Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001405.1 Hibiscus syriacus cultivar Beakdansim tig00002742_pilon, whole genome shotgun sequence
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: 116388
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:16055 original size:156 final size:152
Alignment explanation
Indices: 15837--16139 Score: 464
Period size: 156 Copynumber: 2.0 Consensus size: 152
15827 AGTCCATTTA
* *
15837 TTTTTACCAAATTTGAATAACATGCTTCTAAACCATAGTAGAATATATGTGTACTTTCAATTCCT
1 TTTTTACCAAATTTGAATAACATGCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCT
* * * *
15902 CTTTTTGATAATAATTTTTTATTTTTCAATTTAGTCCTTT-AATTTTTCATAATCTCCTTATTTC
66 CTTTTTGATAACAA--TTGT-TTTTTCAATTTAGT-CTTTCAA-TTTTCATAATCTCCATATTCC
15966 TTCAATTCATCATTTATTTTAAGTATG
126 TTCAATTCATCATTTATTTTAAGTATG
* *
15993 TTTTTACCAAATTTGAGTCACATGCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCT
1 TTTTTACCAAATTTGAATAACATGCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCT
16058 CTTTTTGATAACAATTGTTTTTTCAATTTAGTCTTTCAATTTTCATAATCTCCATATTCCTTCAA
66 CTTTTTGATAACAATTGTTTTTTCAATTTAGTCTTTCAATTTTCATAATCTCCATATTCCTTCAA
**
16123 TTTGTCATTTATTTTAA
131 TTCATCATTTATTTTAA
16140 ATTCGATTTT
Statistics
Matches: 136, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
152 43 0.32
153 16 0.12
154 3 0.02
156 74 0.54
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (152 bp):
TTTTTACCAAATTTGAATAACATGCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATTCCT
CTTTTTGATAACAATTGTTTTTTCAATTTAGTCTTTCAATTTTCATAATCTCCATATTCCTTCAA
TTCATCATTTATTTTAAGTATG
Found at i:17203 original size:15 final size:15
Alignment explanation
Indices: 17183--17221 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
17173 GAAATTCAAT
*
17183 AGTTTTTTAGTGTCA
1 AGTTTTTTAGAGTCA
17198 AGTTTTTTAGAGTCA
1 AGTTTTTTAGAGTCA
*
17213 AATTTTTTA
1 AGTTTTTTA
17222 ATGCTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (15 bp):
AGTTTTTTAGAGTCA
Found at i:18439 original size:29 final size:30
Alignment explanation
Indices: 18397--18459 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
18387 TCTCCTTAAT
*
18397 CCCTAATTTTTTTCATAAATCCACTTCAAC
1 CCCTAATTTATTTCATAAATCCACTTCAAC
18427 CCCTAA-TTATTTCATAAATCCACTTCAAC
1 CCCTAATTTATTTCATAAATCCACTTCAAC
18456 CCCT
1 CCCT
18460 CTTGGTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (30 bp):
CCCTAATTTATTTCATAAATCCACTTCAAC
Found at i:20180 original size:28 final size:27
Alignment explanation
Indices: 20119--20181 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
20109 TAGGCAACAA
*
20119 TACA-TTTCAACTTAAAAAGGGGGATT
1 TACACTTTCAAATTAAAAAGGGGGATT
* *
20145 TTCAACTTTCAAATTAACAAGGGGGAATT
1 TAC-ACTTTCAAATTAAAAAGGGGG-ATT
20174 TACACTTT
1 TACACTTT
20182 TAGTCCCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 1 0.03
28 22 0.73
29 5 0.17
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (27 bp):
TACACTTTCAAATTAAAAAGGGGGATT
Found at i:26160 original size:28 final size:25
Alignment explanation
Indices: 26129--26180 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
26119 ATTTCAAAAT
26129 TATAATTATGAGAAAAAAATAATTTATA
1 TATAATTAT-A-AAAAAAAT-ATTTATA
* *
26157 TATATTTATAAATAAAATATTTAT
1 TATAATTATAAAAAAAATATTTAT
26181 TTAGTTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 7 0.32
27 1 0.05
28 8 0.36
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
TATAATTATAAAAAAAATATTTATA
Found at i:26266 original size:22 final size:22
Alignment explanation
Indices: 26243--26286 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
26233 CTTCGATATT
26243 AATAAATATT-AATATATAATTTA
1 AATAAA-ATTAAAT-TATAATTTA
26266 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATTATAATTT
26287 TTTATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATAAAATTAAATTATAATTTA
Found at i:26716 original size:29 final size:29
Alignment explanation
Indices: 26676--26739 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
26666 GACTAAAATA
* *
26676 AAAATATATAAAATTAGAATA-TCAT-ATT
1 AAAATAAATAAAAATA-AATACTCATGATT
*
26704 AAAATAAATTAAAAATATATACTCATGATT
1 AAAATAAA-TAAAAATAAATACTCATGATT
26734 AAAATA
1 AAAATA
26740 TTATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 10 0.33
29 11 0.37
30 9 0.30
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATAAATAAAAATAAATACTCATGATT
Found at i:27811 original size:3 final size:3
Alignment explanation
Indices: 27805--27850 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
27795 TATTATTTTT
* * *
27805 TAA TAA TAA TAA TAA TATA TTA TAA TAA TTA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
27851 ATAAAAATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 36 0.95
4 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:28147 original size:123 final size:119
Alignment explanation
Indices: 28000--28285 Score: 323
Period size: 120 Copynumber: 2.4 Consensus size: 119
27990 TAAATTTTTC
* * *
28000 TCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGT-TGG-GGATGATGTTGACCTAT-TT
