*
18650758 AATTTCTTAGGTTAGGG-GAACTAAATGGATAACATCACCTTTTT
63 AA-TT-TT-GGTTAGGGAGAACTAAATGGACAACATCACCTTTTT
18650802 TGGGAATACA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
111 19 0.20
112 34 0.37
113 7 0.08
114 2 0.02
115 24 0.26
116 7 0.08
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (109 bp):
AAAAAAATATTTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAAT
TTTGGTTAGGGAGAACTAAATGGACAACATCACCTTTTTATAGG
Found at i:18653600 original size:24 final size:24
Alignment explanation
Indices: 18653573--18653623 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
18653563 CCCATGATTC
* * *
18653573 AATTTAATTTATAGTGTAAATAAA
1 AATTCAATTAATAGTATAAATAAA
18653597 AATTCAATTAATAGTATAAATAAA
1 AATTCAATTAATAGTATAAATAAA
18653621 AAT
1 AAT
18653624 AATAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
AATTCAATTAATAGTATAAATAAA
Found at i:18653749 original size:109 final size:109
Alignment explanation
Indices: 18653611--18654092 Score: 901
Period size: 109 Copynumber: 4.4 Consensus size: 109
18653601 CAATTAATAG
*
18653611 TATAAATAAAAATAATAATTTGATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAA
1 TATAAAT-AAAAT-ATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAA
18653676 AATTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
64 AATTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
18653722 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
1 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
18653787 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
66 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
18653831 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
1 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
18653896 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
66 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
18653940 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
1 TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
18654005 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
66 TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
* *
18654049 TATAAATAAAAATAATAATTTAATATATTTCAATTGAATAGATT
1 TATAAAT-AAAAT-ATAATTTAATACATTTTAATTGAATAGATT
18654093 AAAATCAATT
Statistics
Matches: 366, Mismatches: 3, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
109 321 0.88
110 10 0.03
111 35 0.10
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (109 bp):
TATAAATAAAATATAATTTAATACATTTTAATTGAATAGATTTTAAATTAAAGTTTAAATTAAAA
TTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGAT
Found at i:18657151 original size:90 final size:89
Alignment explanation
Indices: 18657036--18657314 Score: 267
Period size: 90 Copynumber: 3.1 Consensus size: 89
18657026 AGAAAATACA
* * *
18657036 AACATTCTACAAAACTAATATACGAAAATATATAATTCGACCAACAAATAATACCGCCTAAATTT
1 AACATTTTACAAAACTAATATACGAAAATATAAAATTCGACCAACAAATAATACAG-CTAAATTT
*
18657101 TATTTATAGATACAAAACTCATATG
65 TATTTATAGATACAAAACTAATATG
* * **
18657126 AACATTTTAGAAAATTAATATACGAAAATATAAAATTCGATCGGA-AAATAATACAAGCTAAAAT
1 AACATTTTACAAAACTAATATACGAAAATATAAAATTCGA-CCAACAAATAATAC-AGCT-AAAT
* * * * **
18657190 ATT-TTTACAGATCCAAAAATAATACA
63 TTTATTTATAGATACAAAACTAATATG
* * ** *
18657216 AACATTTTACAGAACTGATATACGAAAAATATAAAAATT-GACCAACAAATAATATGGACTAAAA
1 AACATTTTACAAAACTAATATACG-AAAATAT-AAAATTCGACCAACAAATAATACAG-CTAAAT
* * *
18657280 TTGATTTATGGACACAAAACTAATATG
63 TTTATTTATAGATACAAAACTAATATG
*
18657307 AATATTTT
1 AACATTTT
18657315 GAATAATAGT
Statistics
Matches: 148, Mismatches: 33, Indels: 15
0.76 0.17 0.08
Matches are distributed among these distances:
90 91 0.61
91 51 0.34
92 6 0.04
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (89 bp):
AACATTTTACAAAACTAATATACGAAAATATAAAATTCGACCAACAAATAATACAGCTAAATTTT
ATTTATAGATACAAAACTAATATG
Found at i:18667268 original size:30 final size:30
Alignment explanation
Indices: 18667232--18667289 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
18667222 CAACTTAACA
18667232 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
* *
18667262 AACAAATGTCTTTAAAATAATAACAAAA
1 AACAAATGCCTCTAAAATAATAACAAAA
18667290 GTAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:18667346 original size:14 final size:14
Alignment explanation
Indices: 18667327--18667357 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18667317 GTCCAAACAA
18667327 TAACAACAAAATAG
1 TAACAACAAAATAG
*
18667341 TAACAACATAATAG
1 TAACAACAAAATAG
18667355 TAA
1 TAA
18667358 AATGGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:18668779 original size:18 final size:19
Alignment explanation
Indices: 18668756--18668806 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
18668746 ACACAAGCTT
18668756 TAAATTTAAAAT-TGTTCA
1 TAAATTTAAAATGTGTTCA
*
18668774 TAAATTGTAAAATGTTTTCA
1 TAAATT-TAAAATGTGTTCA
* *
18668794 AAAATATAAAATG
1 TAAATTTAAAATG
18668807 ATAATTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 13 0.46
20 9 0.32
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAATTTAAAATGTGTTCA
Found at i:18669046 original size:26 final size:25
Alignment explanation
Indices: 18669017--18669066 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
18669007 CTAATTTTAT
18669017 TAAAAATTATTTAT-ATTATAAAATAA
1 TAAAAATTATTT-TGA-TATAAAATAA
*
18669043 TAAATATTATTTTGATATAAAATA
1 TAAAAATTATTTTGATATAAAATA
18669067 TTAAGGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAAATTATTTTGATATAAAATAA
Found at i:18673712 original size:3 final size:3
Alignment explanation
Indices: 18673704--18673748 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
18673694 TATAGTAAGG
18673704 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18673749 ATTTAGCATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18673729 original size:20 final size:20
Alignment explanation
Indices: 18673704--18673744 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18673694 TATAGTAAGG
18673704 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
18673724 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
18673744 A
1 A
18673745 ATAAATTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:18675879 original size:15 final size:13
Alignment explanation
Indices: 18675854--18675894 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
18675844 TCTTTAAATC
18675854 ATTTTTTATATAA
1 ATTTTTTATATAA
18675867 ATTTATGTTATAT-A
1 ATTT-T-TTATATAA
18675881 ATTTTTTATATAA
1 ATTTTTTATATAA
18675894 A
1 A
18675895 CTTAACGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 6 0.24
15 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTTTATATAA
Found at i:18677882 original size:19 final size:19
Alignment explanation
Indices: 18677858--18677913 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
18677848 AAAATTATCA
18677858 TTTTAACTTTTTTTTTAAT
1 TTTTAACTTTTTTTTTAAT
*
18677877 TTTTAACTTTTTTTAT-AT
1 TTTTAACTTTTTTTTTAAT
* *
18677895 TCTTTAAATATTTTTTTAA
1 T-TTTAACTTTTTTTTTAA
18677914 AAAAACTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 3 0.10
19 27 0.87
20 1 0.03
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAACTTTTTTTTTAAT
Found at i:18677922 original size:23 final size:22
Alignment explanation
Indices: 18677896--18677938 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18677886 TTTTTATATT
*
