Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009507.1 Hibiscus syriacus cultivar Beakdansim tig00115246_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: 57655
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.22
Found at i:7151 original size:32 final size:33
Alignment explanation
Indices: 7075--7159 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
7065 GTGTGCGTGC
* * *
7075 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
7108 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
7140 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
7160 CCCCGCCATT
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:7319 original size:32 final size:33
Alignment explanation
Indices: 7243--7327 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
7233 GTGTGCGTGA
* *
7243 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
7276 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
7308 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
7328 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:7454 original size:33 final size:33
Alignment explanation
Indices: 7412--7602 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
7402 TTGTGCGTGA
*
7412 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
7445 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
7477 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
7517 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
7551 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
7583 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
7603 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:7475 original size:169 final size:170
Alignment explanation
Indices: 6939--7518 Score: 1033
Period size: 169 Copynumber: 3.4 Consensus size: 170
6929 ACGTGTGCGT
**
6939 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
7004 GTGC-GGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
7068 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
7108 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC--GCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
7171 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
7236 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
7276 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
7341 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
7405 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
7445 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
7510 GTGCGGGAG
66 GTGCGGGAG
7519 CCTCGGTCAC
Statistics
Matches: 395, Mismatches: 13, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
167 11 0.03
168 152 0.38
169 171 0.43
170 61 0.15
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:7486 original size:65 final size:66
Alignment explanation
Indices: 7412--7602 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 66
7402 TTGTGCGTGA
*
7412 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
7477 -
66 G
* * * * * **
7477 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
7542 AGGCGGGTG
58 AGACGGGTG
* *
7551 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
7603 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:7529 original size:106 final size:106
Alignment explanation
Indices: 7404--7624 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
7394 CAGGCCGCTT
*
7404 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
7469 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
7510 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
7575 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
7616 GTGCGGGAG
1 GTGCGGGAG
7625 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:8008 original size:11 final size:11
Alignment explanation
Indices: 7994--8025 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
7984 TCCCGGTGGT
7994 GCTCCGGCGAC
1 GCTCCGGCGAC
*
8005 GCTCCGGCGAT
1 GCTCCGGCGAC
8016 GCTCCGGCGA
1 GCTCCGGCGA
8026 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:16166 original size:32 final size:33
Alignment explanation
Indices: 16090--16174 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
16080 GTGTGCGTGC
* * *
16090 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
16123 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
16155 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
16175 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:16236 original size:169 final size:170
Alignment explanation
Indices: 15953--16534 Score: 1051
Period size: 169 Copynumber: 3.4 Consensus size: 170
15943 ACGTGTGCGT
**
15953 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
16018 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
16083 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
16123 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
16187 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
16252 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
16292 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* * *
16357 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCGCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
16421 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
16461 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
16526 GTGCGGGAG
66 GTGCGGGAG
16535 CCTCGGTCAC
Statistics
Matches: 398, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
169 282 0.71
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:16335 original size:32 final size:33
Alignment explanation
Indices: 16259--16343 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
16249 GTGTGCGTGA
* *
16259 GCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
16292 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
16324 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
16344 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:16470 original size:33 final size:33
Alignment explanation
Indices: 16428--16618 Score: 197
Period size: 33 Copynumber: 5.6 Consensus size: 33
16418 TTGTGCGTGA
*
16428 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
16461 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * * *
16493 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
16533 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
16567 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
16599 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
16619 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:16502 original size:65 final size:66
Alignment explanation
Indices: 16428--16618 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 66
16418 TTGTGCGTGA
