Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004467.1 Hibiscus syriacus cultivar Beakdansim tig00009846_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: 130068
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:733 original size:27 final size:26
Alignment explanation
Indices: 697--758 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
687 TTTTCATTAC
697 ATTTGCATTTTT-TATGTTTGCATTTGT
1 ATTTGCATTTTTATAT-TTT-CATTTGT
* *
724 ATTTGTATTTTTATATTTTCATTTTAT
1 ATTTGCATTTTTATATTTTCA-TTTGT
751 ATTTGCAT
1 ATTTGCAT
759 CTTTGCATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.83
28 3 0.10
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (26 bp):
ATTTGCATTTTTATATTTTCATTTGT
Found at i:5992 original size:21 final size:22
Alignment explanation
Indices: 5963--6019 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
5953 TACATCTACA
5963 CTCTTCAAAGATGATAGATT-T
1 CTCTTCAAAGATGATAGATTCT
* *
5984 TTTTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
6006 CTCTTCAAAGATGA
1 CTCTTCAAAGATGA
6020 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:6815 original size:29 final size:29
Alignment explanation
Indices: 6758--6837 Score: 133
Period size: 29 Copynumber: 2.7 Consensus size: 29
6748 CTTCAGTGCA
*
6758 TGATGTTTTCAAAAATCCTTCGGGAGCTTTT
1 TGATGTTTTC--AAAGCCTTCGGGAGCTTTT
6789 TGATGTTTTCAAAGCCTTCGGGAGCTTTT
1 TGATGTTTTCAAAGCCTTCGGGAGCTTTT
6818 TGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCG
6838 ATTCATCTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 38 0.79
31 10 0.21
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.41
Consensus pattern (29 bp):
TGATGTTTTCAAAGCCTTCGGGAGCTTTT
Found at i:6889 original size:45 final size:45
Alignment explanation
Indices: 6818--6921 Score: 127
Period size: 45 Copynumber: 2.3 Consensus size: 45
6808 GGGAGCTTTT
* * ** *
6818 TGATGTTTTCAAAGCCTTCGATTCATCTGTAAGTCCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCA
* * *
6863 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTAGAGTGCA
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCA
*
6908 GGATGTTTTCAAAA
1 TGATGTTTTCAAAA
6922 AGCCTTCGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCA
Found at i:6989 original size:76 final size:74
Alignment explanation
Indices: 6863--7004 Score: 194
Period size: 76 Copynumber: 1.9 Consensus size: 74
6853 CTACAGTGCA
* * * *
6863 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTAGAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGAGTAATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAA-CCTT
6928 CGGGAGCTTTT
64 CGGGAGCTTTT
* ** *
6939 TGATGTTTTCAAAGCCTTCGAGTAATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGAGTAATCCATAAGACCTACAGTGCAGGATGTTTTCAAAACCTTCG
7004 G
66 G
7005 TCATCCACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 7 0.12
75 4 0.07
76 47 0.81
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCGAGTAATCCATAAGACCTACAGTGCAGGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:7046 original size:44 final size:44
Alignment explanation
Indices: 6939--7048 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
6929 GGGAGCTTTT
***
6939 TGATGTTTTC-AAAGCCTTCGAGTAATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAAGCCTTCG-GTAATCCACAAGACCTA-AGTGCA
*
6984 TGATGTTTTCAAAA-CCTTCGGTCATCCACAAGACCT-AGTGCA
1 TGATGTTTTCAAAAGCCTTCGGTAATCCACAAGACCTAAGTGCA
7026 TGATGTTTTCAAAAAGCCTTCGG
1 TGATGTTTTC-AAAAGCCTTCGG
7049 GAGCTTTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
42 16 0.28
43 4 0.07
44 19 0.33
45 16 0.28
46 3 0.05
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
TGATGTTTTCAAAAGCCTTCGGTAATCCACAAGACCTAAGTGCA
Found at i:7153 original size:44 final size:47
Alignment explanation
Indices: 7065--7167 Score: 131
Period size: 44 Copynumber: 2.3 Consensus size: 47
7055 TTTGATATTT
** * * * *
7065 AAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGTATGATTTTTTC-A
1 AAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTTCAA
7111 AAA-CCTTCGGGTCA-CCATAAGACCTACAGTGCAGGATATTTTCAA
1 AAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTTCAA
7156 AAAGCCTTCGGG
1 AAAGCCTTCGGG
7168 AGCTTTTTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 23 0.47
45 15 0.31
46 11 0.22
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAGCCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTTCAA
Found at i:7245 original size:44 final size:43
Alignment explanation
Indices: 7177--7305 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 43
7167 GAGCTTTTTG
* * * *
7177 ATGTTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 ATGTATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGC
*
7220 ATGATATTTCAAAACCTTTGGGTCATCTGTAAGACCTACA--GC
1 ATG-TATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGC
* * **
7262 ATGTGTTTCAAAACATTCGGGTCATCCATAAGACCTACAGTGC
1 ATGTATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGC
7305 A
1 A
7306 GGATGTTTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 31 0.42
42 5 0.07
43 6 0.08
44 31 0.42
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
ATGTATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGC
Found at i:7253 original size:121 final size:121
Alignment explanation
Indices: 6790--7260 Score: 699
Period size: 121 Copynumber: 4.0 Consensus size: 121
6780 GGAGCTTTTT
*
6790 GATGTTTTC--AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGATTCATCTGTAAGTC
1 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGTC
*
6853 CTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTAGAGTGCAG
66 CTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGCAG
* *
6909 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTAATCTGTAAGAC
1 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGTC
* * *
6974 CTACAGTGCATGATGTTTTCAAAACC-TTCGGTCATCCACAAGACCT--AGTGCAT
66 CTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGCAG
* *
7027 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT-AAAGCCTTCGGGTCATCTGTAAGTC
1 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGTC
* * *
7090 CTACAGTGTATGATTTTTTCAAAACCTTCGGGTCA-CCATAAGACCTACAGTGCAG
66 CTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGCAG
* * *
7145 GATATTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTCAAAGCCTTCGGGTCATCTGTAAGC
1 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCAAAGCCTTCGAGTCATCTGTAAGT
* * **
7210 CCTTCAGTGCATGAT-ATTTCAAAACCTTTGGGTCATCTGTAAGACCTACAG
65 CCTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAG
7261 CATGTGTTTC
Statistics
Matches: 318, Mismatches: 25, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
116 56 0.18
117 9 0.03
118 79 0.25
119 9 0.03
120 39 0.12
121 126 0.40
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (121 bp):
GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTCATCTGTAAGTC
CTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGCAG
Found at i:7256 original size:237 final size:239
Alignment explanation
Indices: 6789--7274 Score: 727
Period size: 237 Copynumber: 2.1 Consensus size: 239
6779 GGGAGCTTTT
* *
6789 TGATGTTTTC--AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGATTCATCTGTAAGT
1 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGATTTCAAAGCCTTCGAGTCATCTGTAAGT
* * *
6852 CCTACAGTGCATGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTAGAGTGCAGGATGTTTT
66 CCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTT
6917 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTAATCTGTAAGACCTACAGTG
131 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTAATCTGTAAGACCTACAGTG
* **
6982 CATGATGTTTTCAAAACCTTCGGTCATCCACAAGACCTAGTGCA
196 CATGATGATTTCAAAACCTTCGGTCATCCACAAGACCTACAGCA
*
7026 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGAT-ATTT-AAAGCCTTCGGGTCATCTGTAAGT
1 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGATTTCAAAGCCTTCGAGTCATCTGTAAGT
* *
7089 CCTACAGTGTATGATTTTTTCAAAACCTTCGGGTCA-CCATAAGACCTACAGTGCAGGATATTTT
66 CCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTT
* * * *
7153 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGT
131 CAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCAAAGCCTTCGAGTAATCTGTAAGACCTACAGT
* ***
7218 GCATGAT-ATTTCAAAACCTTTGGGTCATCTGTAAGACCTACAGCA
195 GCATGATGATTTCAAAACC-TTCGGTCATCCACAAGACCTACAGCA
7263 TG-TG-TTTCAAAA
1 TGATGTTTTCAAAA
7275 CATTCGGGTC
Statistics
Matches: 226, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
235 8 0.04
236 65 0.29
237 127 0.56
238 3 0.01
239 23 0.10
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (239 bp):
TGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGATTTCAAAGCCTTCGAGTCATCTGTAAGT
CCTACAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATATTTT
CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGAGTAATCTGTAAGACCTACAGTG
CATGATGATTTCAAAACCTTCGGTCATCCACAAGACCTACAGCA
Found at i:7303 original size:162 final size:160
Alignment explanation
Indices: 7057--7438 Score: 518
Period size: 162 Copynumber: 2.4 Consensus size: 160
7047 GGGAGCTTTT
* * * * *
7057 TGATATTT-AAAGCCTTCGGGTCATCTGTAAGTCCTACAGTGTATGATTTTTTCAAAACCTTCGG
1 TGATATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAG-GCATGA-TGTTTCAAAACATTCGG
*
7121 GTCACCATAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTC
64 GTCACCATAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTC
* *
7186 AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
127 -AAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
*
7221 TGATATTTCAAAACCTTTGGGTCATCTGTAAGACCTACA-GCATG-TGTTTCAAAACATTCGGGT
1 TGATATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGGCATGATGTTTCAAAACATTCGGGT
* * *
7284 CATCCATAAGACCTACAGTGCAGGATGTTTTCAGAAAGCCTTCGGGAGTTTTTTGATATTTCAAG
66 CA-CCATAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTCAAG
*
7349 CCTTCGGGTCATCTGTTAGACCTACAGTGCA
130 CCTTCGGGTCATCTGTAAGACCTACAGTGCA
* **
7380 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAA
1 TGAT-ATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAG-GCATGATG-TTTCAAAA
7439 AGCCTTTGGG
Statistics
Matches: 194, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
159 35 0.18
160 36 0.19
161 19 0.10
162 55 0.28
163 6 0.03
164 16 0.08
165 27 0.14
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (160 bp):
TGATATTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGGCATGATGTTTCAAAACATTCGGGT
CACCATAAGACCTACAGTGCAGGATATTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTCAAGC
CTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:7405 original size:45 final size:45
Alignment explanation
Indices: 7349--7438 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
7339 ATATTTCAAG
** *
7349 CCTTCGGGTCATCTGTTAGACCTACAGTGCATGATGTTTTCAAAA
1 CCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAA
7394 CCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAA
1 CCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAA
7439 AGCCTTTGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CCTTCGGGTCATCCATAAGACCTACAGTGCATGATGTTTTCAAAA
Found at i:7450 original size:119 final size:119
Alignment explanation
Indices: 7221--8373 Score: 829
Period size: 119 Copynumber: 9.8 Consensus size: 119
7211 CTTCAGTGCA
* * *
7221 TGATATTTCAAAACCTTTGGGTCATCTGTAAGACCTACA--GCATG-TG-TTTCAAAACATTCGG
1 TGATATTTC-AAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
* *
7282 GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAGAAAGCCTTCGGGAGTTTTT
65 GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
*
7337 TGATATTTCAAGCCTTCGGGTCATCTGTTAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGG
1 TGATATTTCAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGG
* * *
7402 TCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTCTT
66 TCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
7456 TGATATTTAAAGCCTTCGGGTCATCTGTAAGTCCTACAATGCATGATGTTTTCAAAACCTTCGGG
1 TGATATTTCAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGG
* *
7521 TTATCCATAAGACCTACAGTGCAGGATGTTTTTCAAAAAGCCTACGGGAGC-TTT
66 TCATCCATAAGACCTACAGTGCAGGATG-TTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
7575 TGATGTTTCAAAGCCTTCTGGG-CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATATTTC-AAGCCTTC-GGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCG
** * * *
7639 GGTCATCTGTAAGTCTTACAGTGCATGATGTTTTC-AAAA-CCTTC--GAG----T
64 GGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
*** * * * * * * ***
7687 T-ATCCAT-AAGACCTAC-AGTGCAAAATATTTTCAAAAATCCTTCGGGAGCTTTTTGATGTTTT
1 TGATATTTCAAG-CCTTCGGGT-C---AT-CTGT--AAGA-CCTAC---AG-TGCATGATGTTTT
* ** * * * *
7749 CAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG-TCAT
53 CAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGC-T
* *
7811 CTG
117 TTT
* * * ** * * * * * *** * *
7814 TAAGACTT-ACAGTGTAT-GATGT--T-T-TCAAAACCTTC-G-G-GTCAT-CCAT-AAGACCTA
1 TGATATTTCA-AGCCT-TCG-GGTCATCTGT-AAGACCTACAGTGCATGATGTTTTCAAAACCTT
* * *** * * ** *** * * * **
7868 C-AGT-A--CATGATGTTTTCAAAGCCTTC-GG--GTCATCTGTAAGCCCTTC-AGTGCATGA
62 CGGGTCATCCAT-AAGACCT-ACAG--TGCAGGATGTTTTCAAAAAG-CCTTCGGGAGCTTTT
* * * * *
7923 TG-T-TTTCAAAACCTTCGGGTTATATGTAAGACATACAGTGCATGATATTTTCAAAACCTTCGG
1 TGATATTTC-AAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
*
7986 GTCATCCATAAGACCTACAGTGCAGGATGTTTTTAAAAAGCCTTCGGGAGCTTTT
65 GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
8041 TGATGTTTTAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTTGG
1 TGAT-ATTTCAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
*
8106 GTCATCCATAAGACCTACAGTGCAGGATGTTTTC-AAAAGTCTTCGGGAGCTTTT
65 GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * * *
8160 TGATATTTAAAGCCTCCAGGTCA----TAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCGGG
1 TGATATTTCAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGG
*
8221 TTATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
66 TCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
8275 TGATTTTTCAAAGCCTTCGGG---TCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGG
1 TGATATTTC-AAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGG
* * *
8337 GTCATCTATAAGACCTATAGTGCATGATGTTTTCAAA
65 GTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAA
8374 CCTTCGGGTC
Statistics
Matches: 821, Mismatches: 146, Indels: 139
0.74 0.13 0.13
Matches are distributed among these distances:
106 1 0.00
107 12 0.01
108 9 0.01
109 10 0.01
110 26 0.03
111 6 0.01
112 6 0.01
113 5 0.01
114 71 0.09
115 65 0.08
116 24 0.03
117 91 0.11
118 37 0.05
119 197 0.24
120 180 0.22
121 68 0.08
122 1 0.00
123 1 0.00
124 1 0.00
127 1 0.00
128 5 0.01
129 2 0.00
130 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (119 bp):
TGATATTTCAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAACCTTCGGG
TCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:7537 original size:45 final size:46
Alignment explanation
Indices: 7468--7558 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 46