18677896 CTTTAAATATTTTTTTAAAAAAA
1 CTTTAAA-ATTTTTTCAAAAAAA
*
18677919 CTTTATAATTTTTTCAAAAA
1 CTTTAAAATTTTTTCAAAAA
18677939 TATAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
CTTTAAAATTTTTTCAAAAAAA
Found at i:18677983 original size:16 final size:17
Alignment explanation
Indices: 18677951--18678005 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 17
18677941 TAATTTTTGG
18677951 AATTTTTATAAACATTTTA
1 AATTTTTA-AAA-ATTTTA
*
18677970 AA-TTTTAAATATTTTA
1 AATTTTTAAAAATTTTA
18677986 AATTTTTAAAAATTGTTA
1 AATTTTTAAAAATT-TTA
18678004 AA
1 AA
18678006 AAACTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.25
17 12 0.38
18 10 0.31
19 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
AATTTTTAAAAATTTTA
Found at i:18687033 original size:27 final size:27
Alignment explanation
Indices: 18686995--18687050 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
18686985 CTAAGGAAAA
18686995 CTCTGTCGCCAATCCTTCTTTCAGGGT
1 CTCTGTCGCCAATCCTTCTTTCAGGGT
18687022 CTCTGTCGCCAATCCTTCTTTCAGGGT
1 CTCTGTCGCCAATCCTTCTTTCAGGGT
18687049 CT
1 CT
18687051 ACTATGGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.34, G:0.18, T:0.38
Consensus pattern (27 bp):
CTCTGTCGCCAATCCTTCTTTCAGGGT
Found at i:18693497 original size:90 final size:87
Alignment explanation
Indices: 18693359--18693618 Score: 239
Period size: 90 Copynumber: 3.0 Consensus size: 87
18693349 TAAAACGCCT
* * *
18693359 TCAAACTTTTTT--AAAAAAGCAATTAAAC-CATTAATTTTTTT--ACTCAATTGGGTACTTGAA
1 TCAAA-TTTTTTCAAAAAAAGCAATTAAGCTC-CTGATTTTTTTACACTCAATTGGGTACTTGAA
*
18693419 CTTTCAAAATGCATAAAAAAGACCC
64 CTTT-AAAATGCATAAAAAAGACAC
* ****
18693444 TCAATCTTTTTTTTTTAAAA-CAATTAAGC-CCATGTTATTTTTTTACACTCAATTGGGTACTTG
1 TCAA-ATTTTTTCAAAAAAAGCAATTAAGCTCC-TG--ATTTTTTTACACTCAATTGGGTACTTG
*
18693507 AACTTTTAAAATGCATTAAAAAA-TCAC
62 AAC-TTTAAAATGCA-TAAAAAAGACAC
* * * *
18693534 TCAAATTTTTTCAAAAAAAGTAATTAAGCTCCTGATTTTTTTACACTAAATTAGGTACTTTAACT
1 TCAAATTTTTTCAAAAAAAGCAATTAAGCTCCTGATTTTTTTACACTCAATTGGGTACTTGAACT
* *
18693599 GTAAAATGCATCAAAAAGAC
66 TTAAAATGCATAAAAAAGAC
18693619 TATTTGACCG
Statistics
Matches: 142, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
85 10 0.07
86 16 0.11
87 15 0.11
88 35 0.25
89 10 0.07
90 44 0.31
91 12 0.08
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (87 bp):
TCAAATTTTTTCAAAAAAAGCAATTAAGCTCCTGATTTTTTTACACTCAATTGGGTACTTGAACT
TTAAAATGCATAAAAAAGACAC
Found at i:18693752 original size:16 final size:16
Alignment explanation
Indices: 18693720--18693765 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
18693710 ACATGTGACA
**
18693720 AAAAAATATAATTAAT
1 AAAAAATATAAAAAAT
**
18693736 AAAAGTTATAAAAAAT
1 AAAAAATATAAAAAAT
18693752 AAAAAATATAAAAA
1 AAAAAATATAAAAA
18693766 TCGTAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAAATATAAAAAAT
Found at i:18693818 original size:19 final size:18
Alignment explanation
Indices: 18693734--18693833 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 18
18693724 AATATAATTA
*
18693734 ATAAAAGTTATAAAAA--
1 ATAAAAATTATAAAAATC
*
18693750 ATAAAAAATATAAAAATC
1 ATAAAAATTATAAAAATC
* * *
18693768 GTAGAAAAATATAAAATATT
1 ATA-AAAATTATAAAA-ATC
* *
18693788 GTAAAATTTTATAAAAATC
1 ATAAAA-ATTATAAAAATC
18693807 ATAAAAACTTATAAAAATGC
1 ATAAAAA-TTATAAAAAT-C
18693827 ATAAAAA
1 ATAAAAA
18693834 ACCCCCTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
16 14 0.21
18 2 0.03
19 32 0.47
20 20 0.29
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (18 bp):
ATAAAAATTATAAAAATC
Found at i:18693823 original size:10 final size:9
Alignment explanation
Indices: 18693729--18693824 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 9
18693719 AAAAAAATAT
18693729 AATTAATAAA
1 AATT-ATAAA
*
18693739 AGTTATAAA
1 AATTATAAA
18693748 AA--ATAAA
1 AATTATAAA
*
18693755 AAATATAAA
1 AATTATAAA
*
18693764 AATCGTAGAAA
1 AAT--TATAAA
18693775 AA-TATAAA
1 AATTATAAA
*
18693783 ATATTGTAAA
1 A-ATTATAAA
*
18693793 ATTTTATAAA
1 A-ATTATAAA
*
18693803 AATCATAAA
1 AATTATAAA
18693812 AACTTATAAA
1 AA-TTATAAA
18693822 AAT
1 AAT
18693825 GCATAAAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 23 0.34
10 25 0.37
11 7 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (9 bp):
AATTATAAA
Found at i:18694456 original size:95 final size:89
Alignment explanation
Indices: 18694334--18694501 Score: 221
Period size: 90 Copynumber: 1.8 Consensus size: 89
18694324 TTTCAGGGCC
* *
18694334 TTTTTTATGCATTTTGAAAGTTCAAGTAC-CAATTGAGTGCAAAAAAAAAAAGTAGGGGCTTAAT
1 TTTTTTATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTG----AAAAAAAAG--GGGGCTTAAT
18694398 TGCTTTTTTTTTTTTTTTAAGTTTGAGGGT
60 TGCTTTTTTTTTTTTTTTAAGTTTGAGGGT
* * *
18694428 TTTTTTGATGGATTGTGAAAGTTGAAGTACTCAAGTGAGTGAAAAGAAAGGGGGCTTAATTGCTT
1 TTTTTT-ATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTGAAAAAAAAGGGGGCTTAATTGCTT
18694493 TTTTTTTTT
65 TTTTTTTTT
18694502 AAATTAAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
90 24 0.36
92 8 0.12
94 6 0.09
95 20 0.30
96 9 0.13
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (89 bp):
TTTTTTATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTGAAAAAAAAGGGGGCTTAATTGCTTT
TTTTTTTTTTTTAAGTTTGAGGGT
Found at i:18696153 original size:43 final size:43
Alignment explanation
Indices: 18696053--18696245 Score: 191
Period size: 43 Copynumber: 4.5 Consensus size: 43
18696043 CATTGAATAA
* * * * *
18696053 AAAGGGGTTGCTAAGTGCTGA-TTC-CCCGAATTATTGAATCT-
1 AAAGGGGTTGCTATGTGCTGATTTCACCC-TATCATTGATTGTG
*
18696094 AAAGGTGGTTGCTATGTGCTGATTTCACCCTATCTTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
* * *
18696138 AAAGGGATTGCTATGTGCTGA-TTC-CCCGTATCATTGAATAT-
1 AAAGGGGTTGCTATGTGCTGATTTCACCC-TATCATTGATTGTG
* * * *
18696179 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
18696223 AAAGGGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATT
18696246 CCCCGTATCA
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 13 0.10
42 42 0.34
43 55 0.44
44 15 0.12
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
AAAGGGGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
Found at i:18696160 original size:85 final size:85
Alignment explanation
Indices: 18696053--18696291 Score: 336
Period size: 85 Copynumber: 2.8 Consensus size: 85
18696043 CATTGAATAA
* * * *
18696053 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGAATCTAAAGGTGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
* *
18696118 TCACCCTATCTTTGATTGTG
66 CCACCCTATCCTTGATTGTG
* *
18696138 AAAGGGATTGCTATGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
*
18696203 CCACCGTATCCTTGATTGTG
66 CCACCCTATCCTTGATTGTG
* * * * * *
18696223 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTAATGTTGTTGCTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
18696287 CCACC
66 CCACC
18696292 AAGTAACGGA
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 26 0.19
85 113 0.81
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
CCACCCTATCCTTGATTGTG
Found at i:18696246 original size:43 final size:41
Alignment explanation
Indices: 18696043--18696284 Score: 243
Period size: 42 Copynumber: 5.8 Consensus size: 41
18696033 GACCGGAATA
** * *
18696043 CATTGAATAAAAAGGGGTTGCTAAGTGCTGATTCCCCGAAT
1 CATTGAATGTAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* *