1 TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTTCC-TCTGGAGGATGATGCTAACATATCTT
* * * *
28062 CCTTCTGTGATAGAGTCAT-TCAAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTTTTCTT
64 -CTTCTATGATAAAATCATGT--AAAAGGTTGAACAAGCTCTTCTCATTATGAAC---TTC-T
* *
28124 TCTTTTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGTTGATGCTAATATATCTT
1 TCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCTCTGG--AGGATGATGCTAACATATCTT
* *
28188 CTTCTATGATAAAATTATGTAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCT
64 CTTCTATGATAAAATCATGTAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
*
28244 TCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGA
1 TCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCTCTGGA
28286 AAAGCTGATC
Statistics
Matches: 144, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
118 1 0.01
120 41 0.28
121 4 0.03
122 4 0.03
123 30 0.21
124 35 0.24
125 26 0.18
126 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (119 bp):
TCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCCTCTGGAGGATGATGCTAACATATCTTCT
TCTATGATAAAATCATGTAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCT
Found at i:28532 original size:113 final size:113
Alignment explanation
Indices: 28208--28725 Score: 622
Period size: 113 Copynumber: 4.6 Consensus size: 113
28198 AAAATTATGT
* *
28208 AAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * * * * *
28269 TATGAACTTTCTCTGGAAAAGCTGATCCA-TCAAGTGATGGATTTGAGC
66 TATGAACTCTAACTGGTAATGCTGATCCATTGAA-TGATGAATTTAAGC
* *
28317 AAAAGGTTGAACAAATTCTTCTCATTATGAA--T-TTCTT-CTTCTCCAGATGACGAGTTCTTCT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * ** *
28378 CATTATGAACTCTACCTGGCAATGTTAATCCATCAAATGATGAATTTAAAC
63 CATTATGAACTCTAACTGGTAATGCTGATCCATTGAATGATGAATTTAAGC
* * *
28429 AAAAGGTTGAAAAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
28494 TATGAACTCGAACTGGTAATGTTGATCCATTGAATGATGAATTCAAGG
66 TATGAACTCTAACTGGTAATGCTGATCCATTGAATGATGAATTTAAGC
* *
28542 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * *
28607 TATGAACTCTAACTGGTACTGCTGTTCCACTGAGTGATGAATTTAAGC
66 TATGAACTCTAACTGGTAATGCTGATCCATTGAATGATGAATTTAAGC
* * *
28655 AAAAAGTTGAACAAGTTTTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
28720 TATGAA
66 TATGAA
28726 GTTTCTCTGG
Statistics
Matches: 356, Mismatches: 44, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
109 43 0.12
112 76 0.21
113 221 0.62
114 1 0.00
115 5 0.01
116 10 0.03
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCTAACTGGTAATGCTGATCCATTGAATGATGAATTTAAGC
Found at i:28839 original size:19 final size:19
Alignment explanation
Indices: 28815--28880 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
28805 GTGAACTTTT
28815 TTCTTCTCATTCAGATGAG
1 TTCTTCTCATTCAGATGAG
*
28834 TTCTTCTCATT---ATGAAC
1 TTCTTCTCATTCAGATG-AG
28851 TTCTTCTTC-TTCAGATGAG
1 TTCTTC-TCATTCAGATGAG
28870 TTCTTCTCATT
1 TTCTTCTCATT
28881 ATGAACTTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 3 0.08
17 9 0.23
18 4 0.10
19 20 0.51
20 3 0.08
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (19 bp):
TTCTTCTCATTCAGATGAG
Found at i:28856 original size:17 final size:17
Alignment explanation
Indices: 28834--28890 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
28824 TTCAGATGAG
28834 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
28851 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
28870 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
28887 TTCT
1 TTCT
28891 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 15 0.47
18 6 0.19
19 11 0.34
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:28864 original size:36 final size:39
Alignment explanation
Indices: 28795--28890 Score: 144
Period size: 36 Copynumber: 2.5 Consensus size: 39
28785 TTGAATAAGC
* *
28795 TCTTCTCATTGTGAACTTTTTTCTTCTCATTCAGATGAGT
1 TCTTCTCATTATGAAC-TTCTTCTTCTCATTCAGATGAGT
28835 TCTTCTCATTATGAACTTCTTC-T-TC-TTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTCATTCAGATGAGT
28871 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
28891 CTGGAAAAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
36 31 0.57
37 2 0.04
38 1 0.02
39 5 0.09
40 15 0.28
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTCTTCTCATTCAGATGAGT
Found at i:28997 original size:19 final size:19
Alignment explanation
Indices: 28973--29035 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
28963 TGTGAACTTT
28973 TTCTTCTCCTTCAGATGAG
1 TTCTTCTCCTTCAGATGAG
* *
28992 TTCTTCTCATT---ATGAAC
1 TTCTTCTCCTTCAGATG-AG
*
29009 TTCTTCTTCTTCAGATGAG
1 TTCTTCTCCTTCAGATGAG
29028 TTCTTCTC
1 TTCTTCTC
29036 ATTATGAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.09
17 10 0.29
19 18 0.53
20 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.11, T:0.48
Consensus pattern (19 bp):
TTCTTCTCCTTCAGATGAG
Found at i:29014 original size:17 final size:17
Alignment explanation
Indices: 28992--29048 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