7458 ATATTTAAAG
** * *
7468 CCTTCGGGTCATCTGTAAGTCCTACAATGCATGATG-TTTTCAAAA
1 CCTTCGGGTCATCCATAAGACCTACAATGCAGGATGTTTTTCAAAA
* *
7513 CCTTCGGGTTATCCATAAGACCTACAGTGCAGGATGTTTTTCAAAA
1 CCTTCGGGTCATCCATAAGACCTACAATGCAGGATGTTTTTCAAAA
7559 AGCCTACGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 30 0.77
46 9 0.23
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (46 bp):
CCTTCGGGTCATCCATAAGACCTACAATGCAGGATGTTTTTCAAAA
Found at i:7646 original size:45 final size:44
Alignment explanation
Indices: 7575--7683 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 44
7565 CGGGAGCTTT
*
7575 TGATG-TTTCAAAGCCTTCTGGGCATCTGTAAGTCCTT-CAGTGCA
1 TGATGTTTTCAAAACCTTC-GGGCATCTGTAAGT-CTTACAGTGCA
7619 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCTTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGG-CATCTGTAAGTCTTACAGTGCA
7664 TGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCG
7684 AGTTATCCAT
Statistics
Matches: 61, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
44 11 0.18
45 50 0.82
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (44 bp):
TGATGTTTTCAAAACCTTCGGGCATCTGTAAGTCTTACAGTGCA
Found at i:7666 original size:165 final size:166
Alignment explanation
Indices: 7468--7887 Score: 675
Period size: 166 Copynumber: 2.5 Consensus size: 166
7458 ATATTTAAAG
* *
7468 CCTTCGGGTCATCTGTAAGTCCTACAATGCATGATGTTTTCAAAACCTTCGGGTTATCCATAAGA
1 CCTTCGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGGGTTATCCATAAGA
*
7533 CCTACAGTGCAGGATGTTTTTCAAAAAGCCTACGGGAGC-TTTTGATG-TTTCAAAGCCTTCTGG
66 CCTACAGTGCAAGATG-TTTTCAAAAAGCCTACGGGAGCTTTTTGATGTTTTCAAAGCCTTC-GG
*
7596 G-CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAA
129 GTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
*
7633 CCTTCGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGAGTTATCCATAAGA
1 CCTTCGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGGGTTATCCATAAGA
* * * *
7698 CCTACAGTGCAAAATATTTTCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
66 CCTACAGTGCAAGATGTTTTCAAAAAGCCTACGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
7763 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
131 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
* * *
7799 CCTTCGGGTCATCTGTAAGACTTACAGTGTATGATGTTTTCAAAACCTTCGGGTCATCCATAAGA
1 CCTTCGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGGGTTATCCATAAGA
* *
7864 CCTACAGTACATGATGTTTTCAAA
66 CCTACAGTGCAAGATGTTTTCAAA
7888 GCCTTCGGGT
Statistics
Matches: 235, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
164 20 0.09
165 86 0.37
166 129 0.55
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (166 bp):
CCTTCGGGTCATCTGTAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGGGTTATCCATAAGA
CCTACAGTGCAAGATGTTTTCAAAAAGCCTACGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
Found at i:7704 original size:45 final size:45
Alignment explanation
Indices: 7603--7722 Score: 150
Period size: 45 Copynumber: 2.7 Consensus size: 45
7593 TGGGCATCTG
* * **
7603 TAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTG
1 TAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCA
* *
7648 TAAGTCTTACAGTGCATGATGTTTTCAAAACCTTCGAGTTATCCA
1 TAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCA
* ** *
7693 TAAGACCTACAGTGCAAAATATTTTCAAAA
1 TAAGTCCTACAGTGCATGATGTTTTCAAAA
7723 ATCCTTCGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (45 bp):
TAAGTCCTACAGTGCATGATGTTTTCAAAACCTTCGAGTCATCCA
Found at i:7793 original size:45 final size:45
Alignment explanation
Indices: 7740--8033 Score: 399
Period size: 45 Copynumber: 6.5 Consensus size: 45
7730 GGGAGCTTTT
* * *
7740 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
7785 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACTTACAGTGTA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
** *
7830 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTACA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* * *
7875 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* * *
7920 TGATGTTTTCAAAACCTTCGGGTTATATGTAAGACATACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* **
7965 TGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
* *
8010 GGATGTTTTTAAAAAGCCTTCGGG
1 TGATG-TTTTCAAAA-CCTTCGGG
8034 AGCTTTTTGA
Statistics
Matches: 216, Mismatches: 31, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 200 0.93
46 8 0.04
47 8 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCA
Found at i:7794 original size:76 final size:74
Alignment explanation
Indices: 7664--7806 Score: 178
Period size: 76 Copynumber: 1.9 Consensus size: 74
7654 TTACAGTGCA
*
7664 TGATGTTTTCAAAACCTTCGAGTTATCCATAAGACCTACAGTGCAAAATATTTTCAAAAATCCTT
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAAATATTTTC-AAAA-CCTT
7729 CGGGAGCTTTT
64 CGGGAGCTTTT
* * ** * * ** *
7740 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAAATATTTTCAAAACCTTCG
7805 GG
66 GG
7807 TCATCTGTAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 8 0.14
75 4 0.07
76 45 0.79
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCGAGTCATCCATAAGACCTACAGTGCAAAATATTTTCAAAACCTTCG
GGAGCTTTT
Found at i:7982 original size:135 final size:135
Alignment explanation
Indices: 7740--8033 Score: 498
Period size: 135 Copynumber: 2.2 Consensus size: 135
7730 GGGAGCTTTT
7740 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
* * * *
7805 GGTCATCTGTAAGACTTACAGTGTATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGTCATATGTAAGACATACAGTGCATGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
7870 GTACA
131 GTACA
7875 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
*
7940 GGTTATATGTAAGACATACAGTGCATGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
66 GGTCATATGTAAGACATACAGTGCATGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
*
8005 GTGCA
131 GTACA
* *
8010 GGATGTTTTTAAAAAGCCTTCGGG
1 TGATG-TTTT-CAAAGCCTTCGGG
8034 AGCTTTTTGA
Statistics
Matches: 149, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
135 133 0.89
136 4 0.03
137 12 0.08
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (135 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
GGTCATATGTAAGACATACAGTGCATGATATTTTCAAAACCTTCGGGTCATCCATAAGACCTACA
GTACA
Found at i:8118 original size:45 final size:45
Alignment explanation
Indices: 8041--8152 Score: 154
Period size: 45 Copynumber: 2.5 Consensus size: 45
8031 GGGAGCTTTT
* **
8041 TGATGTTTT-AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
8085 TGATGTTTTCAAAACCTTTGGGTCATCCATAAGACCTACAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
8130 GGATGTTTTCAAAAGTCTTCGGG
1 TGATGTTTTCAAAA-CCTTCGGG
8153 AGCTTTTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 9 0.15
45 44 0.75
46 6 0.10
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:8370 original size:45 final size:45
Alignment explanation
Indices: 8275--8416 Score: 172
Period size: 44 Copynumber: 3.3 Consensus size: 45
8265 GGGAGCTTTT
* * * *
8275 TGAT-TTTTCAAAGCCTTCGGGTC-T--GTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
* *
8316 TGATGTTTTCAAAACCTTCGGGTCATCTATAAGACCTATAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
*
8361 TGATGTTTTC-AAACCTTCGGGTCATCCATAAGACCTACAGTACA
1 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
8405 TG-T-TTTTCAAAA
1 TGATGTTTTCAAAA
8417 AGCATTCGGG
Statistics
Matches: 88, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.05
42 23 0.26
43 5 0.06
44 33 0.38
45 23 0.26