18696084 TATTGAATCTAAAGGTGGTTGCTATGTGCTGATTTCACCC-TAT
1 CATTGAATGTAAAGG-GGTTGCTATGTGCTGA-TTC-CCCGTAT
* * *
18696127 CTTTGATTGTGAAAGGGATTGCTATGTGCTGATTCCCCGTAT
1 CATTGAATGT-AAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* *
18696169 CATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 CATTGAATGTAAAGG-GGTTGCTATGTGCTGATTCC-CCGTAT
* *
18696212 CCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
1 CATTGAATGT-AAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* * * ** *
18696254 CACTGAATTTAATGTTGTTGCTAAGTGCTGA
1 CATTGAATGTAAAGGGGTTGCTATGTGCTGA
18696285 ATCCACCAAG
Statistics
Matches: 166, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
41 37 0.22
42 58 0.35
43 58 0.35
44 13 0.08
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
CATTGAATGTAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
Found at i:18698890 original size:14 final size:15
Alignment explanation
Indices: 18698866--18698894 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18698856 ATTAATTAAA
18698866 AAAATTATAAAATAT
1 AAAATTATAAAATAT
18698881 AAAA-TATAAAATAT
1 AAAATTATAAAATAT
18698895 TTTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATTATAAAATAT
Found at i:18698907 original size:24 final size:24
Alignment explanation
Indices: 18698873--18698918 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
18698863 AAAAAAATTA
18698873 TAAAATATAAAATATAAAATATTTT
1 TAAAATATAAAATAT-AAATATTTT
18698898 TAAAAT-TAAAATATAAATATT
1 TAAAATATAAAATATAAATATT
18698919 AAATCCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 8 0.38
25 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAAATATAAAATATAAATATTTT
Found at i:18699556 original size:33 final size:33
Alignment explanation
Indices: 18699507--18699608 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 33
18699497 GGGTTTTTGG
*
18699507 TAGGTTTAGGGTTTTTAAAAAAATTAATTAAAT
1 TAGGATTAGGGTTTTTAAAAAAATTAATTAAAT
* * * * *
18699540 TAGGTTTTTGGG-TTTTAAATAAATAAATAAAAT
1 TAGG-ATTAGGGTTTTTAAAAAAATTAATTAAAT
*
18699573 TAAGGATTAGGGTTTTTAAGAAAATTAATTAAAT
1 T-AGGATTAGGGTTTTTAAAAAAATTAATTAAAT
18699607 TA
1 TA
18699609 TAGTTTAGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 29 0.52
34 27 0.48
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (33 bp):
TAGGATTAGGGTTTTTAAAAAAATTAATTAAAT
Found at i:18699607 original size:34 final size:34
Alignment explanation
Indices: 18699508--18699608 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 34
18699498 GGTTTTTGGT
18699508 AGGT-TTAGGGTTTTTAAAAAAATTAATTAAATT-
1 AGGTATTAGGGTTTTT-AAAAAATTAATTAAATTA
* * * *
18699541 AGGTTTTTGGG-TTTTAAATAAATAAATAAAATTA
1 AGGTATTAGGGTTTTTAAA-AAATTAATTAAATTA
18699575 AGG-ATTAGGGTTTTTAAGAAAATTAATTAAATTA
1 AGGTATTAGGGTTTTTAA-AAAATTAATTAAATTA
18699609 TAGTTTAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
32 3 0.05
33 25 0.45
34 27 0.48
35 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (34 bp):
AGGTATTAGGGTTTTTAAAAAATTAATTAAATTA
Found at i:18699883 original size:125 final size:124
Alignment explanation
Indices: 18699686--18699956 Score: 361
Period size: 125 Copynumber: 2.2 Consensus size: 124
18699676 AACTTTTGTT
** *
18699686 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAAAAGATAATGTAAAAA
*
18699751 GCACTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACATGGACGCTC
65 G-ACTTCAAGCAGGATACACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCACATGGACGCTC
**
18699812 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAA-ATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAA-AAGATAATGT-AAAA
* ** *
18699876 ATG-CTTCAAGCAGGATACACTGTCAGTAAAATTGATGAAAAAAGCTCCCATGTGGACGCTG
64 A-GACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
18699937 TTTTTCTACAAG-AGTTCCTA
1 TTTTTCTAC-AGTAGTTCCTA
18699957 TTTGACCTTA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
125 102 0.78
126 27 0.21
127 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAAAAGATAATGTAAAAAG
ACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
Found at i:18706844 original size:3 final size:3
Alignment explanation
Indices: 18706836--18706945 Score: 179
Period size: 3 Copynumber: 37.0 Consensus size: 3
18706826 ATTTTAGTCG
*
18706836 GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
18706883 GAA GAA GAA GAA GAA GGAA G-A GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
18706928 GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA
18706946 TAGAGAGAGG
Statistics
Matches: 100, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
2 4 0.04
3 93 0.93
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:18713014 original size:21 final size:20
Alignment explanation
Indices: 18712990--18713028 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18712980 TTTTATCATC
*
18712990 TTTAATTATTTCTCTTTTCAG
1 TTTAATCATTT-TCTTTTCAG
*
18713011 TTTAGTCATTTTCTTTTC
1 TTTAATCATTTTCTTTTC
18713029 TTAAATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAATCATTTTCTTTTCAG
Found at i:18720574 original size:48 final size:48
Alignment explanation
Indices: 18720325--18720552 Score: 332
Period size: 48 Copynumber: 4.7 Consensus size: 48
18720315 TAATTGCAAT
* ** * *
18720325 ATTAAAACTTGGAACAAATTTTGTGGTCATAAATTAGATTA-ATTGCAAC
1 ATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTA-AATACATTACAAC
*
18720374 ATTAAAACTTGGAACAAACTTTGTAGTATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
*
18720422 ATTAAAACTTGGAACAAACTTTGTAATATAAGTTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* * *
18720470 ATTATAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
*
18720518 ATTAAAACTTGAAACAAACTTTGTAATATAAATTA
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTA
18720553 GGTACATTGG
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
47 3 0.02
48 136 0.83
49 25 0.15
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (48 bp):
ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
Found at i:18721654 original size:18 final size:18
Alignment explanation
Indices: 18721607--18721654 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
18721597 TTGAGGCATA
* *
18721607 CGAGCTAGAGCCCGAGCC
1 CGAGCTAAAGCCAGAGCC
* *
18721625 AGAGCAAAAGCCAGAGCC
1 CGAGCTAAAGCCAGAGCC
*
18721643 CGAGCTATAGCC
1 CGAGCTAAAGCC
18721655 CAAGCGGTCG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.29, T:0.06
Consensus pattern (18 bp):
CGAGCTAAAGCCAGAGCC
Found at i:18725072 original size:9 final size:9
Alignment explanation
Indices: 18725058--18725094 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
18725048 TATAGTTTGA
18725058 TATTCGAAT
1 TATTCGAAT
18725067 TATTCGAAT
1 TATTCGAAT
18725076 TATTCGAAT
1 TATTCGAAT
18725085 TATTCGAAT
1 TATTCGAAT
18725094 T
1 T
18725095 CAAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18726908 original size:2 final size:2
Alignment explanation
Indices: 18726901--18726926 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18726891 CACTACTATT
18726901 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
18726927 GTCAAACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18728849 original size:300 final size:293
Alignment explanation
Indices: 18728477--18729074 Score: 882
Period size: 297 Copynumber: 2.0 Consensus size: 293
18728467 TTTTTAGAAA
*
