Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009516.1 Hibiscus syriacus cultivar Beakdansim tig00115730_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: 60089
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Found at i:987 original size:32 final size:33
Alignment explanation
Indices: 911--995 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
901 GTGTGCGTGC
* * *
911 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
944 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
976 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
996 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:1153 original size:31 final size:32
Alignment explanation
Indices: 1080--1166 Score: 131
Period size: 31 Copynumber: 2.7 Consensus size: 32
1070 GTGTGCGTGA
* *
1080 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAA-CCCAGACGGGTG
1113 GCCTCGGTCACCATCGGCAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAACCCAGACGGGTG
*
1144 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
1167 CGGGCCATTG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
31 22 0.43
32 9 0.18
33 20 0.39
ACGTcount: A:0.18, C:0.38, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGTG
Found at i:1245 original size:168 final size:169
Alignment explanation
Indices: 776--1353 Score: 1018
Period size: 169 Copynumber: 3.4 Consensus size: 169
766 ACGTGTGCGT
** *
776 GCCTCGGTCACCATCGGCAAAAACAGACGGG-GTCTCGGTCACCATCGGCAACCCGGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
840 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
* *
905 GCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
944 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
* *
1009 TGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
1074 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1113 GCCTCGGTCACCATCGGC-AACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
* * *
1177 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
1241 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
1281 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
1346 TGCGGGAG
66 TGCGGGAG
1354 CCTCGGTCAC
Statistics
Matches: 393, Mismatches: 14, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
168 145 0.37
169 248 0.63
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (169 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:1324 original size:32 final size:32
Alignment explanation
Indices: 1248--1437 Score: 200
Period size: 33 Copynumber: 5.6 Consensus size: 32
1238 TTGTGCGTGA
*
1248 GCCTCGGTCACCATCGGCAATCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
1280 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
* * * *
1313 GTCTCGGTCACCATCGGTAACCCCGGCCATTGGTGCGGGA
1 GCCTCGGTCACCATCGGCAA--AC--CCA---G-GCGGGT
**
1353 GCCTCGGTCACCATCGGCAGTCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
1385 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
1418 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
1438 CCCCGGGCCA
Statistics
Matches: 132, Mismatches: 16, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
32 42 0.32
33 60 0.45
34 1 0.01
36 6 0.05
38 1 0.01
39 1 0.01
40 21 0.16
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
Found at i:1363 original size:105 final size:106
Alignment explanation
Indices: 1240--1459 Score: 406
Period size: 105 Copynumber: 2.1 Consensus size: 106
1230 CAGGCCGCTT
*
1240 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
1305 AGACGGGTGTCTCGGTCACCATCGGTAACCCC-GGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
1345 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1410 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1451 GTGCGGGAG
1 GTGCGGGAG
1460 TGCCGCACAG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
105 94 0.85
106 17 0.15
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:1483 original size:137 final size:137
Alignment explanation
Indices: 1072--1508 Score: 527
Period size: 137 Copynumber: 3.2 Consensus size: 137
1062 AGGCCCCCGT
* *
1072 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTGGCCTCGGTCACCATCGGC-AACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCAAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1136 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
*
1201 AGCGTTG
131 GGCGTTG
* * ** *
1208 GTGCGGGAGTCTCGGTCACCATCAGGCCG--CTTGTGC--GTGAGCCTCGGTCACCATCGGCAAT
1 GTGCGGGAGCCTCGGTCACCATC-GGCAGTCCAAG-GCGGGTG-GCCTCGGTCACCATCGGCAAA
* * * * ** **
1269 CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC-AG--ACGGGTGTCTCG-GT-CAC-CATC
63 CCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTG-CGGGAGTGC-CGCA-C
* * *
1328 GGTAACCCCGGCCATTG
124 AG-AA--CCGGGCGTTG
*
1345 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCAAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1410 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
1475 GGCGTTG
131 GGCGTTG
1482 GTGCGGGAGCCTCGGTCACCATCGGCA
1 GTGCGGGAGCCTCGGTCACCATCGGCA
1509 ACCCCCGACG
Statistics
Matches: 245, Mismatches: 35, Indels: 41
0.76 0.11 0.13
Matches are distributed among these distances:
133 3 0.01
134 13 0.05
135 24 0.10