*
16428 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
16493 -
66 G
* * * * * **
16493 GTCTCGGTCACCATCGGTAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
16558 AGGCGGGTG
58 AGACGGGTG
* *
16567 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
16619 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:16545 original size:106 final size:106
Alignment explanation
Indices: 16420--16640 Score: 415
Period size: 106 Copynumber: 2.1 Consensus size: 106
16410 CAGGCCGCTT
*
16420 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
*
16485 AGACGGGTGTCTCGGTCACCATCGGTAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
16526 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
16591 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
16632 GTGCGGGAG
1 GTGCGGGAG
16641 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:17024 original size:11 final size:11
Alignment explanation
Indices: 17010--17041 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17000 TCCCGGTGGT
17010 GCTCCGGCGAC
1 GCTCCGGCGAC
*
17021 GCTCCGGCGAT
1 GCTCCGGCGAC
17032 GCTCCGGCGA
1 GCTCCGGCGA
17042 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:30935 original size:32 final size:33
Alignment explanation
Indices: 30859--30943 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
30849 GTGTGCGTGC
* * *
30859 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
30892 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
30924 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
30944 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:31071 original size:32 final size:31
Alignment explanation
Indices: 31028--31113 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 31
31018 GTGTGCGTGA
* * *
31028 GCCTCGG-CACCATCGGCAATCCGGGCGGGT
1 GCCTCGGTCACCATCGGCAACCCAGACGGGT
31058 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGC-AACCCAGACGGGT
*
31091 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
31114 CGGGCCATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
31 12 0.24
32 27 0.55
33 10 0.20
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.14
Consensus pattern (31 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGT
Found at i:31158 original size:168 final size:169
Alignment explanation
Indices: 30722--31300 Score: 1031
Period size: 168 Copynumber: 3.4 Consensus size: 169
30712 ACGTGTGCGT
**
30722 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
30787 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
30852 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
30892 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
30956 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
31021 TGCGTGAGCCTCGG-CACCATCGGCAATCCGGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTG
31059 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
31124 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG--CCCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
31187 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAAT-CCAGGCGGGTG
31227 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
31292 GTGCGGGAG
66 GTGCGGGAG
31301 CCTCGGTCAC
Statistics
Matches: 394, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
166 19 0.05
167 77 0.20
168 160 0.41
169 84 0.21
170 54 0.14
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (169 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTG
Found at i:31236 original size:33 final size:33
Alignment explanation
Indices: 31194--31384 Score: 206
Period size: 33 Copynumber: 5.6 Consensus size: 33
31184 TTGTGCGTGA
*
31194 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
31227 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
* * * *
31259 GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGG
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG
**
31299 AGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTG
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
31333 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
*
31365 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
31385 CCCCGGGCCA
Statistics
Matches: 133, 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 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 23 0.17
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTG
Found at i:31277 original size:65 final size:66
Alignment explanation
Indices: 31194--31384 Score: 206
Period size: 65 Copynumber: 2.8 Consensus size: 66
31184 TTGTGCGTGA
*
31194 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
31259 -
66 G
* * * * **
31259 GTCTCGGTCACCATCGGCAACCCCGGGCCATTGGTGCGGGAGCCTCGGTCACCATCGGCAGTCCC
1 GCCTCGGTCACCATCGGCAAACCCAGG-C----G-G-GTG-GCCTCGGTCACCATCGGCAAACCC
*
31324 AGGCGGGTG
58 AGACGGGTG
* *
31333 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAA
31385 CCCCGGGCCA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
65 42 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 0.29
74 23 0.22
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.15
Consensus pattern (66 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGT
G
Found at i:31371 original size:106 final size:106
Alignment explanation
Indices: 31186--31403 Score: 418
Period size: 106 Copynumber: 2.1 Consensus size: 106
31176 TCAGGCCCTT
*
31186 GTGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
31251 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
*
31292 GTGCGGGAGCCTCGGTCACCATCGGCAGTCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
1 GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
31357 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
66 AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
31398 GTGCGG
1 GTGCGG
31404 AGTGCCGCAC
Statistics
Matches: 110, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 110 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (106 bp):
GTGCGGGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCC
AGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
Found at i:31788 original size:11 final size:11
Alignment explanation
Indices: 31774--31805 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
31764 TCCCGGTGGT
31774 GCTCCGGCGAC
1 GCTCCGGCGAC
*
31785 GCTCCGGCGAT
1 GCTCCGGCGAC
31796 GCTCCGGCGA
1 GCTCCGGCGA
31806 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:39939 original size:32 final size:33
Alignment explanation
Indices: 39863--39947 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
39853 GTGTGCGTGC
* * *
39863 GCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