18728477 TTCATTATAAACTTTTGTTTTCAAATGTAACATCTTATTATTTAATTCATCATTTGTTAATATAT
1 TTCATTATAAACTTTAGTTTTCAAATGTAACATCTTATTATTTAATTCATCATTTGTTAATATAT
* * *
18728542 TTATTTTATG-AAATTTGATATAATTTGTATGTATTTTAATGTTTTATTTCATGTTATATCTTAA
66 ATATTTTATGAAAATTTGATATAACTTGTATGTATTTTAATGTTTTATTTCATATTATATCTTAA
* *
18728606 AATT-CTC-TCATT-TATATATGGACTACATATTTGATGTTTACATGATAATCTTTTTCTTAATG
131 AATTACCCTTCATTATATATATGAACTACATATTTGATG--T--A--A-AAT-TTTTTCTTAATG
*
18728668 CTAGTATTCTTATGTATGACTTATTAAATTATTCATTTCTAGGGTATATCACTATCCTGATCTTA
188 CTAGTATTCTTATGTATGACTTATTAAATTATTCATTTCTAGGGTATATCACTATCCTGACCTTA
*
18728733 TTATGACTGTTAATTTTAA-GTTATTGATGTGTTTATGTGTTCAT
253 TTATGACTATTAA----AATGTTATTGATGTGTTTATGTGTTCAT
18728777 TTCATTATAAACTTTAGTTTTCAAATGTAACATCTTATTATTTAATTCATCATTTGTTAATATAT
1 TTCATTATAAACTTTAGTTTTCAAATGTAACATCTTATTATTTAATTCATCATTTGTTAATATAT
18728842 ATATTTTATGAAAATTTGATATAACTTGTATGTATTTTAATGTTTTATTTCATATTATATCTTAA
66 ATATTTTATGAAAATTTGATATAACTTGTATGTATTTTAATGTTTTATTTCATATTATATCTTAA
** * *
18728907 AATTCACCCTTTTTTATATATATGAACTACATGTTTGATGTAACATTTTTTCTTAATGCTAGTAT
131 AATT-ACCCTTCATTATATATATGAACTACATATTTGATGTAAAATTTTTTCTTAATGCTAGTAT
* ** * * *
18728972 TCTTATGTATGACTTATTAAATTATTCTTTTCTTTGGTATATCATTATTCTGACCTTATTATGCC
195 TCTTATGTATGACTTATTAAATTATTCATTTCTAGGGTATATCACTATCCTGACCTTATTATGAC
18729037 TATTAAAATGTTATTGATGTGTTTATGTGTTCAT
260 TATTAAAATGTTATTGATGTGTTTATGTGTTCAT
18729071 TTCA
1 TTCA
18729075 AATTGATTTT
Statistics
Matches: 274, Mismatches: 18, Indels: 18
0.88 0.06 0.06
Matches are distributed among these distances:
293 2 0.01
294 29 0.11
297 82 0.30
298 2 0.01
299 1 0.00
300 73 0.27
301 57 0.21
303 3 0.01
304 3 0.01
305 22 0.08
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (293 bp):
TTCATTATAAACTTTAGTTTTCAAATGTAACATCTTATTATTTAATTCATCATTTGTTAATATAT
ATATTTTATGAAAATTTGATATAACTTGTATGTATTTTAATGTTTTATTTCATATTATATCTTAA
AATTACCCTTCATTATATATATGAACTACATATTTGATGTAAAATTTTTTCTTAATGCTAGTATT
CTTATGTATGACTTATTAAATTATTCATTTCTAGGGTATATCACTATCCTGACCTTATTATGACT
ATTAAAATGTTATTGATGTGTTTATGTGTTCAT
Found at i:18730653 original size:20 final size:20
Alignment explanation
Indices: 18730607--18730646 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18730597 TGATATGTTT
18730607 AAAT-ATTTTAACTTAATTC
1 AAATAATTTTAACTTAATTC
*
18730626 AAATAATTTT-ACTTTATTC
1 AAATAATTTTAACTTAATTC
18730645 AA
1 AA
18730647 TTCAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTTAACTTAATTC
Found at i:18733457 original size:14 final size:14
Alignment explanation
Indices: 18733438--18733467 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18733428 ATAATTTAAC
*
18733438 TAAAAACTTTTGAA
1 TAAAAACTTTCGAA
18733452 TAAAAACTTTCGAA
1 TAAAAACTTTCGAA
18733466 TA
1 TA
18733468 TGTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TAAAAACTTTCGAA
Found at i:18738082 original size:3 final size:3
Alignment explanation
Indices: 18738074--18738110 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
18738064 ATTATCTCCG
* *
18738074 ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18738111 AAAACCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:18742451 original size:11 final size:11
Alignment explanation
Indices: 18742437--18742462 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18742427 AATTTTGAGC
18742437 ATAATTTGTTA
1 ATAATTTGTTA
18742448 ATAATTTGTTA
1 ATAATTTGTTA
18742459 ATAA
1 ATAA
18742463 GTATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (11 bp):
ATAATTTGTTA
Found at i:18744299 original size:12 final size:12
Alignment explanation
Indices: 18744282--18744307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18744272 TTCATTTAAG
18744282 TTTTTGTTTGCT
1 TTTTTGTTTGCT
18744294 TTTTTGTTTGCT
1 TTTTTGTTTGCT
18744306 TT
1 TT
18744308 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:18747284 original size:44 final size:44
Alignment explanation
Indices: 18747237--18747561 Score: 596
Period size: 44 Copynumber: 7.4 Consensus size: 44
18747227 TTATTCCTAA
* * *
18747237 TTTAAAACACGTTAAATTATAATACAATATACATGCATATTTAA
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
* *
18747281 TTTAAAGCACATTAAATTATAACACAATATACATACATATTTAT
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
18747325 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
18747369 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
18747413 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
18747457 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
*
18747501 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAA
1 TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
18747545 TTTAAAACACATTAAAT
1 TTTAAAACACATTAAAT
18747562 GAAATAAATT
Statistics
Matches: 273, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 273 1.00
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.38
Consensus pattern (44 bp):
TTTAAAACACATTAAATTATAATACAATATACATACATATTTAT
Found at i:18747657 original size:49 final size:49
Alignment explanation
Indices: 18747594--18747933 Score: 487
Period size: 49 Copynumber: 7.0 Consensus size: 49
18747584 AAATTAATAT
* * *
18747594 GAAAAAAACA-TAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAA-ATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
* ** *
18747643 GAAAAAAAAGTAAATAAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
18747692 G-AAAAAAATTAAATTTAAATGGAAAAAAAGGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAA-GATAATTTAAATGAAATGA
18747741 G-AAAAAAATTAAATTTAAATGGAAAAAAGAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAA-AGATAATTTAAATGAAATGA
18747790 G--AAAAAATTAAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGA
* * * *
18747838 GAAAAAAAATTAAATTTAAATGGAAAGAAACAAAATTTAAATGAAATTA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
18747887 GAAAAAAAAATTAAATTTAAAT--AAAAAAAGATAATTTAAATGAAATG
1 G-AAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
18747934 GATATGGAAA
Statistics
Matches: 270, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
48 87 0.32
49 142 0.53
50 41 0.15
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (49 bp):
GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
Found at i:18747763 original size:97 final size:97
Alignment explanation
Indices: 18747594--18747933 Score: 499
Period size: 97 Copynumber: 3.5 Consensus size: 97
18747584 AAATTAATAT
* * * * * *
18747594 GAAAAAAACATAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGAGAAAAAAAAGTAAATA
1 GAAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
*
18747659 AAAATGGAAAGAAAGATAATTTAAATGAAATGA
65 TAAATGGAAAGAAAGATAATTTAAATGAAATGA
18747692 GAAAAAAATTAAATTTAAATGGAAAAAAAGGATAATTTAAATGAAATGAG-AAAAAAATTAAATT
1 GAAAAAAATTAAATTTAAATGGAAAAAAA-GATAATTTAAATGAAATGAGAAAAAAAATTAAATT
*
18747756 TAAATGGAAAAAAGAGATAATTTAAATGAAATGA
65 TAAATGGAAAGAA-AGATAATTTAAATGAAATGA
18747790 G-AAAAAATTAAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
1 GAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
* *
18747854 TAAATGGAAAGAAACAAAATTTAAATGAAATTAGA
65 TAAATGGAAAGAAAGATAATTTAAATGAAA-T-GA
*
18747889 AAAAAAAATTAAATTTAAAT--AAAAAAAGATAATTTAAATGAAATG
1 GAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
18747934 GATATGGAAA
Statistics
Matches: 223, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
97 120 0.54
98 83 0.37