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCA
Found at i:8461 original size:32 final size:32
Alignment explanation
Indices: 8408--8478 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
8398 CAGTACATGT
* * *
8408 TTTTC-AAAAAGCATTCGGGAGCTTTTTGATA
1 TTTTCAAAAAAGCATCCAGGAGCTTTATGATA
* *
8439 TTTTCAAAAAAGCCTCCAGGAGCTTTATGATG
1 TTTTCAAAAAAGCATCCAGGAGCTTTATGATA
8471 TTTTCAAA
1 TTTTCAAA
8479 GCCTTCGGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 5 0.15
32 29 0.85
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (32 bp):
TTTTCAAAAAAGCATCCAGGAGCTTTATGATA
Found at i:8579 original size:45 final size:45
Alignment explanation
Indices: 8465--8632 Score: 223
Period size: 45 Copynumber: 3.8 Consensus size: 45
8455 CAGGAGCTTT
8465 ATGATGTTTTC-AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAAG-CTTCGGGTCATCTGTAAGCCCTTCAGTGC
* * * *
8510 ATG-TGTTTTCAAAACCTTCAGGTCATCTATAAGTCCTTCAGTGC
1 ATGATGTTTTCAAAAGCTTCGGGTCATCTGTAAGCCCTTCAGTGC
8554 ATGATGTTTTCAAAAGCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAAGCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* * * * * *
8599 ATGATATTTTTAAAACCTCCGGATCATTTGTAAG
1 ATGATGTTTTCAAAAGCTTCGGGTCATCTGTAAG
8633 ACCTATAGTT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 36 0.34
45 71 0.66
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (45 bp):
ATGATGTTTTCAAAAGCTTCGGGTCATCTGTAAGCCCTTCAGTGC
Found at i:8960 original size:3 final size:3
Alignment explanation
Indices: 8952--9003 Score: 65
Period size: 3 Copynumber: 18.3 Consensus size: 3
8942 CATTTTAAAA
* *
8952 ATT ATT ATT ATT ATT ATT ATA AGT ATT A-T ATT ATT A-T ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8997 ATT ATT A
1 ATT ATT A
9004 ATAATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 6 0.14
3 36 0.86
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:8988 original size:8 final size:8
Alignment explanation
Indices: 8954--9003 Score: 73
Period size: 8 Copynumber: 6.0 Consensus size: 8
8944 TTTTAAAAAT
8954 TATTATTA
1 TATTATTA
8962 TTATTATTA
1 -TATTATTA
*
8971 TAAGTATTA
1 T-ATTATTA
8980 TATTATTA
1 TATTATTA
8988 TATTATTA
1 TATTATTA
8996 TATTATTA
1 TATTATTA
9004 ATAATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 23 0.61
9 15 0.39
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:10897 original size:16 final size:17
Alignment explanation
Indices: 10868--10905 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
10858 TAAGAAAATT
10868 TATTATATTCTTATTAA
1 TATTATATTCTTATTAA
*
10885 TATT-TATTTTTATTAA
1 TATTATATTCTTATTAA
10901 TATTA
1 TATTA
10906 AAGAAATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTATATTCTTATTAA
Found at i:15478 original size:83 final size:83
Alignment explanation
Indices: 15339--15698 Score: 349
Period size: 83 Copynumber: 4.4 Consensus size: 83
15329 TTATATAAAG
* * * * *
15339 TGGCAGAGATTTTCTGAATAATAATGGAAATCGCTTTCCCCAAAACGTGTATTTCATTTCGGATG
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACACTTTCCCTAAAACGTGCATTTCATTTCGGATG
* *
15404 GGATGAAATACTATGACA
66 GGATGAAACACTCTGACA
* * *
15422 TGGCAGAGATTCTCTGAATAATAATGGAAAACATTTTCCCTGAAACGTGCATTTCATTTCAGATG
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACACTTTCCCTAAAACGTGCATTTCATTTCGGATG
15487 GGATGAAACACTCTGACA
66 GGATGAAACACTCTGACA
* * * * *
15505 TGACATAGATTCTCTGAATAATAA---AAAACGCTTT-CCTCAAAATGTGCCTTTCATTTCGGAT
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACACTTTCCCT-AAAACGTGCATTTCATTTCGGAT
*
15566 GGGAT-AGAACACTCTAACA
65 GGGATGA-AACACTCTGACA
* * * * * *
15585 TGGTAGAGATTTTTTGAATAATAATGGAAAACACTTCTCCCAAAATAAGT-C-TTTTATTTCGGA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAACACTT-TCCCTAAA-ACGTGCATTTCATTTCGGA
* * * * *
15648 TGGGATGGATCACTATTATAA
64 TGGGATGAAACACTCTGA-CA
* * *
15669 T-CCAGAGATTTTCTAAATAATAATGGAAAA
1 TGGCAGAGATTCTCTGAATAATAATGGAAAA
15699 TGCTTCCCCT
Statistics
Matches: 230, Mismatches: 37, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
79 4 0.02
80 62 0.27
83 152 0.66
84 7 0.03
85 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (83 bp):
TGGCAGAGATTCTCTGAATAATAATGGAAAACACTTTCCCTAAAACGTGCATTTCATTTCGGATG
GGATGAAACACTCTGACA
Found at i:15652 original size:163 final size:164
Alignment explanation
Indices: 15345--15654 Score: 385
Period size: 163 Copynumber: 1.9 Consensus size: 164
15335 AAAGTGGCAG
* * *
15345 AGATTTTCTGAATAATAATGGAAATCGCTTTCCCCAAAACGTGTATTTCATTTCGGATGGGATGA
1 AGATTCTCTGAATAATAA--GAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGATGA
* * * ** *
15410 AATACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTTTCCCTGAAACGTGCATT
64 AACACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTCTCCCAAAAAAGTGCATT
15475 TCATTTCAGATGGGATGAAACACTCTGACATGACAT
129 TCATTTCAGATGGGATGAAACACTCTGACATGACAT
* * *
15511 AGATTCTCTGAATAATAA-AAAACGCTTTCCTCAAAATGTGCCTTTCATTTCGGATGGGAT-AGA
1 AGATTCTCTGAATAATAAGAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGATGA-A
* * * *
15574 ACACTCTAACATGGTAGAGATTTTTTGAATAATAATGGAAAACACTTCTCCCAAAATAAGT-C-T
65 ACACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACA-TTCTCCCAAAA-AAGTGCAT
* *
15637 TTTATTTCGGATGGGATG
128 TTCATTTCAGATGGGATG
15655 GATCACTATT
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
162 1 0.01
163 93 0.76
164 9 0.07
165 3 0.02
166 17 0.14
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (164 bp):
AGATTCTCTGAATAATAAGAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGATGAAA
CACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTCTCCCAAAAAAGTGCATTTC
ATTTCAGATGGGATGAAACACTCTGACATGACAT
Found at i:15690 original size:163 final size:164
Alignment explanation
Indices: 15342--15778 Score: 378
Period size: 163 Copynumber: 2.7 Consensus size: 164
15332 TATAAAGTGG
* *
15342 CAGAGATTTTCTGAATAATAATGGAAATCGCTTTCCCCAAAACGTGTATTTCATTTCGGATGGGA
1 CAGAGATTTTCTGAATAATAA--GAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGA
* * * ** *
15407 TGAAATACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTTTCCCTGAAACGTGC
64 TGAAACACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTCTCCCAAAAAAGTGC
* *
15472 ATTTCATTTCAGATGGGATGAAACACTCTGACATGA
129 ATTTCATTTCAGATGGGATGAAACACTATGAAATGA
* * * * *
15508 CATAGATTCTCTGAATAATAA-AAAACGCTTTCCTCAAAATGTGCCTTTCATTTCGGATGGGAT-
1 CAGAGATTTTCTGAATAATAAGAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGATG
* * * *
15571 AGAACACTCTAACATGGTAGAGATTTTTTGAATAATAATGGAAAACACTTCTCCCAAAATAAGT-
66 A-AACACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACA-TTCTCCCAAAA-AAGTG
* * * * * *
15635 C-TTTTATTTCGGATGGGATGGATCACTATTATAAT-C
128 CATTTCATTTCAGATGGGATGAAACACTATGA-AATGA
* * **
15671 CAGAGATTTTCTAAATAATAATGGAAAATGC-TTCCCCTGGAACGTGTC-TTTCATTT---ATGG
1 CAGAGATTTTCTGAATAATAA--GAAAACGCTTTCCCC-AAAACGTG-CATTTCATTTCGGATGG
* * *
15731 GATGGATCACTATTATA-AT--CTAGAGATTCTCTGAATAATAATAGAAAA
62 GATGAAACACTA-TA-ACATGGC-AGAGATTCTCTGAATAATAATGGAAAA
15779 ATGCATCCCC
Statistics
Matches: 218, Mismatches: 40, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
162 1 0.00
163 154 0.71
164 15 0.07
165 9 0.04
166 38 0.17
167 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (164 bp):
CAGAGATTTTCTGAATAATAAGAAAACGCTTTCCCCAAAACGTGCATTTCATTTCGGATGGGATG
AAACACTATAACATGGCAGAGATTCTCTGAATAATAATGGAAAACATTCTCCCAAAAAAGTGCAT
TTCATTTCAGATGGGATGAAACACTATGAAATGA
Found at i:15749 original size:80 final size:81
Alignment explanation
Indices: 15647--15803 Score: 244
Period size: 80 Copynumber: 2.0 Consensus size: 81