136 39 0.16
137 113 0.46
138 33 0.13
139 7 0.03
140 10 0.04
141 3 0.01
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (137 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAGTCCAAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
GGCGTTG
Found at i:1488 original size:105 final size:104
Alignment explanation
Indices: 1274--1583 Score: 324
Period size: 105 Copynumber: 3.0 Consensus size: 104
1264 GCAATCCCAG
*
1274 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGG
1 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGG
* ** ** * *
1339 CCATTGGTGCGGGAG-CCTCGGTCACCATC-GGCAGTCCCAG-
66 CCATTGGTGCGGGAGTAC-CGCACAGAACCGGGC-GT--CGGT
1379 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGG
1 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-G
* *
1444 GCCATTGGTGCGGGAGTGCCGCACAGAACCGGGCGTTGGT
65 GCCATTGGTGCGGGAGTACCGCACAGAACCGGGCGTCGGT
* * *
1484 GCGGG-AGCCTCGGTCACCATCGGCAACCCCCGAC-GG-G--T--G---CC-TCGGCAACCCCAG
1 GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-G
* *
1538 GCCATTGGTGCGGGAGTACCGCACAGAACCGAGCGCTGGGT
65 GCCATTGGTGCGGGAGTACCGCACAGAACCGGGCG-TCGGT
1579 GCGGG
1 GCGGG
1584 AGCCTCGCAC
Statistics
Matches: 184, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
94 45 0.24
95 11 0.06
98 1 0.01
100 1 0.01
102 1 0.01
103 2 0.01
104 27 0.15
105 67 0.36
106 25 0.14
107 4 0.02
ACGTcount: A:0.16, C:0.34, G:0.35, T:0.14
Consensus pattern (104 bp):
GCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGG
CCATTGGTGCGGGAGTACCGCACAGAACCGGGCGTCGGT
Found at i:1842 original size:11 final size:11
Alignment explanation
Indices: 1828--1859 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1818 TCCCGGTGGT
1828 GCTCCGGCGAC
1 GCTCCGGCGAC
*
1839 GCTCCGGCGAT
1 GCTCCGGCGAC
1850 GCTCCGGCGA
1 GCTCCGGCGA
1860 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:14631 original size:32 final size:33
Alignment explanation
Indices: 14555--14639 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
14545 GTGTGCGTGC
* * *
14555 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
14588 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
14620 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
14640 CCCCGACCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:14698 original size:169 final size:170
Alignment explanation
Indices: 14419--14998 Score: 1024
Period size: 169 Copynumber: 3.4 Consensus size: 170
14409 ACGTGTGCGT
**
14419 GCCTCGGTCA-CATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
14483 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
14548 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
14588 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GACCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
14652 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
14717 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGC-GGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
14756 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
14821 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
14885 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
14925 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
14990 GTGCGGGAG
66 GTGCGGGAG
14999 CCTCGGTCAC
Statistics
Matches: 393, Mismatches: 15, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
168 99 0.25
169 251 0.64
170 43 0.11
ACGTcount: A:0.17, C:0.33, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:14765 original size:32 final size:32
Alignment explanation
Indices: 14724--14807 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
14714 GTGTGCGTGA
* *
14724 GCCTCGGTCACCATCGGCAATCCAAGGC-GGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
14755 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
14788 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
14808 CCCCGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
32 44 0.94
33 3 0.06
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:14934 original size:33 final size:33
Alignment explanation
Indices: 14892--15082 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
14882 TTGTGCGTGA
*
14892 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
14925 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
14957 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
14997 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
15031 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
15063 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
15083 CCCCGGGCCA
Statistics
Matches: 131, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
32 41 0.31
33 60 0.46
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:14966 original size:65 final size:66
Alignment explanation
Indices: 14892--15082 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 66
14882 TTGTGCGTGA
*
14892 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
14957 -
66 G
* * * * * **
14957 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
15022 AGGCGGGTG
58 AGACGGGTG
* *
15031 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
15083 CCCCGGGCCA
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