28982 TTCAGATGAG
28992 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
29009 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
29028 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
29045 TTCT
1 TTCT
29049 CTGGAAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
17 15 0.47
18 6 0.19
19 11 0.34
ACGTcount: A:0.19, C:0.23, G:0.09, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:29021 original size:36 final size:36
Alignment explanation
Indices: 28954--29048 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
28944 TTGAATAAGC
*
28954 TCTTCTCATTGTGAACTTTTTCTTCTCCTTCAGATGAGT
1 TCTTCTCATTATGAAC---TTCTTCTCCTTCAGATGAGT
*
28993 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTCCTTCAGATGAGT
29029 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
29049 CTGGAAAAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
36 39 0.72
39 15 0.28
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTCCTTCAGATGAGT
Found at i:29055 original size:158 final size:159
Alignment explanation
Indices: 28668--29062 Score: 693
Period size: 158 Copynumber: 2.5 Consensus size: 159
28658 AAGTTGAACA
* *
28668 AGTTTTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAGTTTCTC
1 AGTTCTTCTCATTATGAAC---TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTC
* *
28733 TGGAAAGGTTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAATAAGCTCT
61 TGGAAAAGCTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAATAAGCTCT
28798 TCTCATTGTGAACTTTTTTCTTCTCATTCAGATG
126 TCTCATTGTGAACTTTTTTCTTCTCATTCAGATG
28832 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
28897 AAGCTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCA
66 AAGCTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCA
*
28962 TTGTGAAC-TTTTTCTTCTCCTTCAGATG
131 TTGTGAACTTTTTTCTTCTCATTCAGATG
28990 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
29055 AAGCTGAT
66 AAGCTGAT
29063 CCATCAAGTG
Statistics
Matches: 226, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
158 92 0.41
159 81 0.36
160 30 0.13
161 5 0.02
164 18 0.08
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (159 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAA
AAGCTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGTTGAATAAGCTCTTCTCA
TTGTGAACTTTTTTCTTCTCATTCAGATG
Found at i:29300 original size:112 final size:112
Alignment explanation
Indices: 28992--29424 Score: 518
Period size: 112 Copynumber: 3.8 Consensus size: 112
28982 TTCAGATGAG
*
28992 TTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTC-TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCAACTG
* * * * *
29052 GAAAAGCTGATCCATCAAGTGATGGATTTGAGTAAAAAGTTGAACAAA
65 GAAATGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
* *
29100 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTC-AA
* * * * * *
29165 CTGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAAAAAA
62 CTGGAAATGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
* * *
29216 TTCTTCTCATTATGAACTTC-TCTCCCTTCGTCAGATGAGTTCTTCTTATTATGAACTCAAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-AACTG
*
29280 GTAATGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
65 GAAATGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
* * * ***
29328 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTTATTATGAACTTTTTTCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC--TCAACT
* *
29393 GGAAAAGCTGATCCATCAAATGATGGATTTGA
64 GGAAATGTTGATCCATCAAATGATGGATTTGA
29425 ATCTTTGCTA
Statistics
Matches: 279, Mismatches: 34, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
108 16 0.06
111 6 0.02
112 97 0.35
113 33 0.12
114 33 0.12
115 35 0.13
116 59 0.21
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACTGG
AAATGTTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:30266 original size:115 final size:114
Alignment explanation
Indices: 30104--30333 Score: 397
Period size: 115 Copynumber: 2.0 Consensus size: 114
30094 GATCATGCAG
* * * * *
30104 TTCATCTTTTAATTCCAATGATTGGTTCTGTGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
30169 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
*
30218 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGG-TTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
30283 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
65 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
30333 T
1 T
30334 GGCACTTGTT
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
114 23 0.21
115 86 0.79
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:31341 original size:1 final size:1
Alignment explanation
Indices: 31330--31436 Score: 79
Period size: 1 Copynumber: 107.0 Consensus size: 1
31320 CTTGACACCC
* * * * * * * * *
31330 TTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTTTCTTTTCTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
31395 TTCTTTTTTCTTTCTTTTTTTCTTTTTGTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31437 CTTCAAGCAT