15637 TTTATTTCGG
* * *
15647 ATGGGATGGATCACTATTATAATCCAGAGATTTTCTAAATAATAAT-GGAAAATGCTTCCCCTGG
1 ATGGGATGGATCACTATTATAATCCAGAGATTCTCTAAATAATAATAGAAAAATGCATCCCCTGG
*
15711 AACGTGTCTTTCATTT
66 AACGTGACTTTCATTT
* *
15727 ATGGGATGGATCACTATTATAATCTAGAGATTCTCTGAATAATAATAGAAAAATGCATCCCCTGG
1 ATGGGATGGATCACTATTATAATCCAGAGATTCTCTAAATAATAATAGAAAAATGCATCCCCTGG
*
15792 GACGTGACTTTC
66 AACGTGACTTTC
15804 CTTGTTAGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 43 0.62
81 26 0.38
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (81 bp):
ATGGGATGGATCACTATTATAATCCAGAGATTCTCTAAATAATAATAGAAAAATGCATCCCCTGG
AACGTGACTTTCATTT
Found at i:30365 original size:16 final size:15
Alignment explanation
Indices: 30338--30377 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
30328 GTGATATAAA
*
30338 AAATTATTTTTTATT
1 AAATTTTTTTTTATT
30353 AAATATTTTTTTTATT
1 AAAT-TTTTTTTTATT
*
30369 TAATTTTTT
1 AAATTTTTT
30378 AAATAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
AAATTTTTTTTTATT
Found at i:31195 original size:29 final size:30
Alignment explanation
Indices: 31136--31196 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
31126 TATTTTCATC
*
31136 TAATATTTAATGTTACATGACTTGTTTATAA
1 TAATATTTAA-GTTACATGACTTGTTAATAA
* *
31167 TAATATTTAA-TTATATTACTTGTTAATAA
1 TAATATTTAAGTTACATGACTTGTTAATAA
31196 T
1 T
31197 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 17 0.63
31 10 0.37
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (30 bp):
TAATATTTAAGTTACATGACTTGTTAATAA
Found at i:39042 original size:19 final size:21
Alignment explanation
Indices: 38996--39044 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
38986 AATGATATTT
*
38996 TTTAAATTTTTATATAATTAA
1 TTTAATTTTTTATATAATTAA
*
39017 ATT-ATTTTTTAT-TAA-TAA
1 TTTAATTTTTTATATAATTAA
39035 TTTAATTTTT
1 TTTAATTTTT
39045 CTTAAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 5 0.21
19 9 0.38
20 8 0.33
21 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATTTTTTATATAATTAA
Found at i:39043 original size:18 final size:19
Alignment explanation
Indices: 39000--39049 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
38990 ATATTTTTTA
39000 AATTTTTATATAATTAAATT
1 AATTTTTAT-TAATTAAATT
* *
39020 ATTTTTTATTAA-TAATTT
1 AATTTTTATTAATTAAATT
*
39038 AATTTTTCTTAA
1 AATTTTTATTAA
39050 ATTTATAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 3 0.12
20 8 0.31
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTTATTAATTAAATT
Found at i:46712 original size:40 final size:40
Alignment explanation
Indices: 46650--46751 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
46640 AATGTCATGG
* * * **
46650 TTCACTAAGAAAATACGTTGCGATATATAATGTTAATATT
1 TTCATTAATAAAATAGGTTGCGATATATAATACTAATATT
* * *
46690 TTCATTAATAAAGTAGGTTGCGATTTGTAATACTAATATT
1 TTCATTAATAAAATAGGTTGCGATATATAATACTAATATT
*
46730 TTTATTAATAAAATAGGTTGCG
1 TTCATTAATAAAATAGGTTGCG
46752 CCTAAGAATG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (40 bp):
TTCATTAATAAAATAGGTTGCGATATATAATACTAATATT
Found at i:47185 original size:16 final size:16
Alignment explanation
Indices: 47164--47196 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47154 TAAAAAATAA
47164 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
47180 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
47196 A
1 A
47197 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:47277 original size:10 final size:10
Alignment explanation
Indices: 47262--47336 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
47252 CATTTAATAA
47262 ATAAACGAAC
1 ATAAACGAAC
47272 ATAAACGAAC
1 ATAAACGAAC
47282 ----ACGAAC
1 ATAAACGAAC
47288 ATAAACGAAC
1 ATAAACGAAC
** *
47298 ACGAAC-ATAA
1 ATAAACGA-AC
47308 ATGAACACGAAC
1 AT-AA-ACGAAC
47320 ATAAACGAAC
1 ATAAACGAAC
47330 ATAAACG
1 ATAAACG
47337 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:47287 original size:16 final size:16
Alignment explanation
Indices: 47266--47330 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
47256 TAATAAATAA
47266 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
47282 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
47298 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
47314 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
47330 A
1 A
47331 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:48090 original size:24 final size:25
Alignment explanation
Indices: 48063--48137 Score: 93
Period size: 24 Copynumber: 3.1 Consensus size: 25
48053 GATTGTGTTA
*
48063 AACATAAAT-GAATGAACATAAACG
1 AACATAAATCGAACGAACATAAACG
48087 AACAT-AATCGAACGAACATAAACG
1 AACATAAATCGAACGAACATAAACG
* * *
48111 AACAT-AACCAAACGAACATAACCG
1 AACATAAATCGAACGAACATAAACG
48135 AAC
1 AAC
48138 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (25 bp):
AACATAAATCGAACGAACATAAACG
Found at i:48100 original size:14 final size:14
Alignment explanation
Indices: 48083--48138 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
48073 AATGAACATA
*
48083 AACGAACATAATCG
1 AACGAACATAACCG
48097 AACGAACAT-A---
1 AACGAACATAACCG
*
48107 AACGAACATAACCA
1 AACGAACATAACCG
48121 AACGAACATAACCG
1 AACGAACATAACCG
48135 AACG
1 AACG
48139 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:48148 original size:24 final size:24
Alignment explanation
Indices: 48076--48137 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
48066 ATAAATGAAT
*
48076 GAACATAAACGAACATAATCGAAC
1 GAACATAAACGAACATAACCGAAC
*
48100 GAACATAAACGAACATAACCAAAC
1 GAACATAAACGAACATAACCGAAC
*
48124 GAACATAACCGAAC
1 GAACATAAACGAAC
48138 GTTCACGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.55, C:0.24, G:0.11, T:0.10
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:49038 original size:7 final size:7
Alignment explanation
Indices: 49021--49052 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
49011 TATACATTTG
49021 GGTTT-A
1 GGTTTAA
49027 GGTTTAA
1 GGTTTAA
49034 GGTTTAA
1 GGTTTAA
49041 GGTTTAA
1 GGTTTAA
49048 GGTTT
1 GGTTT
49053 GTAGTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:50050 original size:83 final size:83
Alignment explanation
Indices: 49890--50050 Score: 213
Period size: 83 Copynumber: 1.9 Consensus size: 83
49880 CACAACATAT
*
49890 AATGTTATACTTATAAACCCGTTTTGTCTTACTGTTCCATAATAAAAACGATTTGAAACATATAA
1 AATGTTATACTTATAAACCCATTTTGTCTTACTGTTCCATAATAAAAACGATTTGAAACATATAA
* *
49955 TCTTAACGGTTGATAAAA
66 TCTAAACAGTTGATAAAA
* *
49973 AATGTTATACTTATAAACCTATTTTGTCTTACT-TTCGCATAATATAAAA-GGTTTCG-AACATA
1 AATGTTATACTTATAAACCCATTTTGTCTTACTGTTC-CATAATA-AAAACGATTT-GAAACATA
50035 TAA-CATAAACAGTTGA
63 TAATC-TAAACAGTTGA
50051 CAATTAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
82 4 0.06
83 60 0.87
84 5 0.07
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (83 bp):
AATGTTATACTTATAAACCCATTTTGTCTTACTGTTCCATAATAAAAACGATTTGAAACATATAA
TCTAAACAGTTGATAAAA
Found at i:50273 original size:100 final size:101
Alignment explanation
Indices: 49973--50339 Score: 352
Period size: 101 Copynumber: 3.6 Consensus size: 101
49963 GTTGATAAAA
* * * * *
49973 AATGTTATACTTATAAACCTATTTTGTCTTACTTTCGCATAATATAAAAGGTTTCGAACATATAA
1 AATGATATACTTATAAACATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTCAAACATATAA
*
50038 -CATAAACAGTTGACAATTAAAAAAGGCGCTACCTAT
66 TCAT-AACAGTTGATAATTAAAAAAGGCGCTACCTAT
* * * * * * * * * *
50074 AATGCTAGATTTGTCAACTTGTTTTGTCATACTGTTGCATAATA-AAAACGGTTTGAAACAAATA
1 AATGATATACTTATAAACATGTTTTGTCTTACTTTTGCATAATATAAAA-GGTTTCAAACATATA