65 41 0.41
66 1 0.01
67 1 0.01
68 1 0.01
69 1 0.01
70 1 0.01
71 1 0.01
72 2 0.02
73 30 0.30
74 22 0.22
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (66 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
G
Found at i:15009 original size:106 final size:106
Alignment explanation
Indices: 14884--15104 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
14874 CAGGCCGCTT
*
14884 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
14949 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
14990 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
15055 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
15096 GTGCGGGAG
1 GTGCGGGAG
15105 TGCCGCACAG
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 112 1.00
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:15488 original size:11 final size:11
Alignment explanation
Indices: 15474--15505 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
15464 TCCCGGTGGT
15474 GCTCCGGCGAC
1 GCTCCGGCGAC
*
15485 GCTCCGGCGAT
1 GCTCCGGCGAC
15496 GCTCCGGCGA
1 GCTCCGGCGA
15506 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:29109 original size:32 final size:33
Alignment explanation
Indices: 29033--29117 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
29023 GTGTGCGTGC
* * *
29033 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
29066 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
29098 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
29118 CCCCGGCCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.40
33 28 0.60
ACGTcount: A:0.20, C:0.34, G:0.29, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:29179 original size:169 final size:170
Alignment explanation
Indices: 28896--29474 Score: 1024
Period size: 169 Copynumber: 3.4 Consensus size: 170
28886 ACGTGTGCGT
**
28896 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
28961 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
29026 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
29066 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
29130 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
29195 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
29235 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
29300 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
29364 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
29404 GCCTCGGTCACCAT---CAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
29466 GTGCGGGAG
66 GTGCGGGAG
29475 CCTCGGTCAC
Statistics
Matches: 395, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
166 56 0.14
169 223 0.56
170 116 0.29
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:29278 original size:32 final size:33
Alignment explanation
Indices: 29202--29286 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
29192 GTGTGCGTGA
* *
29202 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
29235 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
29267 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
29287 CCCCGGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:29413 original size:33 final size:33
Alignment explanation
Indices: 29371--29558 Score: 170
Period size: 33 Copynumber: 5.6 Consensus size: 33
29361 TTGTGCGTGA
*
29371 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
29404 GCCTCGGTCACCAT---CAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
29433 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
29473 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
29507 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
29539 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
29559 CCCCGGGCCA
Statistics
Matches: 125, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
29 13 0.10
30 13 0.10
32 25 0.20
33 44 0.35
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.18
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:29445 original size:29 final size:30
Alignment explanation
Indices: 29371--29447 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
29361 TTGTGCGTGA
* *
29371 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCAT---CAAACCCAGACGGGTG
29404 GCCTCGGTCACCATCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCAAACCCAGACGGGTG
*
29433 GTCTCGGTCACCATC
1 GCCTCGGTCACCATC
29448 GGTAACCCCG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
29 14 0.34
30 13 0.32
33 14 0.34
ACGTcount: A:0.18, C:0.38, G:0.27, T:0.17
Consensus pattern (30 bp):
GCCTCGGTCACCATCAAACCCAGACGGGTG
Found at i:29489 original size:103 final size:104
Alignment explanation
Indices: 29363--29580 Score: 384
Period size: 106 Copynumber: 2.1 Consensus size: 104
29353 CAGGCCGCTT
*
29363 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCAT-CAAACCCAG
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATGCAAACCCAG
*
29427 ACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
29466 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCAT--GCAAACCC
29531 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
64 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
29572 GTGCGGGAG
1 GTGCGGGAG
29581 TGCCGCACAG