Statistics
Matches: 76, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.00, C:0.13, G:0.01, T:0.86
Consensus pattern (1 bp):
T
Found at i:31341 original size:7 final size:7
Alignment explanation
Indices: 31329--31439 Score: 138
Period size: 7 Copynumber: 15.4 Consensus size: 7
31319 TCTTGACACC
31329 CTTTTTT
1 CTTTTTT
31336 CTTTTTT
1 CTTTTTT
31343 CTTTTTT
1 CTTTTTT
31350 CTTTTTT
1 CTTTTTT
31357 CTTTTTT
1 CTTTTTT
31364 CTTTTTT
1 CTTTTTT
31371 CTTTTTT
1 CTTTTTT
31378 CTTTTTT
1 CTTTTTT
31385 -TTCTTTT
1 CTT-TTTT
31392 CTTTTCTT
1 CTTTT-TT
*
31400 TTTTCTTT
1 CTTT-TTT
31408 CTTTTTTT
1 C-TTTTTT
31416 CTTTTTGT
1 CTTTTT-T
31424 -TTTCTTT
1 CTTT-TTT
31431 -TTTTTT
1 CTTTTTT
31437 CTT
1 CTT
31440 CAAGCATAAT
Statistics
Matches: 94, Mismatches: 2, Indels: 16
0.84 0.02 0.14
Matches are distributed among these distances:
6 5 0.05
7 69 0.73
8 16 0.17
9 4 0.04
ACGTcount: A:0.00, C:0.14, G:0.01, T:0.85
Consensus pattern (7 bp):
CTTTTTT
Found at i:38766 original size:15 final size:15
Alignment explanation
Indices: 38743--38774 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38733 TGAAATGAAT
38743 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
38758 AATGTATGTATGCAA
1 AATGAATGTATGCAA
38773 AA
1 AA
38775 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:42734 original size:23 final size:22
Alignment explanation
Indices: 42710--42754 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
42700 CTTCGATATT
42710 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
42734 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
42755 TTTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:44281 original size:3 final size:3
Alignment explanation
Indices: 44275--44340 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
44265 ATTATTTTTT
* * *
44275 TAA TAA TAA TAA TAA T-A TATA TTA TAA TAA TTA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
44320 TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
44341 ATAAAACTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:49466 original size:60 final size:60
Alignment explanation
Indices: 49340--49470 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
49330 TTATAACTTT
* * * * *
49340 CATTT-TAAATTAGTCTTTAAACTTTAAAATATTCCAACTTTATTCCTATACTATGACTC
1 CATTTCTAAATTAGTCCTTAAACTTGAAAACATTCCAACTTTATCCCTAAACTATGACTC
** * *
49399 CCCTTCTAAATTAGTCCTTAAACTTGATAACATTCTAA-TTTCATCCCTAAACTATGAC-C
1 CATTTCTAAATTAGTCCTTAAACTTGAAAACATTCCAACTTT-ATCCCTAAACTATGACTC
49458 CTATTTCTAAATT
1 C-ATTTCTAAATT
49471 GGTACCAAAC
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
59 8 0.14
60 50 0.86
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (60 bp):
CATTTCTAAATTAGTCCTTAAACTTGAAAACATTCCAACTTTATCCCTAAACTATGACTC
Found at i:51282 original size:2 final size:2
Alignment explanation
Indices: 51275--51338 Score: 121
Period size: 2 Copynumber: 32.5 Consensus size: 2
51265 CGAAATTGAC
51275 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
51317 AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
51339 GTTAAACCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51537 original size:20 final size:20
Alignment explanation
Indices: 51493--51938 Score: 435
Period size: 20 Copynumber: 22.2 Consensus size: 20
51483 AATGACCAAC
*
51493 AAAATCGCAACGCGA--AATA
1 AAAATCGCAACGCGATTAA-G
*
51512 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTAAG
* *
51532 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTAAG
*
51552 -AAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TAAG
***
51571 AAAATCGCAACGCGATATTCC
1 AAAATCGCAACGCGAT-TAAG
*
51592 AAGAATCGCAATGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
* ***
51613 AGAATCGCAACGCGATCTTCC
1 AAAATCGCAACGCGAT-TAAG
51634 AAGAATCGCAACGCGATTAAG
1 AA-AATCGCAACGCGATTAAG
51655 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
*
51677 --AATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTAAG
51695 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
*
51717 --AATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTAAG
51735 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
51755 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
51777 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
51795 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
51817 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
51835 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
51857 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTAAG
51875 AAAATCGCAACGCGATTCCAAG
1 AAAATCGCAACGCGATT--AAG
51897 --AATCGCAACGCGA-TAAG
1 AAAATCGCAACGCGATTAAG
*
51914 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTAAG
51934 AAAAT
1 AAAAT
51939 GAGTAATTCT
Statistics
Matches: 363, Mismatches: 27, Indels: 73
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.01
18 13 0.04
19 44 0.12
20 243 0.67
21 14 0.04
22 45 0.12
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGATTAAG
Found at i:52042 original size:6 final size:6
Alignment explanation
Indices: 52031--52069 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
52021 GACACGTATT
52031 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
52070 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.51, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:52579 original size:6 final size:6
Alignment explanation
Indices: 52568--52648 Score: 162
Period size: 6 Copynumber: 13.5 Consensus size: 6
52558 TCTCGTCTCG
52568 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
52616 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
52649 AATACGTGTC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:52776 original size:20 final size:20
Alignment explanation
Indices: 52744--52818 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
52734 GAATTTACTC
*
52744 ATTTTCTGAATCGCGTTGCG
1 ATTTTCGGAATCGCGTTGCG
52764 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCGGAATCGCGTTGCG
*
52784 ATTTTCTGAATCGCGTTGCG
1 ATTTTCGGAATCGCGTTGCG
*
52804 ATTTTCTGAATCGCG
1 ATTTTCGGAATCGCG
52819 AATATCGCGT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.04
20 47 0.92
21 2 0.04
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
ATTTTCGGAATCGCGTTGCG
Found at i:52889 original size:20 final size:19
Alignment explanation
Indices: 52866--52916 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
52856 TTCTTTTCAA
52866 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTT-TAAATCG
**
52886 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTTAAATCG
52905 CGTTGCGATTTT
1 CGTTGCGATTTT
52917 GTTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.47
Consensus pattern (19 bp):
CGTTGCGATTTTTAAATCG
Found at i:52907 original size:19 final size:19
Alignment explanation
Indices: 52823--52916 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
52813 ATCGCGAATA
52823 TCGCGTTGCGATTTTCTTT
1 TCGCGTTGCGATTTTCTTT
52842 T-GACCGTTGCGATTTTCTTT
1 TCG--CGTTGCGATTTTCTTT
* **
52862 TCAACGTTGCGATTTTCTAAA
1 TC-GCGTTGCGATTTTCT-TT
52883 TCGCGTTGCGATTTT-TATT
1 TCGCGTTGCGATTTTCT-TT
52902 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
52917 GTTGGTCATT
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 18 0.28
20 43 0.67
21 2 0.03
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCTTT
Found at i:53128 original size:27 final size:27
Alignment explanation
Indices: 53094--53145 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
53084 CTAAACTAAA
*
53094 GACTAAATTTTAAATTTTAAAAGATTG
1 GACTAAATTATAAATTTTAAAAGATTG
*
53121 GACTAAATTATAGATTTTAAAAGAT
1 GACTAAATTATAAATTTTAAAAGAT
53146 AGGAGGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (27 bp):
GACTAAATTATAAATTTTAAAAGATTG
Found at i:65569 original size:3 final size:3
Alignment explanation
Indices: 65561--65623 Score: 60
Period size: 3 Copynumber: 21.3 Consensus size: 3
65551 TAAAATTATT
*
65561 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TATT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA
**
65605 TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
65624 TTAAGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 6 0.12
3 38 0.78
4 5 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:65998 original size:75 final size:76
Alignment explanation
Indices: 65796--66835 Score: 1736
Period size: 75 Copynumber: 13.9 Consensus size: 76
65786 TGCACTGAAG
* * * * *
65796 GGCTTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGAACCATCATGCACTGTAGCACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
65861 GATGACCCTAA
66 GATGACCCTAA
* *
65872 GGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
65937 GATGACCCTAA
66 GATGACCCTAA
*
65948 GGCTTT-AAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66012 GATGACCCTAA
66 GATGACCCTAA
66023 GGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66087 GATGACCCTAA
66 GATGACCCTAA
*
66098 GGCTTT-AAAACATCAAAAAGCTCCCGAAGTCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
66162 GATGACCCGAA
66 GATGACCCTAA
* *
66173 GGCTTTGAAAACATGAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
66238 GATGACCCGAA
66 GATGACCCTAA
*
66249 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
* *
66314 GATGACACGAA
66 GATGACCCTAA
*
66325 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTTAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66390 GATGACCCTAA
66 GATGACCCTAA
** *
66401 GGCTTT-AAAACATCAAAAAGCTCCTAAAGGCTTTTTGGAAACATCATGTACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66465 GATGACCCTAA
66 GATGACCCTAA
66476 GGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66540 GATGACCCTAA
66 GATGACCCTAA
66551 GGCTTT-AAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
66615 GATGACCCGAA
66 GATGACCCTAA
* *
66626 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGGCTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
66691 GATGACCCGAA
66 GATGACCCTAA