* * * * *
50138 ATCTTAACCA-TTGCTAATTAAAGAAGGCGCAACCTAC
65 ATCATAA-CAGTTGATAATTAAAAAAGGCGCTACCTAT
* * *
50175 AATAATATACTTATAAACATGTTTTGTCTTACTTTTTCATAATATAAAA-GTTTTAAACATATAA
1 AATGATATACTTATAAACATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTCAAACATATAA
* *
50239 TGC-TAACGGTTGATAAGTAAAAAAGGCGCTACCTAT
66 T-CATAACAGTTGATAATTAAAAAAGGCGCTACCTAT
* * * * *
50275 AATGTTATACTTATAAAAATGATTTT-CCTTAATTTTGCATAATA-AGAATGGTTTCAAACATAT
1 AATGATATACTTATAAACATG-TTTTGTCTTACTTTTGCATAATATA-AAAGGTTTCAAACATAT
50338 AA
64 AA
50340 ACTTGTTTTG
Statistics
Matches: 212, Mismatches: 45, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
99 2 0.01
100 78 0.37
101 124 0.58
102 8 0.04
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (101 bp):
AATGATATACTTATAAACATGTTTTGTCTTACTTTTGCATAATATAAAAGGTTTCAAACATATAA
TCATAACAGTTGATAATTAAAAAAGGCGCTACCTAT
Found at i:53554 original size:30 final size:30
Alignment explanation
Indices: 53503--53559 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
53493 ACTAATTTGG
* * *
53503 AAATATGTATAAGTTGAAGGATTAAATTGT
1 AAATATGGATAAATTGAAGGATAAAATTGT
53533 AAATATGGATAAATT-ATAGGATAAAAT
1 AAATATGGATAAATTGA-AGGATAAAAT
53560 AGAAATTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.04
30 22 0.96
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (30 bp):
AAATATGGATAAATTGAAGGATAAAATTGT
Found at i:54313 original size:24 final size:24
Alignment explanation
Indices: 54280--54362 Score: 87
Period size: 24 Copynumber: 3.5 Consensus size: 24
54270 TATTAATTAA
54280 TCTTG-ATTAGTACATTTGTGCAC
1 TCTTGTATTAGTACATTTGTGCAC
* * *
54303 TCTTGTATTAGTGCCTTCGTGCAC
1 TCTTGTATTAGTACATTTGTGCAC
* * * *
54327 TCTTGAATTAATACAATTGAGCAC
1 TCTTGTATTAGTACATTTGTGCAC
*
54351 TCTTATATTAGT
1 TCTTGTATTAGT
54363 GTGAATATAC
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
23 5 0.11
24 41 0.89
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (24 bp):
TCTTGTATTAGTACATTTGTGCAC
Found at i:54407 original size:47 final size:50
Alignment explanation
Indices: 54341--54457 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 50
54331 GAATTAATAC
* * * ** * *
54341 AATTGAGCACTCTTATATTAGTGTGAATATACACTCTTGTA-TAA-TG-T
1 AATTGTGCACTCCTGTATTAGTGCAAATACACACTCATGTATTAAGTGCT
54388 AATTGTGCACTCCTGTATTAGTGCAAATACACACTCATGTATTAAGTGCT
1 AATTGTGCACTCCTGTATTAGTGCAAATACACACTCATGTATTAAGTGCT
54438 --TTGTGCACTCCTGTATTAGT
1 AATTGTGCACTCCTGTATTAGT
54458 ACCATTGGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
47 34 0.57
48 23 0.38
49 2 0.03
50 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (50 bp):
AATTGTGCACTCCTGTATTAGTGCAAATACACACTCATGTATTAAGTGCT
Found at i:54776 original size:17 final size:17
Alignment explanation
Indices: 54683--54766 Score: 98
Period size: 17 Copynumber: 4.9 Consensus size: 17
54673 AGAGAAATAA
* * *
54683 TACAGAAAAAGATACAT
1 TACAGTAAAAGATATAG
54700 TACAGTAAAAGATATAG
1 TACAGTAAAAGATATAG
*
54717 TACATTAAAAGATATAG
1 TACAGTAAAAGATATAG
* *
54734 TATC-GTGAAAGATAAAG
1 TA-CAGTAAAAGATATAG
54751 TACAGTAAAAGATATA
1 TACAGTAAAAGATATA
54767 TAACAATAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 1 0.02
17 54 0.96
18 1 0.02
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (17 bp):
TACAGTAAAAGATATAG
Found at i:54822 original size:20 final size:16
Alignment explanation
Indices: 54792--54840 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 16
54782 CAATGTAGTG
54792 AAAAGAACAATATAAGGAA
1 AAAAGAACAATAT--GG-A
54811 AAAAGTAACAATATGGA
1 AAAAG-AACAATATGGA
54828 AAAAGGAACAATA
1 AAAA-GAACAATA
54841 CAAGAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 12 0.43
18 3 0.11
19 5 0.18
20 8 0.29
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.12
Consensus pattern (16 bp):
AAAAGAACAATATGGA
Found at i:54830 original size:17 final size:18
Alignment explanation
Indices: 54792--54840 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
54782 CAATGTAGTG
54792 AAAAGAACAATATAAGGAA
1 AAAAGAACAATAT-AGGAA
54811 AAAAGTAACAATAT-GGAA
1 AAAAG-AACAATATAGGAA
*
54829 AAAGGAACAATA
1 AAAAGAACAATA
54841 CAAGAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.25
18 8 0.29
19 5 0.18
20 8 0.29
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.12
Consensus pattern (18 bp):
AAAAGAACAATATAGGAA
Found at i:55190 original size:16 final size:17
Alignment explanation
Indices: 55169--55200 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
55159 AATAGGGTAT
55169 GTGAAAAT-TAATAAAG
1 GTGAAAATATAATAAAG
55185 GTGAAAATATAATAAA
1 GTGAAAATATAATAAA
55201 TGGCTCAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (17 bp):
GTGAAAATATAATAAAG
Found at i:58257 original size:33 final size:33
Alignment explanation
Indices: 58211--58304 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
58201 TGCCTGCTCG
** *
58211 AGATTTTTTGATGAGTTGTTGATTGATTGGT-T
1 AGATTTTCCGATGAGTTGTTGGTTGATTGGTCT
*
58243 -GAAGTTTTCCGATGAGTGGTTGGTTGATTGGTCT
1 AG-A-TTTTCCGATGAGTTGTTGGTTGATTGGTCT
**
58277 AGATTTTTTGATGAGTTGTTGGTTGATT
1 AGATTTTCCGATGAGTTGTTGGTTGATT
58305 TCTTCATTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 1 0.02
33 46 0.90
34 2 0.04
35 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.49
Consensus pattern (33 bp):
AGATTTTCCGATGAGTTGTTGGTTGATTGGTCT
Found at i:60040 original size:9 final size:9
Alignment explanation
Indices: 60030--60079 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
60020 TGGAAAACCA
60030 GTTTGACCAG
1 GTTTGACC-G
*
60040 TTTTGAACCG
1 GTTTG-ACCG
60050 GTTTGACCG
1 GTTTGACCG
*
60059 GTCTGAACCG
1 GTTTG-ACCG
60069 GTTTGACCG
1 GTTTGACCG
60078 GT
1 GT
60080 CTGAACCCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
9 14 0.41
10 17 0.50
11 3 0.09
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (9 bp):
GTTTGACCG
Found at i:60054 original size:10 final size:10
Alignment explanation
Indices: 60041--60086 Score: 60
Period size: 9 Copynumber: 4.8 Consensus size: 10
60031 TTTGACCAGT
60041 TTTGAACCGG
1 TTTGAACCGG
60051 TTTG-ACCGG
1 TTTGAACCGG
*
60060 TCTGAACCGG
1 TTTGAACCGG
60070 TTTG-ACCGG
1 TTTGAACCGG
*
60079 TCTGAACC
1 TTTGAACC
60087 CGGGTTGACC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (10 bp):
TTTGAACCGG
Found at i:60067 original size:19 final size:19
Alignment explanation
Indices: 60043--60096 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
60033 TGACCAGTTT
60043 TGAACCGGTTTGACCGGTC
1 TGAACCGGTTTGACCGGTC
60062 TGAACCGGTTTGACCGGTC
1 TGAACCGGTTTGACCGGTC
*
60081 TGAACCCGGGTTGACC
1 TGAA-CCGGTTTGACC
60097 CGACCCGACT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.70
20 10 0.30
ACGTcount: A:0.17, C:0.28, G:0.31, T:0.24
Consensus pattern (19 bp):
TGAACCGGTTTGACCGGTC
Found at i:60112 original size:17 final size:17
Alignment explanation
Indices: 60090--60130 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
60080 CTGAACCCGG
*
60090 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
60107 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
60124 GTTGACC
1 GTTGACC
60131 GTTGACCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.41, G:0.24, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:60132 original size:7 final size:7
Alignment explanation
Indices: 60120--60176 Score: 100
Period size: 7 Copynumber: 8.4 Consensus size: 7
60110 GACCCGACCC
60120 GACCGTT
1 GACCGTT
60127 GACCGTT
1 GACCGTT
60134 GACCGTT
1 GACCGTT
60141 GACCG-T
1 GACCGTT
60147 GACCGTT
1 GACCGTT
60154 GACCG-T
1 GACCGTT
60160 GACCGTT