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 53 0.49
106 56 0.51
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (104 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATGCAAACCCAG
ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:29961 original size:11 final size:11
Alignment explanation
Indices: 29947--29978 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
29937 TCCCGGTGGT
29947 GCTCCGGCGAC
1 GCTCCGGCGAC
*
29958 GCTCCGGCGAT
1 GCTCCGGCGAC
29969 GCTCCGGCGA
1 GCTCCGGCGA
29979 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:38082 original size:31 final size:32
Alignment explanation
Indices: 37997--38082 Score: 97
Period size: 31 Copynumber: 2.7 Consensus size: 32
37987 GTGTGCGTGC
* * *
37997 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAA-CCCAGACGGGTG
38030 GCCTC-GTCACCATC-GCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGC-AACCCAGACGGGTG
*
38060 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
38083 CGCCATTGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
30 4 0.09
31 24 0.52
32 13 0.28
33 5 0.11
ACGTcount: A:0.20, C:0.37, G:0.27, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGTG
Found at i:38125 original size:166 final size:169
Alignment explanation
Indices: 37861--38430 Score: 944
Period size: 166 Copynumber: 3.4 Consensus size: 169
37851 ACGTGTGCGT
**
37861 GCCTCGGTCACCATCGGCAAAAACAGAC-GGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
37925 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
37990 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
38030 GCCTC-GTCACCATC-GCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
* *
38092 TGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
38157 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
38196 GCCTCGGTCACCATC-GCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
* * *
38260 GTGCGGGAGTGCCGCACAGAACCGAGCGTT--TGCGGGAGTCTCGGTCACCATCA-G-CCGCTTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
38321 TGCGTGAGCCTC-GTCACCATCGGCAATCCCAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
38360 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
38425 GTGCGG
65 GTGCGG
38431 AGCCTCGGTC
Statistics
Matches: 383, Mismatches: 13, Indels: 14
0.93 0.03 0.03
Matches are distributed among these distances:
164 41 0.11
165 71 0.19
166 114 0.30
167 81 0.21
168 36 0.09
169 40 0.10
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (169 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:38200 original size:33 final size:32
Alignment explanation
Indices: 38163--38246 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
38153 GTGTGCGTGA
* *
38163 GCCTCGGTCACCATCGGCAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
38195 GGCCTCGGTCACCATC-GCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
38227 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
38247 CCCCGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
31 14 0.30
32 17 0.37
33 15 0.33
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:38249 original size:31 final size:32
Alignment explanation
Indices: 38163--38249 Score: 115
Period size: 31 Copynumber: 2.7 Consensus size: 32
38153 GTGTGCGTGA
* *
38163 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAA-CCCAGACGGGTG
38196 GCCTCGGTCACCATC-GCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGC-AACCCAGACGGGTG
*
38227 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
38250 CGGGCCATTG
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
31 19 0.39
32 13 0.27
33 17 0.35
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGTG
Found at i:38371 original size:33 final size:33
Alignment explanation
Indices: 38328--38516 Score: 195
Period size: 33 Copynumber: 5.6 Consensus size: 33
38318 TTGTGCGTGA
*
38328 GCCTC-GTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
38360 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
38392 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C---GG-G-TG
**
38431 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
38465 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
38497 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
38517 CCCCGGGCCA
Statistics
Matches: 130, Mismatches: 18, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
32 46 0.35
33 54 0.42
34 1 0.01
35 1 0.01
36 4 0.03
37 1 0.01
39 1 0.01
40 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:38482 original size:105 final size:104
Alignment explanation
Indices: 38320--38535 Score: 396
Period size: 105 Copynumber: 2.1 Consensus size: 104
38310 TCAGCCGCTT
38320 GTGCGTGAGCCTCGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
1 GTGCG-GAGCCTCGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
*
38385 GACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
65 GACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
38425 GTGCGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
1 GTGCGGAGCCTC-GTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCA
38490 GACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
65 GACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
38530 GTGCGG
1 GTGCGG