66702 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66767 GATG----T--
66 GATGACCCTAA
*
66772 GG----G-AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
66832 GATG
66 GATG
66836 TGGGAAATAG
Statistics
Matches: 930, Mismatches: 32, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
65 60 0.06
66 1 0.00
70 2 0.00
75 436 0.47
76 431 0.46
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
GATGACCCTAA
Found at i:66647 original size:453 final size:452
Alignment explanation
Indices: 65796--66835 Score: 1841
Period size: 453 Copynumber: 2.3 Consensus size: 452
65786 TGCACTGAAG
* * * * *
65796 GGCTTTGAAAACATCAAAAAGATCCTGAAGGCTTTTTGGAACCATCATGCACTGTAGCACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
65861 GATGACCCTAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTG
66 GATGA-CCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACT-
65926 T-AGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
129 TAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAAC
65990 ATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCT
194 ATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCT
66055 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCT
259 TTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCT
*
66120 CCCGAAGTCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
324 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* *
66185 ATGAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
389 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAA
*
66249 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
*
66314 GATGACACGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTT
66 GATGAC-CGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTT
*
66379 AAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCTAAAGGCTTTTTGGAAACA
130 AAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACA
*
66444 TCATGTACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTT
195 TCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTT
66509 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTC
260 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTC
66574 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
325 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
66639 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAA
390 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAA
66702 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
1 GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
* *
66767 GAT----G-TGG----G-AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGA
66 GATGACCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTTA
66822 AGGACTTACAGATG
131 AGGACTTACAGATG
66836 TGGGAAATAG
Statistics
Matches: 568, Mismatches: 17, Indels: 15
0.95 0.03 0.03
Matches are distributed among these distances:
442 59 0.10
443 1 0.00
447 2 0.00
448 1 0.00
452 2 0.00
453 503 0.89
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (452 bp):
GGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
GATGACCGAAGGCTTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTTA
AGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCAAAGGCTTTTTGGAAACAT
CATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCCCGAAGGCTTT
TTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTAAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTAAAGGGCTTACAGATGACCCGAA
Found at i:66814 original size:65 final size:65
Alignment explanation
Indices: 66710--66842 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
66700 AAGGCTTTGA
*
66710 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
1 AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
66775 AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
1 AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
66840 AAA
1 AAA
66843 TAGTTTACTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (65 bp):
AAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGTGGG
Found at i:67962 original size:54 final size:55
Alignment explanation
Indices: 67880--67986 Score: 171
Period size: 54 Copynumber: 1.9 Consensus size: 55
67870 TCAGAATAGC
** *
67880 ATGTTCGTAAAACATTTGACGGCGCATTCATCCTTTCC-TGTGGCTTCTGCTCAG
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCGTGTGGCTTCTGCTCAG
67934 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGTGGCTTCTGCT
1 ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCC-GTGTGGCTTCTGCT
67987 GGGATTGATG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
54 35 0.73
56 13 0.27
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (55 bp):
ATGTTCGTAAAACATTTGACAACACATTCATCCTTTCCGTGTGGCTTCTGCTCAG
Found at i:70214 original size:113 final size:113
Alignment explanation
Indices: 70055--70303 Score: 383
Period size: 113 Copynumber: 2.2 Consensus size: 113
70045 GATCATGCAG
* * *
70055 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTTCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAA-TCCAATGATTGGTTCTGGGGTTTATACCAAACCAGATCAGATAACTCAAAAA