99 2 0.01
100 18 0.08
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (97 bp):
GAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTT
AAATGGAAAGAAAGATAATTTAAATGAAATGA
Found at i:18747948 original size:5 final size:5
Alignment explanation
Indices: 18747924--18747990 Score: 80
Period size: 5 Copynumber: 12.6 Consensus size: 5
18747914 AAGATAATTT
*
18747924 AAATG AAATGG ATATGG AAATG AAATG AAATG AAATG AAATG AAATGG
1 AAATG AAAT-G AAAT-G AAATG AAATG AAATG AAATG AAATG AAAT-G
*
18747972 AAATAG AAATT AAATG AAA
1 AAAT-G AAATG AAATG AAA
18747991 AAAGAAGAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
5 36 0.65
6 19 0.35
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:18747965 original size:32 final size:32
Alignment explanation
Indices: 18747925--18747990 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
18747915 AGATAATTTA
*
18747925 AATGAAATGGATATGGAAAT-GAAATGAAATGA
1 AATGAAAT-GAAATGGAAATAGAAATGAAATGA
*
18747957 AATGAAATGAAATGGAAATAGAAATTAAATGA
1 AATGAAATGAAATGGAAATAGAAATGAAATGA
18747989 AA
1 AA
18747991 AAAGAAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (32 bp):
AATGAAATGAAATGGAAATAGAAATGAAATGA
Found at i:18747992 original size:97 final size:98
Alignment explanation
Indices: 18747621--18747993 Score: 358
Period size: 97 Copynumber: 3.8 Consensus size: 98
18747611 AAATGGCAAG
** * * **
18747621 AAAGATAATTTAAATGAAATGAGAAAAAAAA-GTAAATAAAAATGGAAAGAAAGATAATTTAAAT
1 AAAGATAATTTAAATGAAATGAGAAAAAAAATG-AAATTGAAATGGAAAGAAACAAAATGGAAAT
*
18747685 GAAATGAG-A-AAAAAATTAAATTTAAATGGAAAA
65 GAAATTAGAAGAAAAAATTAAATTTAAAT-GAAAA
* * * **
18747718 AAAGGATAATTTAAATGAAATGAG-AAAAAAATTAAATTTAAATGGAAA-AAAGAGATAATTTAA
1 AAA-GATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACA-A-AATGGAA
18747781 ATGAAA-T-G-AGAAAAAATTAAATTTAAATGGAAAAA
63 ATGAAATTAGAAGAAAAAATTAAATTTAAAT-G-AAAA
* * **
18747816 AAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTTAAATGGAAAGAAACAAAATTTAAATG
1 AAAGATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACAAAATGGAAATG
*
18747881 AAATTAGAAAAAAAAATTAAATTTAAAT-AAAA
66 AAATTAGAAGAAAAAATTAAATTTAAATGAAAA
*** **
18747913 AAAGATAATTTAAATGAAATG-GATATGGAAATGAAA-TGAAAT-GAAATGAAATGAAATGGAAA
1 AAAGATAATTTAAATGAAATGAGA-AAAAAAATGAAATTGAAATGGAAA-GAAACAAAATGGAAA
18747975 TAGAAATTA-AATGAAAAAA
64 T-GAAATTAGAA-GAAAAAA
18747994 GAAGAAGATG
Statistics
Matches: 244, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
95 4 0.02
96 28 0.11
97 122 0.50
98 66 0.27
99 5 0.02
100 19 0.08
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.23
Consensus pattern (98 bp):
AAAGATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACAAAATGGAAATG
AAATTAGAAGAAAAAATTAAATTTAAATGAAAA
Found at i:18749350 original size:19 final size:18
Alignment explanation
Indices: 18749320--18749369 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
18749310 TTACTGCTAT
*
18749320 TATTTCTTTATTTTTGTTC
1 TATTT-TTTATTTTTGGTC
18749339 ATATTTTTTA-TTTTGGTC
1 -TATTTTTTATTTTTGGTC
18749357 TA-TTTTTATTTTT
1 TATTTTTTATTTTT
18749370 TCGGTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 7 0.25
19 4 0.14
20 5 0.18
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TATTTTTTATTTTTGGTC
Found at i:18749369 original size:17 final size:18
Alignment explanation
Indices: 18749326--18749369 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
18749316 CTATTATTTC
*
18749326 TTTATTTTTGTTCATATT
1 TTTATTTTTGGTCATATT
18749344 TTT-TATTTTGGTC-TATT
1 TTTAT-TTTTGGTCATATT
18749361 TTTATTTTT
1 TTTATTTTT
18749370 TCGGTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTATTTTTGGTCATATT
Found at i:18749442 original size:3 final size:3
Alignment explanation
Indices: 18749395--18749425 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
18749385 ATTTTATTCT
18749395 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18749426 ATTTATGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18749607 original size:3 final size:3
Alignment explanation
Indices: 18749599--18749660 Score: 74
Period size: 3 Copynumber: 21.0 Consensus size: 3
18749589 ATTGTTTGTC
* * *
18749599 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATT -TT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18749646 ATTT ATT -TT ATT ATT
1 A-TT ATT ATT ATT ATT
18749661 TATTTCATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:18749657 original size:29 final size:30
Alignment explanation
Indices: 18749618--18749686 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
18749608 ATTATTATTA
*
18749618 TTATTATTATTA-TTATCATCATTTTTTTAT
1 TTATTATTATTATTTAT-ATCATTTTTTGAT
*
18749648 TTATT-TTATTATTTATTTCATTTTTTGAT
1 TTATTATTATTATTTATATCATTTTTTGAT
*
18749677 TT-TTAATATT
1 TTATTATTATT
18749687 GGTATTAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 23 0.68
30 9 0.26
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (30 bp):
TTATTATTATTATTTATATCATTTTTTGAT
Found at i:18749661 original size:12 final size:12
Alignment explanation
Indices: 18749603--18749679 Score: 59
Period size: 12 Copynumber: 6.2 Consensus size: 12
18749593 TTTGTCATTA
18749603 TTATTA-TTATT
1 TTATTATTTATT
18749614 ATTATTA-TTATT
1 -TTATTATTTATT
*
18749626 ATTATTATCATCATT
1 -TTATTAT--TTATT
*
18749641 TTTTTATTTATT
1 TTATTATTTATT
18749653 TTATTATTTATT
1 TTATTATTTATT
* *
18749665 TCATTTTTTGATT
1 TTATTATTT-ATT
18749678 TT
1 TT
18749680 TAATATTGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
12 40 0.74
13 4 0.07
14 6 0.11
15 4 0.07
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:18750667 original size:5 final size:5
Alignment explanation
Indices: 18750657--18750941 Score: 91
Period size: 5 Copynumber: 53.2 Consensus size: 5
18750647 GAAAAAAATT
* *
18750657 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGTA ATTTGT AATGA
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATG-A A-ATGA AATGA
*
18750707 ATATAA AATGA AATGA AATGTTA AATGA ATATGA AATGA AATG- -ATGA
1 A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA AATGA
* * * * *
18750754 TTATGA AATGG AATGA AAGTTTA AATGA ACAT-A AATTATA AATTAA AATGA
1 -AATGA AATGA AATGA AA--TGA AATGA A-ATGA AA-T-GA AA-TGA AATGA
** * ** * *
18750805 AAACA AA--A ACTGA AATGAA AAAAA AATTTGA AATGA GAA-AA AATTA
1 AATGA AATGA AATGA AATG-A AATGA AA--TGA AATGA -AATGA AATGA
* * * *
18750851 AATTTA AATGGA AA-AA TAAT-A ATTTA AATGA AATGTA AATGTA AATGA
1 AA-TGA AAT-GA AATGA -AATGA AATGA AATGA AATG-A AATG-A AATGA
*
18750899 AATGA AATGGA AATGGA AATGA AATGA AATGA AATAA AATGA A
1 AATGA AAT-GA AAT-GA AATGA AATGA AATGA AATGA AATGA A
18750942 CAAAAAAGGT
Statistics
Matches: 218, Mismatches: 30, Indels: 64
0.70 0.10 0.21
Matches are distributed among these distances:
3 5 0.02
4 6 0.03
5 122 0.56
6 61 0.28
7 24 0.11
ACGTcount: A:0.57, C:0.01, G:0.15, T:0.27
Consensus pattern (5 bp):
AATGA
Found at i:18750683 original size:56 final size:56
Alignment explanation
Indices: 18750622--18750742 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 56
18750612 ACTTGTGATT
*
18750622 AATATGAAAAAAAATTGTATAATAGGAA-AAAAAT-TAATGAAATGAAATGTTAAATG
1 AATATGAAAAAAAA-TGTA-AATAGGAATAAAAATAAAATGAAATGAAATGTTAAATG
** * * * * *
18750678 AATATGAAATGAAATGTAATTTGTAATGAATATAAAATGAAATGAAATGTTAAATG
1 AATATGAAAAAAAATGTAAATAGGAATAAAAATAAAATGAAATGAAATGTTAAATG