38536 GAGTGCCGCA
Statistics
Matches: 108, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
104 7 0.06
105 101 0.94
ACGTcount: A:0.16, C:0.35, G:0.32, T:0.16
Consensus pattern (104 bp):
GTGCGGAGCCTCGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAG
ACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:38920 original size:11 final size:11
Alignment explanation
Indices: 38906--38937 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
38896 TCCCGGTGGT
38906 GCTCCGGCGAC
1 GCTCCGGCGAC
*
38917 GCTCCGGCGAT
1 GCTCCGGCGAC
38928 GCTCCGGCGA
1 GCTCCGGCGA
38938 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:47003 original size:32 final size:32
Alignment explanation
Indices: 46967--47050 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
46957 GTGTGCGTGC
* * *
46967 GCCTCGGTCACCATCGGTAATCCAAGGC-GGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
46998 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
47031 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
47051 CCCCGGCCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 43 0.93
33 3 0.07
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.17
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:47211 original size:32 final size:33
Alignment explanation
Indices: 47135--47219 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
47125 GTGTGCGTGA
* *
47135 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
47168 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
47200 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
47220 CCCCGGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:47225 original size:169 final size:170
Alignment explanation
Indices: 46832--47410 Score: 1024
Period size: 169 Copynumber: 3.4 Consensus size: 170
46822 ACGTGTGCGT
**
46832 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATC-GCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
46896 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCA-GCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
46960 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGC-GGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
46999 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
47063 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
47128 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
47168 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
47233 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
47297 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
47337 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
47402 GTGCGGGAG
66 GTGCGGGAG
47411 CCTCGGTCAC
Statistics
Matches: 395, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
167 106 0.27
168 50 0.13
169 177 0.45
170 62 0.16
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:47346 original size:33 final size:33
Alignment explanation
Indices: 47304--47492 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
47294 TTGTGCGTGA
*
47304 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
47337 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
47369 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
47409 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
47443 GCCTCGGTCACCATCGGCAAACCCA--CGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
47473 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
47493 CCCGGGCCAT
Statistics
Matches: 130, Mismatches: 17, Indels: 21
0.77 0.10 0.12
Matches are distributed among these distances:
30 19 0.15
31 5 0.04
32 22 0.17
33 54 0.42
34 2 0.02
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:47421 original size:106 final size:103
Alignment explanation
Indices: 47296--47513 Score: 382
Period size: 106 Copynumber: 2.1 Consensus size: 103
47286 CAGGCCGCTT
*
47296 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
47361 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 --ACGGGTGTCTCGGTCACCATCGGCAA-CCCGGGCCATTG
*
47402 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
47467 ACGGGTGTCTCGGTCACCATCGGCAACCCGGGCCATTG
66 ACGGGTGTCTCGGTCACCATCGGCAACCCGGGCCATTG
47505 GTGCGGGAG
1 GTGCGGGAG
47514 TGCCGCACAG
Statistics
Matches: 109, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 21 0.19
104 25 0.23
106 63 0.58
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.16
Consensus pattern (103 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
ACGGGTGTCTCGGTCACCATCGGCAACCCGGGCCATTG
Found at i:47895 original size:11 final size:11
Alignment explanation
Indices: 47881--47912 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
47871 TCCCGGTGGT
47881 GCTCCGGCGAC
1 GCTCCGGCGAC
*
47892 GCTCCGGCGAT
1 GCTCCGGCGAC
47903 GCTCCGGCGA
1 GCTCCGGCGA
47913 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:56005 original size:31 final size:33
Alignment explanation
Indices: 55932--56015 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
55922 GTGTGCGTGC
* * *
55932 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
55965 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
55996 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