1 GACCGTT
60167 GACCGTT
1 GACCGTT
60174 GAC
1 GAC
60177 TTTCTTTGAC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.25
7 36 0.75
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (7 bp):
GACCGTT
Found at i:60151 original size:13 final size:13
Alignment explanation
Indices: 60120--60172 Score: 97
Period size: 13 Copynumber: 4.0 Consensus size: 13
60110 GACCCGACCC
60120 GACCGTTGACCGTT
1 GACCGTTGACCG-T
60134 GACCGTTGACCGT
1 GACCGTTGACCGT
60147 GACCGTTGACCGT
1 GACCGTTGACCGT
60160 GACCGTTGACCGT
1 GACCGTTGACCGT
60173 TGACTTTCTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
13 27 0.69
14 12 0.31
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:60151 original size:20 final size:21
Alignment explanation
Indices: 60120--60176 Score: 100
Period size: 20 Copynumber: 2.8 Consensus size: 21
60110 GACCCGACCC
60120 GACCGTTGACCGTTGACCGTT
1 GACCGTTGACCGTTGACCGTT
60141 GACCG-TGACCGTTGACCG-T
1 GACCGTTGACCGTTGACCGTT
60160 GACCGTTGACCGTTGAC
1 GACCGTTGACCGTTGAC
60177 TTTCTTTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.17
20 24 0.69
21 5 0.14
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (21 bp):
GACCGTTGACCGTTGACCGTT
Found at i:67365 original size:10 final size:10
Alignment explanation
Indices: 67338--67423 Score: 81
Period size: 10 Copynumber: 8.9 Consensus size: 10
67328 ACTGGAAAAC
67338 CCGGTTTG-A
1 CCGGTTTGAA
*
67347 CCAGTTTTGAA
1 CC-GGTTTGAA
67358 CCGGTTTG-A
1 CCGGTTTGAA
*
67367 CCGGTTCGAA
1 CCGGTTTGAA
67377 CCGGTTTG-A
1 CCGGTTTGAA
*
67386 CCGGTCTGAA
1 CCGGTTTGAA
*
67396 CCGGGTTG-A
1 CCGGTTTGAA
*
67405 CCGGTCTGAA
1 CCGGTTTGAA
*
67415 CCGGGTTGA
1 CCGGTTTGA
67424 CCCGACCCGA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
9 25 0.41
10 33 0.54
11 3 0.05
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (10 bp):
CCGGTTTGAA
Found at i:67379 original size:19 final size:19
Alignment explanation
Indices: 67338--67425 Score: 115
Period size: 19 Copynumber: 4.6 Consensus size: 19
67328 ACTGGAAAAC
* *
67338 CCGGTTTGACCAGTTTTGAA
1 CCGGTTTGACC-GGTCTGAA
67358 CCGGTTTGACCGGT-TCGAA
1 CCGGTTTGACCGGTCT-GAA
67377 CCGGTTTGACCGGTCTGAA
1 CCGGTTTGACCGGTCTGAA
*
67396 CCGGGTTGACCGGTCTGAA
1 CCGGTTTGACCGGTCTGAA
*
67415 CCGGGTTGACC
1 CCGGTTTGACC
67426 CGACCCGACT
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
18 1 0.02
19 51 0.80
20 12 0.19
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (19 bp):
CCGGTTTGACCGGTCTGAA
Found at i:67441 original size:17 final size:17
Alignment explanation
Indices: 67419--67459 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
67409 TCTGAACCGG
67419 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
67436 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
67453 GTTGACC
1 GTTGACC
67460 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Found at i:67465 original size:7 final size:7
Alignment explanation
Indices: 67453--67492 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
67443 CGACCCGACT
67453 GTTGACC
1 GTTGACC
67460 GTTGACC
1 GTTGACC
67467 GTTGACC
1 GTTGACC
67474 G-TGACC
1 GTTGACC
67480 GTTGACC
1 GTTGACC
67487 GTTGAC
1 GTTGAC
67493 TTTCTTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.28
Consensus pattern (7 bp):
GTTGACC
Found at i:67480 original size:13 final size:13
Alignment explanation
Indices: 67453--67488 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
67443 CGACCCGACT
67453 GTTGACCGTTGACC
1 GTTGACCG-TGACC
67467 GTTGACCGTGACC
1 GTTGACCGTGACC
67480 GTTGACCGT
1 GTTGACCGT
67489 TGACTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.28
Consensus pattern (13 bp):
GTTGACCGTGACC
Found at i:67480 original size:20 final size:20
Alignment explanation
Indices: 67455--67492 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
67445 ACCCGACTGT
67455 TGACCGTTGACCGTTGACCG
1 TGACCGTTGACCGTTGACCG
67475 TGACCGTTGACCGTTGAC
1 TGACCGTTGACCGTTGAC
67493 TTTCTTTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (20 bp):
TGACCGTTGACCGTTGACCG
Found at i:74962 original size:21 final size:21
Alignment explanation
Indices: 74936--74999 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
74926 TTTTGGTGCA
*
74936 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATCCCCCCCAT
* **
74957 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCAT
*
74978 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATCCCCCCCA
75000 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCAT
Found at i:75006 original size:21 final size:21
Alignment explanation
Indices: 74938--75019 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
74928 TTGGTGCAGA
*
74938 GGGAATCGA-TCCCCCC-CATG
1 GGGAACCGATTCCCCCCACA-G
*
74958 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
74982 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
75003 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
75020 TGGGGTTCTG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 25 0.50
22 6 0.12
23 16 0.32
24 1 0.02
25 1 0.02
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:77073 original size:54 final size:54
Alignment explanation
Indices: 76991--77104 Score: 228
Period size: 54 Copynumber: 2.1 Consensus size: 54
76981 CATTTTGAAT
76991 TGTTTGATTTTGTGGATTGTTGGATTTTGGATTTATGAATGATGTGAACTTATA
1 TGTTTGATTTTGTGGATTGTTGGATTTTGGATTTATGAATGATGTGAACTTATA
77045 TGTTTGATTTTGTGGATTGTTGGATTTTGGATTTATGAATGATGTGAACTTATA
1 TGTTTGATTTTGTGGATTGTTGGATTTTGGATTTATGAATGATGTGAACTTATA
77099 TGTTTG
1 TGTTTG
77105 GTGTGTTTAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.21, C:0.02, G:0.26, T:0.51
Consensus pattern (54 bp):
TGTTTGATTTTGTGGATTGTTGGATTTTGGATTTATGAATGATGTGAACTTATA
Found at i:89889 original size:12 final size:12
Alignment explanation
Indices: 89872--89896 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89862 CTAGAGATAA
89872 TGTGACAATGAC
1 TGTGACAATGAC
89884 TGTGACAATGAC
1 TGTGACAATGAC
89896 T
1 T
89897 TAATATCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TGTGACAATGAC
Found at i:94886 original size:19 final size:19
Alignment explanation
Indices: 94862--94903 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
94852 CTCATTAGAA
94862 GATCTAACAACCTTGAGAC
1 GATCTAACAACCTTGAGAC
94881 GATCTAACAACCTTGAGAC
1 GATCTAACAACCTTGAGAC
94900 GATC
1 GATC
94904 ATTGAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (19 bp):
GATCTAACAACCTTGAGAC
Found at i:98033 original size:24 final size:22
Alignment explanation
Indices: 97997--98051 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
97987 CATCTCTTTT
*
97997 ATCACTGTCCATGTAAACACATA
1 ATCACT-TCCATGCAAACACATA
* *
98020 AGTCACTTCACATGCATACACATT
1 A-TCACTTC-CATGCAAACACATA
98044 ATCACTTC
1 ATCACTTC
98052 TATTATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.35, C:0.29, G:0.07, T:0.29
Consensus pattern (22 bp):
ATCACTTCCATGCAAACACATA
Found at i:101681 original size:18 final size:18
Alignment explanation
Indices: 101660--101695 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
101650 TGGCAGTGGA
101660 GGCGTCGGCAGCAGCGTC
1 GGCGTCGGCAGCAGCGTC
101678 GGCGTCGGCAGCAGCGTC
1 GGCGTCGGCAGCAGCGTC
101696 TGGAAGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.44, T:0.11
Consensus pattern (18 bp):
GGCGTCGGCAGCAGCGTC
Found at i:101864 original size:3 final size:3
Alignment explanation
Indices: 101856--101963 Score: 153
Period size: 3 Copynumber: 35.0 Consensus size: 3
101846 TTATTTATTA
*
101856 AAT AAT AAT AAT ATAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