18750734 AATATGAAA
1 AATATGAAA
18750743 TGAAATGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 5 0.09
55 8 0.15
56 42 0.76
ACGTcount: A:0.56, C:0.00, G:0.15, T:0.29
Consensus pattern (56 bp):
AATATGAAAAAAAATGTAAATAGGAATAAAAATAAAATGAAATGAAATGTTAAATG
Found at i:18750689 original size:28 final size:28
Alignment explanation
Indices: 18750657--18750750 Score: 145
Period size: 28 Copynumber: 3.4 Consensus size: 28
18750647 GAAAAAAATT
18750657 AATGAAATGAAATGTTAAATGAATATGA
1 AATGAAATGAAATGTTAAATGAATATGA
* * *
18750685 AATGAAATGTAAT-TTGTAATGAATATAA
1 AATGAAATGAAATGTT-AAATGAATATGA
18750713 AATGAAATGAAATGTTAAATGAATATGA
1 AATGAAATGAAATGTTAAATGAATATGA
18750741 AATGAAATGA
1 AATGAAATGA
18750751 TGATTATGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.03
28 54 0.93
29 2 0.03
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (28 bp):
AATGAAATGAAATGTTAAATGAATATGA
Found at i:18750758 original size:19 final size:19
Alignment explanation
Indices: 18750675--18750769 Score: 74
Period size: 19 Copynumber: 5.1 Consensus size: 19
18750665 GAAATGTTAA
18750675 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
* *
18750694 -T-AATTTGTAATG-AAT-
1 ATGAATATGAAATGAAATG
*
18750709 AT-AAAATGAAATGAAATG
1 ATGAATATGAAATGAAATG
18750727 TTAAATGAATATGAAATGAAATG
1 ----ATGAATATGAAATGAAATG
* *
18750750 ATGATTATGAAATGGAATG
1 ATGAATATGAAATGAAATG
18750769 A
1 A
18750770 AAGTTTAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
16 12 0.20
17 12 0.20
18 1 0.02
19 18 0.30
22 2 0.03
23 15 0.25
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.31
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:18750822 original size:18 final size:18
Alignment explanation
Indices: 18750799--18750847 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
18750789 TTATAAATTA
18750799 AAATGAAAACAAAAA-CTG
1 AAATGAAAA-AAAAATCTG
*
18750817 AAATGAAAAAAAAATTTG
1 AAATGAAAAAAAAATCTG
18750835 AAATGAGAAAAAA
1 AAATGA-AAAAAA
18750848 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.12, T:0.14
Consensus pattern (18 bp):
AAATGAAAAAAAAATCTG
Found at i:18750902 original size:22 final size:21
Alignment explanation
Indices: 18750876--18750941 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
18750866 ATAATAATTT
*
18750876 AAATGAAATGTAAATGTAAATG
1 AAATGAAATG-AAATGAAAATG
*
18750898 AAATGAAATGGAAATGGAAATG
1 AAATGAAAT-GAAATGAAAATG
18750920 AAATGAAATGAAAT-AAAATG
1 AAATGAAATGAAATGAAAATG
18750940 AA
1 AA
18750942 CAAAAAAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.17
21 5 0.12
22 28 0.68
23 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.21
Consensus pattern (21 bp):
AAATGAAATGAAATGAAAATG
Found at i:18758257 original size:15 final size:16
Alignment explanation
Indices: 18758227--18758260 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18758217 TACAATCTCT
*
18758227 TTTTACTTTGTTTTAA
1 TTTTAATTTGTTTTAA
18758243 TTTTAATTT-TTTTAA
1 TTTTAATTTGTTTTAA
18758258 TTT
1 TTT
18758261 AAACCCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTAATTTGTTTTAA
Found at i:18760475 original size:21 final size:21
Alignment explanation
Indices: 18760451--18760501 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
18760441 TACGGTTTAG
18760451 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
18760472 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
18760493 GGTTTAGGG
1 GGTTTAGGG
18760502 TCTAGGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTGT
Found at i:18762338 original size:22 final size:22
Alignment explanation
Indices: 18762311--18762356 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18762301 TCTTTCTACG
18762311 TAGGTTTAATCAGTATAAAATT
1 TAGGTTTAATCAGTATAAAATT
*
18762333 TAGGTTTAATCAGTATTAAATT
1 TAGGTTTAATCAGTATAAAATT
18762355 TA
1 TA
18762357 AGAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (22 bp):
TAGGTTTAATCAGTATAAAATT
Found at i:18762760 original size:13 final size:13
Alignment explanation
Indices: 18762742--18762779 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18762732 GAAGTTCTGC
18762742 TTAATGTTGCTGG
1 TTAATGTTGCTGG
*
18762755 TTAATGTTAG-GGG
1 TTAATGTT-GCTGG
18762768 TTAATGTTGCTG
1 TTAATGTTGCTG
18762780 CGAGTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.18, C:0.05, G:0.32, T:0.45
Consensus pattern (13 bp):
TTAATGTTGCTGG
Found at i:18763463 original size:67 final size:67
Alignment explanation
Indices: 18763321--18763456 Score: 159
Period size: 67 Copynumber: 2.0 Consensus size: 67
18763311 TATTAATATG
* * *
18763321 GATATATAACCTATATTTCAATTTTATTAATAATAAATTTTATAATTTTAAAAATAAATGTAAAT
1 GATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAATAAATATAAAT
**
18763386 GG
66 AA
* ***
18763388 GATATATAACCTATATTCCAAATTTATTAGTAA-ACAATTTT-TAATTTTTAAAAATGGTTATAA
1 GATATATAACCTATATTCCAAATTTATTAATAATA-AATTTTATAA-TTTTAAAAATAAATATAA
18763451 ATAA
64 ATAA
18763455 GA
1 GA
18763457 AGTATAAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
66 4 0.07
67 54 0.93
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (67 bp):
GATATATAACCTATATTCCAAATTTATTAATAATAAATTTTATAATTTTAAAAATAAATATAAAT
AA
Found at i:18763545 original size:7 final size:7
Alignment explanation
Indices: 18763473--18763497 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18763463 AAAGTGATAT
18763473 ATAATAC
1 ATAATAC
18763480 ATAATAC
1 ATAATAC
18763487 ATAATAC
1 ATAATAC
18763494 ATAA
1 ATAA
18763498 ATTTATCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:18763575 original size:52 final size:55
Alignment explanation
Indices: 18763477--18763590 Score: 139
Period size: 52 Copynumber: 2.1 Consensus size: 55
18763467 TGATATATAA
* *
18763477 TACATAATACATAATACATAAATTTATCAATCATATAATACATTATATACAAACT
1 TACATAATACATAATAAATAAATATATCAATCATATAATACATTATATACAAACT
*
18763532 TACATAATACATAACTTAAAT-AATATA-CAAT-ATATAA-AC-TTATATATAAACT
1 TACATAATACATAA--TAAATAAATATATCAATCATATAATACATTATATACAAACT
*
18763584 TGCATAA
1 TACATAA
18763591 CTTATATAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
52 18 0.34
53 2 0.04
54 6 0.11
55 18 0.34
56 5 0.09
57 4 0.08
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (55 bp):
TACATAATACATAATAAATAAATATATCAATCATATAATACATTATATACAAACT
Found at i:18763641 original size:9 final size:9
Alignment explanation
Indices: 18763629--18763744 Score: 130
Period size: 9 Copynumber: 12.7 Consensus size: 9
18763619 AAACATAGCC
18763629 TACATAACT
1 TACATAACT
18763638 TACATAACT
1 TACATAACT
*
18763647 TACATAAAT
1 TACATAACT
*
18763656 TAAATAACT
1 TACATAACT
18763665 TACATAACGT
1 TACATAAC-T
18763675 ACGTACATAA--
1 ---TACATAACT
18763685 TACATAACCT
1 TACATAA-CT
18763695 TAC-TAACT
1 TACATAACT
18763703 TACATAACT
1 TACATAACT
*
18763712 TACATAAAT
1 TACATAACT
*
18763721 TAAATAACT
1 TACATAACT
18763730 TACATAACT
1 TACATAACT
18763739 TACATA
1 TACATA
18763745 CATAATACAT
Statistics
Matches: 91, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.08
8 5 0.05
9 68 0.75
10 4 0.04
13 7 0.08
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:18763690 original size:65 final size:64
Alignment explanation
Indices: 18763614--18763772 Score: 246
Period size: 65 Copynumber: 2.4 Consensus size: 64
18763604 ATAATAACTA
* * *
18763614 ACATAAAACATAGCCTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACGTACGT
1 ACATAATACATAACCTAC-TAACTTACATAACTTACATAAATTAAATAACTTACATAACGTACAT
*
18763679 ACATAATACATAACCTTACTAACTTACATAACTTACATAAATTAAATAACTTACATAACTTACAT
1 ACATAATACATAACC-TACTAACTTACATAACTTACATAAATTAAATAACTTACATAACGTACAT
*
18763744 ACATAATACATAACCTTCCTAACTTACAT
1 ACATAATACATAACC-TACTAACTTACAT
18763773 TATACACAAC
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
65 85 0.97
66 3 0.03
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (64 bp):
ACATAATACATAACCTACTAACTTACATAACTTACATAAATTAAATAACTTACATAACGTACAT
Found at i:18763702 original size:38 final size:36
Alignment explanation
Indices: 18763660--18763772 Score: 109
Period size: 38 Copynumber: 3.3 Consensus size: 36
18763650 ATAAATTAAA
18763660 TAACTTACATAACGTACGTACATAATACATAACCTTAC
1 TAACTTACATAAC-TAC-TACATAATACATAACCTTAC
*
18763698 TAACTTACATAACT--TACATAA-A-TTAA----A-
1 TAACTTACATAACTACTACATAATACATAACCTTAC
*
18763725 TAACTTACATAACTTACATACATAATACATAACCTTCC
1 TAACTTACATAAC-TAC-TACATAATACATAACCTTAC
18763763 TAACTTACAT
1 TAACTTACAT
18763773 TATACACAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 22
0.71 0.03 0.26
Matches are distributed among these distances:
27 13 0.21
28 2 0.03
31 7 0.11
32 4 0.07
33 4 0.07
34 7 0.11
37 1 0.02
38 23 0.38
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (36 bp):
TAACTTACATAACTACTACATAATACATAACCTTAC
Found at i:18773153 original size:17 final size:17
Alignment explanation
Indices: 18773131--18773167 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18773121 GATTTAGTCA
*
18773131 CTCATGTTATTCATAAT
1 CTCATGTTATACATAAT
18773148 CTCATGTTATACATAAT
1 CTCATGTTATACATAAT
18773165 CTC
1 CTC
18773168 TATATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (17 bp):
CTCATGTTATACATAAT
Found at i:18774408 original size:17 final size:18
Alignment explanation
Indices: 18774388--18774431 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
18774378 TAATTTAATT
18774388 AACTAAATTAA-TTTCTC
1 AACTAAATTAATTTTCTC
18774405 AACTAAA-TAATTTTCTC
1 AACTAAATTAATTTTCTC
18774422 AACTAAATTA
1 AACTAAATTA
18774432 TAATTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.80
18 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
AACTAAATTAATTTTCTC
Found at i:18774434 original size:20 final size:19
Alignment explanation
Indices: 18774388--18774436 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
18774378 TAATTTAATT
18774388 AACTAAAT-TAA-TTTCTC
1 AACTAAATATAATTTTCTC
18774405 AACT-AA-ATAATTTTCTC
1 AACTAAATATAATTTTCTC
18774422 AACTAAATTATAATT
1 AACTAAA-TATAATT
18774437 CTATTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.19
17 14 0.52
18 2 0.07
20 6 0.22
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (19 bp):
AACTAAATATAATTTTCTC
Found at i:18777375 original size:19 final size:20
Alignment explanation
Indices: 18777341--18777378 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18777331 AATAATAATA
*
18777341 TTTTAATTGTTATCAATATG
1 TTTTAAATGTTATCAATATG
18777361 TTTTAAATG-TATCAATAT
1 TTTTAAATGTTATCAATAT
18777379 TATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAAATGTTATCAATATG
Found at i:18790021 original size:129 final size:129
Alignment explanation
Indices: 18789869--18790530 Score: 1261
Period size: 129 Copynumber: 5.1 Consensus size: 129
18789859 AAGCCAGAAA
*
18789869 TCTTACCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
18789934 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
18789998 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
18790063 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
18790127 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
18790192 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
18790256 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
18790321 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
*
18790385 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
* * * *
18790450 GTGGAGTGGATTAAAACAAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
*
18790514 TCTTATCTCCCTAAGAT
1 TCTTATCTCCCTGAGAT
18790531 CACGGTGGAA
Statistics
Matches: 526, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 526 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTAGCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGACTAGATCACATCAGG
Found at i:18790025 original size:85 final size:85
Alignment explanation
Indices: 18789919--18790539 Score: 346
Period size: 85 Copynumber: 7.2 Consensus size: 85
18789909 GTAATCCTAG
* *
18789919 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGA
1 CTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCTTATCTCCCTGAGA-TTACAGTAGA
18789983 -CTAGA-TCACATCAGGTCTTAT
64 GC-AGATTCACATCAGGTCTTAT
* ** * * * *
18790004 CTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCTAGCTCCCTGAGATTACAGTGGA
1 CTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCTTATCTCCCTGAGATTACAGTAGA
* * * *
18790068 GCGGATTAAAATAAAGGATCTTAT
64 GCAGATTCACAT-CAGG-TCTTAT
* * * * * **
18790092 CTCTCTGA-AGTTACAGTAGA-CTAGA-TCACATCAGG-TCTTATCTCCCTGAGATTACAGCGGA
1 CTCCCTGAGA-TTACAGTGGAGC-AGATTAAAATAAGGATCTTATCTCCCTGAGATTACAGTAGA
* * * * *
18790153 GCAGATTGA-AGCTAGTAATCCTAG
64 GCAGATTCACATC-AG--GTCTTAT
* *
18790177 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGA-AGTTACAGTAGA
1 CTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATCTTATCTCCCTGAGA-TTACAGTAGA
18790241 -CTAGA-TCACATCAGGTCTTAT
64 GC-AGATTCACATCAGGTCTTAT
* ** * * * *
18790262 CTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCTAGCTCCCTGAGATTACAGTGGA
1 CTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATCTTATCTCCCTGAGATTACAGTAGA
* * * *
18790326 GCGGATTAAAATAAAGGATCTTAT
64 GCAGATTCACAT-CAGG-TCTTAT
* * * * * **
18790350 CTCTCTGA-AGTTACAGTAGA-CTAGA-TCACATCAGG-TCTTATCTCCCTGAGATTACAGCGGA
1 CTCCCTGAGA-TTACAGTGGAGC-AGATTAAAATAAGGATCTTATCTCCCTGAGATTACAGTAGA
* * * *
18790411 GCAGATTGA-AGCTAGTAATCCTAT
64 GCAGATTCACATC-AG--GTCTTAT
** * * *
18790435 CTCCCTGAGATTACAGTGGAGTGGATTAAAACAAAGAATCTTATCTCTCTGA-AGTTACAGTAGA
1 CTCCCTGAGATTACAGTGGAGCAGATTAAAA-TAAGGATCTTATCTCCCTGAGA-TTACAGTAGA
*
18790499 GTAGA-TCACATCAGGTCTTAT
64 GCAGATTCACATCAGGTCTTAT
* * *
18790520 CTCCCTAAGATCACGGTGGA
1 CTCCCTGAGATTACAGTGGA
18790540 ATAGATCGAG
Statistics
Matches: 402, Mismatches: 93, Indels: 82
0.70 0.16 0.14
Matches are distributed among these distances:
84 10 0.02
85 227 0.56
86 32 0.08
87 32 0.08
88 101 0.25
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (85 bp):
CTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGGATCTTATCTCCCTGAGATTACAGTAGAGC
AGATTCACATCAGGTCTTAT
Found at i:18791007 original size:27 final size:27
Alignment explanation
Indices: 18790968--18791020 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
18790958 CCATTTACAG
* *
18790968 AAATTTAAACCCAGATTATTAA-ACCCA
1 AAATTCAAACCCA-AATATTAAGACCCA
*
18790995 AAATTCAAGCCCAAATATTAAGACCC
1 AAATTCAAACCCAAATATTAAGACCC
18791021 GAATAGCCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.23
Consensus pattern (27 bp):
AAATTCAAACCCAAATATTAAGACCCA
Found at i:18793025 original size:20 final size:19
Alignment explanation
Indices: 18792988--18793025 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18792978 TTTTTAAATA
*
18792988 ATATTGATACATTTAAAAC
1 ATATTGATACAATTAAAAC
18793007 ATATTGATAACAATTAAAA