* * *
70120 ACACTTCCAGAAAATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
65 ACACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
* *
70169 TTCATCTTTTAA-CCAATGATTGGTTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAAA
1 TTCATCTTTCAATCCAATGATTGG-TTCTGGGGTTTATACCAAACCAGATCAGATAACTCAAAAA
*
70233 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
65 ACACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
70282 TTCATCTTTCAAATCCAATGAT
1 TTCATCTTTC-AATCCAATGAT
70304 CAGATCAGAT
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
112 11 0.09
113 90 0.74
114 13 0.11
115 8 0.07
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (113 bp):
TTCATCTTTCAATCCAATGATTGGTTCTGGGGTTTATACCAAACCAGATCAGATAACTCAAAAAA
CACTTCCAGAAAATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
Found at i:70418 original size:93 final size:93
Alignment explanation
Indices: 70304--70622 Score: 575
Period size: 93 Copynumber: 3.4 Consensus size: 93
70294 ATCCAATGAT
* *
70304 CAGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTCCAAATTCAA
70369 TGATTGATTCTGTGGTTTCATACCAAAC
66 TGATTGATTCTGTGGTTTCATACCAAAC
* *
70397 CAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTCCAAATTCAA
*
70462 TGATTGGTTCTGTGGTTTCATACCAAAC
66 TGATTGATTCTGTGGTTTCATACCAAAC
* *
70490 CAGATTAGATAACTCAAAGAACACTTCCAGAAGATACTATGACCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTCCAAATTCAA
70555 TGATTGATTCTGTGGTTTCATACCAAAC
66 TGATTGATTCTGTGGTTTCATACCAAAC
70583 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTAT
70623 TGGGTCTTCT
Statistics
Matches: 217, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 217 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (93 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAGCACATTCATCTTCCAAATTCAA
TGATTGATTCTGTGGTTTCATACCAAAC
Found at i:72754 original size:15 final size:16
Alignment explanation
Indices: 72730--72763 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
72720 CTTGATTCAA
72730 TTTTCCTTTTTC-TTC
1 TTTTCCTTTTTCTTTC
*
72745 TTTTCTTTTTTCTTTC
1 TTTTCCTTTTTCTTTC
72761 TTT
1 TTT
72764 GTTGGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCCTTTTTCTTTC
Found at i:79585 original size:3 final size:3
Alignment explanation
Indices: 79577--79645 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
79567 TAAAATTATT
*
79577 TAA TAA TAA T-A TAA T-A TATA TAA T-A TAA TAA TAA TATT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
**
79621 TAA TAA TAA TAA TTT TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
79646 TTAAGTAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.11
3 44 0.80
4 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:79605 original size:22 final size:24
Alignment explanation
Indices: 79577--79631 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
79567 TAAAATTATT
79577 TAATAATAATATAATATAT-ATAA
1 TAATAATAATATAATATATAATAA
*
79600 T-ATAAT-A-ATAATATTTAATAA
1 TAATAATAATATAATATATAATAA
79621 TAATAATAATA
1 TAATAATAATA
79632 ATTTTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 8 0.30
21 6 0.22
22 10 0.37
23 2 0.07
24 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAATAATAATATAATATATAATAA
Found at i:79610 original size:25 final size:22
Alignment explanation
Indices: 79577--79645 Score: 101
Period size: 21 Copynumber: 3.3 Consensus size: 22
79567 TAAAATTATT
*
79577 TAATAATAAT-ATAATATAT-A
1 TAATAATAATAATAATATTTAA
79597 TAAT-ATAATAATAATATTTAA
1 TAATAATAATAATAATATTTAA
79618 TAATAATAATAATAAT-TTTAA
1 TAATAATAATAATAATATTTAA
79639 TAATAAT
1 TAATAAT
79646 TTAAGTAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
21 17 0.38
22 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAATAATAATAATAATATTTAA
Found at i:87378 original size:21 final size:20
Alignment explanation
Indices: 87354--87399 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
87344 GAAAAATATT
87354 GATACTGAT-TGAAGTAGTATC
1 GATACTGATGTGAAG--GTATC
*
87375 GATACTGATGTGGAGGTATC
1 GATACTGATGTGAAGGTATC
87395 GATAC
1 GATAC
87400 CAAGAGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.30, C:0.11, G:0.28, T:0.30
Consensus pattern (20 bp):
GATACTGATGTGAAGGTATC
Found at i:87477 original size:18 final size:19
Alignment explanation
Indices: 87454--87506 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
87444 ATGCTAAAAT
87454 GGTATCGGTACTGAAGAG-
1 GGTATCGGTACTGAAGAGA
87472 GGTATCGGTACCATAGAAGAGA
1 GGTATCGGTA-C-T-GAAGAGA
*
87494 AGTATCGGTACTG
1 GGTATCGGTACTG
87507 TGGGTAGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.33
19 2 0.07
20 2 0.07
21 7 0.23
22 9 0.30
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.23
Consensus pattern (19 bp):
GGTATCGGTACTGAAGAGA
Found at i:88314 original size:23 final size:23
Alignment explanation
Indices: 88284--88378 Score: 102
Period size: 23 Copynumber: 4.1 Consensus size: 23
88274 GGTTCTACGC
*
88284 GGTCCTTCGGGACAAATTTATGT
1 GGTCCTTCGGGACAAATCTATGT
* * *