101903 AAT AAT AAT AAT AAAT AAT TAT AAT TAT AAT AAT AAT AAT AAT ACT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101949 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
101964 TTTAAATGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
3 85 0.90
4 9 0.10
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:102218 original size:76 final size:76
Alignment explanation
Indices: 102091--102803 Score: 1324
Period size: 76 Copynumber: 9.4 Consensus size: 76
102081 GGAAATGTTT
*
102091 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102156 AAGGCTTTTTG
66 AAGGCTTTTTG
* *
102167 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102232 AAGGCTTTTTG
66 AAGGCTTTTTG
*
102243 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102308 AAGGCTTTTTG
66 AAGGCTTTTTG
102319 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
102384 AATGCTTTTTG
66 AAGGCTTTTTG
*
102395 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102459 AAGGCTTTTTG
66 AAGGCTTTTTG
102470 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102535 AAGGCTTTTTG
66 AAGGCTTTTTG
*
102546 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGACTTTGAAAACATCAAAAAAGCTCCC
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAAGCTCCC
*
102611 GAATGCTTTTTG
65 GAAGGCTTTTTG
102623 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102687 AAGGCTTTTTG
66 AAGGCTTTTTG
102698 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCG
1 GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
102762 AAGGCTTTTTG
66 AAGGCTTTTTG
102773 GAAACATCATGCACTGAAGGACTTACAGATG
1 GAAACATCATGCACTGAAGGACTTACAGATG
102804 TGGGAAATAG
Statistics
Matches: 622, Mismatches: 13, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
75 201 0.32
76 355 0.57
77 66 0.11
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.21
Consensus pattern (76 bp):
GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTG
Found at i:102674 original size:303 final size:302
Alignment explanation
Indices: 102088--102803 Score: 1328
Period size: 303 Copynumber: 2.4 Consensus size: 302
102078 GATGGAAATG
*
102088 TTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTC
1 TTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTG-AAACATCAAAAAGCTC
*
102153 CCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACA
65 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACA
102218 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAG
130 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAG
102283 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
195 CTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGA
*
102348 TGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAATGCTT
260 TGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
102391 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTTG-AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
*
102456 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACA
65 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACA
102521 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCG-AAG
130 TCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAG
*
102585 ACTTTGAAAACATCAAAAAAGCTCCCGAATGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
195 -CTTTGAAAACATC-AAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACA
102650 GATGACCCGAAGGCTTTG-AAACATCAAAAAGCTCCCGAAGGCTT
258 GATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
102694 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
1 TTT-GAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTC
102759 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
65 CCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
102804 TGGGAAATAG
Statistics
Matches: 404, Mismatches: 5, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
302 3 0.01
303 290 0.72
304 111 0.27
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (302 bp):
TTTGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAACATCAAAAAGCTCC
CGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGCTTTGAAAACAT
CAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAAGC
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTT
Found at i:103494 original size:22 final size:22
Alignment explanation
Indices: 103469--103520 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
103459 CATAAAGCTT
*
103469 TCATCTTTAAAAAGAGAATCTG
1 TCATCTTTAAAAAGAGAATCTA
103491 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATCTA
103513 TCATCTTT
1 TCATCTTT
103521 GAAGAGTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATCTA
Found at i:105864 original size:83 final size:83
Alignment explanation
Indices: 105724--105925 Score: 334
Period size: 83 Copynumber: 2.4 Consensus size: 83
105714 CTTATTTCTA
* * * *
105724 CTATGAGCAAATTCATCTTCCAAATTCAATGACTGGTTCTGTCCAACCAGATTAGATAACTCAAA
1 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
105789 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
105807 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTG-CCAAACCAGATCAGATAACTCAA
1 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAA
105871 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
105890 CTATGAACAAATTCATCTTCTAAATTCAATGTTTGG
1 CTATGAACAAATTCATCTTCTAAATTCAATGATTGG
105926 ACTGGGATAT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 2 0.02
83 110 0.98
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (83 bp):
CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:114467 original size:18 final size:18
Alignment explanation
Indices: 114446--114481 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
114436 TGGCAGTGGA
114446 GGCGTCGGCAGCAGCGTC
1 GGCGTCGGCAGCAGCGTC
114464 GGCGTCGGCAGCAGCGTC
1 GGCGTCGGCAGCAGCGTC
114482 TGGAAGCTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.44, T:0.11
Consensus pattern (18 bp):
GGCGTCGGCAGCAGCGTC
Found at i:114650 original size:3 final size:3
Alignment explanation
Indices: 114642--114752 Score: 159
Period size: 3 Copynumber: 36.0 Consensus size: 3
114632 TTATTTATTA
*
114642 AAT AAT AAT AAT ATAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
* * *
114689 AAT AAT AAT AAT AAAT AAT TAT AAT TAT AAT AAT AAT AAT AAT ACT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
114735 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
114753 TTTAAATGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
3 88 0.91
4 9 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:115261 original size:27 final size:25
Alignment explanation
Indices: 115192--115261 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 25
115182 AAGATTTAAT
115192 AAAA-TAAAATAAATAATAATAAATA
1 AAAAGTAAAATAAA-AATAATAAATA
* *
115217 AAAGGGAAAATAATAAAATAATAAATA
1 AAAAGTAAAAT-A-AAAATAATAAATA
115244 ACAATAGTAAAATAAAAA
1 A-AA-AGTAAAATAAAAA
115262 GGGTTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 17 0.47
28 5 0.14
29 6 0.17
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (25 bp):
AAAAGTAAAATAAAAATAATAAATA
Found at i:115306 original size:18 final size:18
Alignment explanation
Indices: 115285--115327 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
115275 GTAGTTTTTA
*
115285 AAATAAAAGATAATAATT
1 AAATAAAAGAAAATAATT
115303 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAATAATT
115321 AAATAAA
1 AAATAAA
115328 TAATCTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
AAATAAAAGAAAATAATT
Done.