1 ATATTGAT-ACAATTAAAA
18793026 TATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATTGATACAATTAAAAC
Found at i:18793484 original size:241 final size:239
Alignment explanation
Indices: 18793148--18793625 Score: 895
Period size: 241 Copynumber: 2.0 Consensus size: 239
18793138 TAAAAAAAAC
18793148 TTTTGAAATCAAAATTAAACATAAAAGGTATTTTTTTGAAATTGAAAGTAATAATCAACAAATTT
1 TTTTGAAATCAAAATTAAACATAAAAGGTATTTTTTTGAAATTGAAAGTAATAATCAACAAATTT
* *
18793213 TAAATCGAAGCTTAAATGCAATTAGGATAATAATAAATTAGAACA-AAATTTAAACAATTCACTT
66 TAAATCGAAGCTTAAATGAAATTAGGATAATAATAAATTAGAA-ATAAATTTAAACAATTCACTC
18793277 AAGATGTTGGTATATAAATATTACAAATAATATTAAATATTATAATCTATGAAAGTAGGATTTAA
130 AAGATGTTGGTATATAAATATTACAAATAATATTAAATATTATAATCTATGAAAGTAGGATTTAA
18793342 TTAATTAAAAATATTGTGGAATTTTTAAAAGGAAAGCTGAATTAA
195 TTAATTAAAAATATTGTGGAATTTTTAAAAGGAAAGCTGAATTAA
18793387 TTTTGAAATCAAAATTAAACATAAAAGGTATTTTTTTTTGAAATTGAAAGTAATAATCAACAAAT
1 TTTTGAAATCAAAATTAAACATAAAAGGTA--TTTTTTTGAAATTGAAAGTAATAATCAACAAAT
*
18793452 TTTAAATCGAAGCTTAAATGAAATTAGGATAATAATAAATTAGAAATAAATTTAAACAATTGACT
64 TTTAAATCGAAGCTTAAATGAAATTAGGATAATAATAAATTAGAAATAAATTTAAACAATTCACT
18793517 CAAGATGTTGGTATATAAATATTACAAATAATATTAAATATTATAATCTATGAAAGTAGGATTTA
129 CAAGATGTTGGTATATAAATATTACAAATAATATTAAATATTATAATCTATGAAAGTAGGATTTA
18793582 ATTAATTAAAAATATTGTGGAATTTTTAAAAGGAAAGCTGAATT
194 ATTAATTAAAAATATTGTGGAATTTTTAAAAGGAAAGCTGAATT
18793626 TGTATTAAGT
Statistics
Matches: 233, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
239 30 0.13
240 1 0.00
241 202 0.87
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (239 bp):
TTTTGAAATCAAAATTAAACATAAAAGGTATTTTTTTGAAATTGAAAGTAATAATCAACAAATTT
TAAATCGAAGCTTAAATGAAATTAGGATAATAATAAATTAGAAATAAATTTAAACAATTCACTCA
AGATGTTGGTATATAAATATTACAAATAATATTAAATATTATAATCTATGAAAGTAGGATTTAAT
TAATTAAAAATATTGTGGAATTTTTAAAAGGAAAGCTGAATTAA
Found at i:18799887 original size:234 final size:231
Alignment explanation
Indices: 18799258--18799919 Score: 695
Period size: 236 Copynumber: 2.8 Consensus size: 231
18799248 TAGTACTAAT
* * * * *
18799258 CACATCTAATGCTCATCCAAGATGAACATATCTATTTGTGACAAGTTACCTGTCTGGATTAAACC
1 CACATCTGATGCTCATCCAAGCTGAACATA--TATTTGTGTCAAGTTACCTGTCAGG-CTAAACC
* * * * *
18799323 TTTTATCGACACATCAAATAGCTTAGGCAAAGCTGTAAATATATATGTTAGGTTACCTGTCCAGG
63 TTTTATCGACACATCAAATAG-TTTGGCAAAGC--TATATATATATGTAAGGTTACCTGTTCGGG
* * * * *
18799388 CTAAACCTTTAAAACGACATCATGTTACTCG-TCTGAGCAAAAACTGTGTCACATGTATCTTCAA
125 CTAAACCTTTAAAACAACATCAAGTTACTTGTTC-GAGCTAAACCTGTGTCACATGTATCTTCAA
* * * * **
18799452 GTTTGCAACAAATGTTGGATCTTAGTAATCATCGGTAATTAAC
189 GTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
* * ** * * ** *
18799495 CATATCTGATGCTCGTCTGAGCTTAACAGATCCATTTGTGTCAAGTTACCCATCCGGGCTAAACC
1 CACATCTGATGCTCATCCAAGCTGAACATAT--ATTTGTGTCAAGTTACCTGT-CAGGCTAAACC
18799560 TTTTATCGACACAT-AAATA-TCTTGGCCAAAGCTATAAATATATATGTCAA-GTTACCTG-TCT
63 TTTTATCGACACATCAAATAGT-TTGG-CAAAGCTAT--ATATATATGT-AAGGTTACCTGTTC-
* * *
18799621 GAGCTAAACCTTTAAAACAATATCAAGTTACTTGTTCGAGCTAAACCTGTATCACATGTATCTTC
122 GGGCTAAACCTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTC
*
18799686 GAGTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
187 AAGTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
* * ** *
18799731 CACATTTGTTGCTCATCCAAGCTGAACATATATTCATGTCAGGTTACCTGTACAGGCTAAACCTT
1 CACATCTGATGCTCATCCAAGCTGAACATATATTTGTGTCAAGTTACCTGT-CAGGCTAAACCTT
* ** * *
18799796 TATATCGACACATCAAATAGTTTGTCTACGGCTATATATACATGTAAGGTTACCCGTTCGGGCTA
65 T-TATCGACACATCAAATAGTTTGGC-AAAGCTATATATATATGTAAGGTTACCTGTTCGGGCTA
* * *
18799861 AACCTTTAAAACAAGATCAAGTTACTTGTCCGAGCTAAACCTATGTCACATGTATCTTC
128 AACCTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTC
18799920 TAGCCAAAAA
Statistics
Matches: 351, Mismatches: 58, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
233 2 0.01
234 107 0.30
235 19 0.05
236 157 0.45
237 63 0.18
238 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (231 bp):
CACATCTGATGCTCATCCAAGCTGAACATATATTTGTGTCAAGTTACCTGTCAGGCTAAACCTTT
TATCGACACATCAAATAGTTTGGCAAAGCTATATATATATGTAAGGTTACCTGTTCGGGCTAAAC
CTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTCAAGTCTGCA
AAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
Found at i:18801461 original size:22 final size:22
Alignment explanation
Indices: 18801418--18801461 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18801408 CTTTAAACAA
*
18801418 AAATAATAATATCTATATAATT
1 AAATAATAATATCAATATAATT
*
18801440 AAATAATATTAT-AATATGAATT
1 AAATAATAATATCAATAT-AATT
18801462 TATTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATAATAATATCAATATAATT
Found at i:18802198 original size:145 final size:147
Alignment explanation
Indices: 18801900--18802239 Score: 402
Period size: 145 Copynumber: 2.3 Consensus size: 147
18801890 CATGTGTACG
* * * *
18801900 TAATTTTATGGTATATTATAATATATACAATCAACATTATATAATTAAGGTATATTATTAATGAT
1 TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATT-AGGTATATTATTAATGAT
** ** * ** *
18801965 ATATAACCCCATATACAACTATTTTTTTTATAATGTACATTTTTATGTTTTTGATTTGTAAACTT
65 ATATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAACTT
*
18802030 AAACTCTAAGCATATAAC
130 AAACTCTAAACATATAAC
* *
18802048 TAATTTTATGGTAGATTATAATA-ATATAATTAGCGTTATATAATTAGGTATATTATTAATGATC
1 TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTATATTATTAATGATA
* * * *
18802112 TCTAACCCTATATACAATTA-TGATACTATAATGTATATTTTTATATTAATGATATGT-AACTTT
66 TATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAAC-TT
* * *
18802175 ATAC-CTTAAACGTGTAAC
130 AAACTC-TAAACATATAAC
*
18802193 TAATTTTATGGTAGATCATAATATATATAATT-GACATTATATAATTA
1 TAATTTTATGGTAGATTATAATATATATAATTAG-CATTATATAATTA
18802240 TGGTTAAGTA
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
144 4 0.02
145 65 0.40
146 55 0.34
147 18 0.11
148 22 0.13
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (147 bp):
TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTATATTATTAATGATA
TATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAACTTA
AACTCTAAACATATAAC
Found at i:18802306 original size:24 final size:24
Alignment explanation
Indices: 18802279--18802342 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
18802269 TTATGGAACT
*
18802279 TTTAATTTATTTGAAATTCGTATG
1 TTTAATTTGTTTGAAATTCGTATG
* **
18802303 TTTAAATTGTTCTGAAATTTTTATG
1 TTTAATTTGTT-TGAAATTCGTATG
18802328 TTTAATTTGTTTGAA
1 TTTAATTTGTTTGAA
18802343 TTGTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTAATTTGTTTGAAATTCGTATG
Found at i:18807241 original size:25 final size:25
Alignment explanation
Indices: 18807207--18807273 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
18807197 TTTACATCAT
18807207 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
18807232 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
* *
18807257 TGTTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
18807274 GGTCGGAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAAATAGCC
Found at i:18821850 original size:2 final size:2
Alignment explanation
Indices: 18821845--18821870 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18821835 GCCAATAAAC
18821845 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
18821871 TATGCGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.