88307 GGTCCTTCGAGA-TAATCCTACGT
1 GGTCCTTCGGGACAAAT-CTATGT
* *
88330 TGTCCTTCGGGACAAATTCTATGC
1 GGTCCTTCGGGACAAA-TCTATGT
*
88354 AGTCCTTCGGGACAAATCTATGT
1 GGTCCTTCGGGACAAATCTATGT
88377 GG
1 GG
88379 CACTTAGGTT
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
22 3 0.05
23 32 0.56
24 21 0.37
25 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (23 bp):
GGTCCTTCGGGACAAATCTATGT
Found at i:94375 original size:21 final size:21
Alignment explanation
Indices: 94349--94398 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
94339 CCTCCAAATA
94349 GCCGGAAAACCGCCCGCCTTT
1 GCCGGAAAACCGCCCGCCTTT
94370 GCCGGAAAACCGCCCGCCTTT
1 GCCGGAAAACCGCCCGCCTTT
94391 GCCGGAAA
1 GCCGGAAA
94399 CAGCCAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.40, G:0.26, T:0.12
Consensus pattern (21 bp):
GCCGGAAAACCGCCCGCCTTT
Found at i:94716 original size:17 final size:18
Alignment explanation
Indices: 94696--94737 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
94686 TTTCATTTTA
**
94696 TAATTTATTTATGTT-AT
1 TAATTTATTTAAATTAAT
*
94713 TAATTTTTTTAAATTAAT
1 TAATTTATTTAAATTAAT
94731 TAATTTA
1 TAATTTA
94738 AACTCATATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TAATTTATTTAAATTAAT
Found at i:97888 original size:28 final size:28
Alignment explanation
Indices: 97835--97889 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
97825 ATTTATAATT
* * *
97835 GGATTGAATTATAATTTTACACTTTTAA
1 GGATTGAATAAAAATTATACACTTTTAA
97863 GGATTGAATAAAAATTATATCA-TTTTA
1 GGATTGAATAAAAATTATA-CACTTTTA
97890 GAGGGGCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (28 bp):
GGATTGAATAAAAATTATACACTTTTAA
Found at i:98156 original size:13 final size:13
Alignment explanation
Indices: 98138--98164 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
98128 ACTATAATTA
98138 ATTTAAAAATTTT
1 ATTTAAAAATTTT
98151 ATTTAAAAATTTT
1 ATTTAAAAATTTT
98164 A
1 A
98165 AATTCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTAAAAATTTT
Found at i:99870 original size:76 final size:76
Alignment explanation
Indices: 99731--99872 Score: 205
Period size: 76 Copynumber: 1.9 Consensus size: 76
99721 ATCACAAACC
* * * ****
99731 CTCTGTAATTTCTTCAACTTTCTGAAAATATTTGTTGGGTAAGTTTGAATCTTCTTCTTCTTCTT
1 CTCTGTAACTTCTCCAACTTTATGAAAATATTTGTTGGGTAAGTTTGAATCTTCTAAAACTTCTT
99796 CATGATGGAGT
66 CATGATGGAGT
99807 CTCTGTAACTTCTCCAACTTTATGAAAATATTTGTTGGGTAAG-TTGAATCTTCATAAAACTTCT
1 CTCTGTAACTTCTCCAACTTTATGAAAATATTTGTTGGGTAAGTTTGAATCTTC-TAAAACTTCT
99871 TC
65 TC
99873 TTCTTTTTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 10 0.17
76 48 0.83
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (76 bp):
CTCTGTAACTTCTCCAACTTTATGAAAATATTTGTTGGGTAAGTTTGAATCTTCTAAAACTTCTT
CATGATGGAGT
Found at i:99924 original size:85 final size:85
Alignment explanation
Indices: 99781--99936 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 85
99771 AAGTTTGAAT
* ** * * *
99781 CTTCTTCTTCTTCTTCATGATGGAGTCTCTGTAACTTCTCCAACTTTATGAAAATATTTGTTGGG
1 CTTCTTCTTCTTCTTCATAATGGACCCTATGTAACTTCTCCAACTTTATGAAAATATTTGTCGAG
99846 TAAGTTGAATCTTCATAAAA
66 TAAGTTGAATCTTCATAAAA
* * * *
99866 CTTCTTCTTCTTTTTCTTAATGGACCCTATGTAATTTCTCCAACTTTCTGAAAATATTTGTCGAG
1 CTTCTTCTTCTTCTTCATAATGGACCCTATGTAACTTCTCCAACTTTATGAAAATATTTGTCGAG
99931 TAAGTT
66 TAAGTT
99937 TGGGTCTTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (85 bp):
CTTCTTCTTCTTCTTCATAATGGACCCTATGTAACTTCTCCAACTTTATGAAAATATTTGTCGAG
TAAGTTGAATCTTCATAAAA
Found at i:102289 original size:27 final size:27
Alignment explanation
Indices: 102254--102316 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
102244 CGAACCCGAA
*
102254 CCGACCCGAATATCACACTTAAAAAAC
1 CCGACCCGAATATCACACGTAAAAAAC
*
102281 CCGACCCGAATATCACACGTAAAAAAT
1 CCGACCCGAATATCACACGTAAAAAAC
102308 CCGACCCGA
1 CCGACCCGA
102317 CTCGACCCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.41, C:0.35, G:0.11, T:0.13
Consensus pattern (27 bp):
CCGACCCGAATATCACACGTAAAAAAC
Found at i:102349 original size:36 final size:37
Alignment explanation
Indices: 102282--102353 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
102272 TTAAAAAACC
*
102282 CGACCCGAATATCACACGTAAAAAATCCGACCCGACT
1 CGACCCGAATATCACACGTAAAAAACCCGACCCGACT
*
102319 CGACCCGAATATCACAC-TTAAAAACCCGACCCGAC
1 CGACCCGAATATCACACGTAAAAAACCCGACCCGAC
102354 CCGAACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 16 0.48
37 17 0.52
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (37 bp):
CGACCCGAATATCACACGTAAAAAACCCGACCCGACT
Found at i:108495 original size:25 final size:24
Alignment explanation
Indices: 108458--108508 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
108448 ATATAAATCG
*
108458 TAAATTTTGA-TTTATTTTAATATT
1 TAAATTTTAATTTTATTTTAA-ATT
*
108482 TAAACTTTTAATTTTTTTTTAAATT
1 TAAA-TTTTAATTTTATTTTAAATT
108507 TA
1 TA
108509 GTGTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 10 0.43
26 9 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TAAATTTTAATTTTATTTTAAATT
Done.