56016 CCCCGGCCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 19 0.41
32 3 0.07
33 24 0.52
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.17
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:56106 original size:168 final size:170
Alignment explanation
Indices: 55796--56374 Score: 1024
Period size: 168 Copynumber: 3.4 Consensus size: 170
55786 ACGTGTGCGT
**
55796 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
55861 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
55925 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
55965 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
56028 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
56093 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
56133 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
56198 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
56262 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
56302 GCCTCGGTCACCATCGGCAAACCCAGAC-GGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
56366 GTGCGGGAG
66 GTGCGGGAG
56375 CCTCGGTCAC
Statistics
Matches: 394, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
167 50 0.13
168 157 0.40
169 125 0.32
170 62 0.16
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:56176 original size:32 final size:33
Alignment explanation
Indices: 56100--56184 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
56090 GTGTGCGTGA
* *
56100 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
56133 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
56165 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
56185 CCCCGGGCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
32 19 0.40
33 29 0.60
ACGTcount: A:0.20, C:0.35, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
Found at i:56311 original size:33 final size:33
Alignment explanation
Indices: 56269--56458 Score: 188
Period size: 33 Copynumber: 5.6 Consensus size: 33
56259 TTGTGCGTGA
*
56269 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
56302 GCCTCGGTCACCATCGGCAAACCCAGAC-GGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
56333 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
56373 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
56407 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
56439 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
56459 CCCCGGGCCA
Statistics
Matches: 129, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
31 22 0.17
32 23 0.18
33 55 0.43
34 2 0.02
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 22 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:56384 original size:105 final size:106
Alignment explanation
Indices: 56261--56480 Score: 406
Period size: 105 Copynumber: 2.1 Consensus size: 106
56251 CAGGCCGCTT
*
56261 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
56326 AGAC-GGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
56366 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
56431 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
56472 GTGCGGGAG
1 GTGCGGGAG
56481 TGCCGCACAG
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
105 67 0.60
106 44 0.40
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:56542 original size:137 final size:137
Alignment explanation
Indices: 56092--56549 Score: 535
Period size: 137 Copynumber: 3.4 Consensus size: 137
56082 AGGCCCCCGT
* * *
56092 GTGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAACCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
56157 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
*
56222 AGCGTTG
131 GGCGTTG
* * ** *
56229 GTGCGGGAGTCTCGGTCACCATCAGGC--CGCTTGTGC--GTGAGCCTCGGTCACCATCGGCAAT
1 GTGCGGGAGCCTCGGTCACCATC-GGCAACCCCAG-GCGGGTG-GCCTCGGTCACCATCGGCAAA
* * * * * **
56290 CCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC-AG--A-CGGTGTCTCG-GT-CAC-CATC
63 CCCAGACGGGT-GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTG-CGGGAGTGC-CGCA-C
* *
56348 GGTAACCCCGGGCCATTG
124 AG-AA--CCGGG-CGTTG
**
56366 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAACCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
56431 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
56496 GGCGTTG
131 GGCGTTG
* *
56503 GTGCGGGAGCCTCGGTCACCATCGGCAACCCCCGACGGGT-GCCTCGG
1 GTGCGGGAGCCTCGGTCACCATCGGCAACCCCAGGCGGGTGGCCTCGG
56550 CAACCCCAGG
Statistics
Matches: 263, Mismatches: 36, Indels: 45
0.76 0.10 0.13
Matches are distributed among these distances:
132 3 0.01
133 9 0.03
134 5 0.02
135 3 0.01
136 47 0.18
137 135 0.51
138 41 0.16
139 3 0.01
140 5 0.02
141 9 0.03
142 3 0.01
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (137 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAACCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGTGCCGCACAGAACCG
GGCGTTG
Found at i:56862 original size:11 final size:11
Alignment explanation
Indices: 56846--56877 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
56836 TTCCCGTGGT
56846 GCTCCGGCGAC
1 GCTCCGGCGAC
*
56857 GCTCCGGCGAT
1 GCTCCGGCGAC
56868 GCTCCGGCGA
1 GCTCCGGCGA
56878 GACATTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (11 bp):
GCTCCGGCGAC
Done.