39896 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGTG
*
39928 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
39948 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:40075 original size:31 final size:31
Alignment explanation
Indices: 40032--40117 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
40022 GTGTGCGTGA
* * * *
40032 GCCTCGGACACCATCGGCAATCCTG-GGGGT
1 GCCTCGGTCACCATCGGCAACCCAGACGGGT
40062 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGC-AACCCAGACGGGT
*
40095 GTCTCGGTCACCATCGGCAACCC
1 GCCTCGGTCACCATCGGCAACCC
40118 CGGGCCATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 22 0.46
32 22 0.46
33 4 0.08
ACGTcount: A:0.19, C:0.37, G:0.29, T:0.15
Consensus pattern (31 bp):
GCCTCGGTCACCATCGGCAACCCAGACGGGT
Found at i:40126 original size:168 final size:168
Alignment explanation
Indices: 39727--40303 Score: 1000
Period size: 168 Copynumber: 3.4 Consensus size: 168
39717 ACGTGTGCGT
**
39727 GCCTCGGTCACCATCGGCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
39792 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
39856 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAATCC-AGGCGGGTG
39896 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
* *
39961 TGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
66 TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
* *
40026 GCGTGAGCCTCGGACACCATCGGCAATCCTGG-GGGTG
131 GCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTG
40063 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
* *
40128 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG--CCCTTG
65 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
40191 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
130 TGCGTGAGCCTCGGTCACCATCGGCAAT-CCAGGCGGGTG
40231 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
40296 TGCGGGAG
66 TGCGGGAG
40304 CCTCGGTCAC
Statistics
Matches: 390, Mismatches: 14, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
166 32 0.08
167 82 0.21
168 175 0.45
169 101 0.26
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (168 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGCCATTGG
TGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTGT
GCGTGAGCCTCGGTCACCATCGGCAATCCAGGCGGGTG
Found at i:40274 original size:32 final size:33
Alignment explanation
Indices: 40198--40282 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
40188 TTGTGCGTGA
* *
40198 GCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
40231 GCCTCGGTCACCATCGGCAAACCCAGACGGGT-
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
*
40263 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
40283 CCCCGGCCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 19 0.39
33 30 0.61
ACGTcount: A:0.19, C:0.36, G:0.29, T:0.15
Consensus pattern (33 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTG
Found at i:40399 original size:32 final size:33
Alignment explanation
Indices: 40331--40407 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
40321 CGTGAGCCTC
** *
40331 CACCATCGGCAGTCCCAGGCGGGTGGCCTCGGT
1 CACCATCGGCAAACCCAGACGGGTGGCCTCGGT
*
40364 CACCATCGGCAAACCCAGACGGGT-GTCTCGGT
1 CACCATCGGCAAACCCAGACGGGTGGCCTCGGT
40396 CACCATCGGCAA
1 CACCATCGGCAA
40408 CCCCGGGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 19 0.47
33 21 0.52
ACGTcount: A:0.19, C:0.36, G:0.30, T:0.14
Consensus pattern (33 bp):
CACCATCGGCAAACCCAGACGGGTGGCCTCGGT
Found at i:40812 original size:11 final size:11
Alignment explanation
Indices: 40798--40829 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
40788 TCCCGGTGGT
40798 GCTCCGGCGAC
1 GCTCCGGCGAC
40809 GCTCCGGCGAC
1 GCTCCGGCGAC
40820 GCTCCGGCGA
1 GCTCCGGCGA
40830 GACATTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.44, G:0.38, T:0.09
Consensus pattern (11 bp):
GCTCCGGCGAC
Found at i:48908 original size:33 final size:32
Alignment explanation
Indices: 48871--48955 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 32
48861 GTGTGCGTGC
* * *
48871 GCCTCGGTCACCATCGGTAATCCAAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCAAGACGGGT
* *
48903 GGCCTCGGTCACCATCGACAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCAAGACGGGT
*
48936 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
48956 CCCCGGCCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
32 18 0.40
33 27 0.60
ACGTcount: A:0.21, C:0.34, G:0.28, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCAAGACGGGT
Found at i:49018 original size:168 final size:170
Alignment explanation
Indices: 48736--49312 Score: 988
Period size: 168 Copynumber: 3.4 Consensus size: 170
48726 ACGTGTGCGT
**
48736 GCCTCGGTCACCATC-GCAAAAACAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
48800 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTC-GTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* *
48864 TGCGTGCGCCTCGGTCACCATCGGTAATCCAAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
*
48904 GCCTCGGTCACCATCGACAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCC-GGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
48968 GTGCGGGAGTGCCGCACAGTACCGAGCTTTGGTGC-GGAGCCTCGGTCACCATCAGGCCCCCGTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
* **
49032 TGCGTGAGCCTCGGACACCATCGGCAATCCTGGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
49072 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGG-CACCATCGGCAACCCCGGGCCATTG
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
* *
49136 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGTCTCGGTCACCATCAGG-CCCCTTG
66 GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
*
49200 TGCGTGAGCCTCGGTCACCATCGGCAATCCCAGGCGGGTG
131 TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
49240 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATT-
1 GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
49304 GTGCGGGAG
66 GTGCGGGAG
49313 CCTCGGTCAC
Statistics
Matches: 386, Mismatches: 18, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
167 24 0.06
168 281 0.73
169 81 0.21
ACGTcount: A:0.17, C:0.34, G:0.33, T:0.16
Consensus pattern (170 bp):
GCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCCCGGGCCATTG
GTGCGGGAGTGCCGCACAGAACCGAGCGTTGGTGCGGGAGCCTCGGTCACCATCAGGCCCCCGTG
TGCGTGAGCCTCGGTCACCATCGGCAATCCAAGGCGGGTG
Found at i:49076 original size:33 final size:31
Alignment explanation
Indices: 49039--49122 Score: 96
Period size: 33 Copynumber: 2.6 Consensus size: 31
49029 GTGTGCGTGA
* ** *
49039 GCCTCGGACACCATCGGCAATCCTGGGCGGGT
1 GCCTCGG-CACCATCGGCAAACCCAGACGGGT
49071 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGG-CACCATCGGCAAACCCAGACGGGT
*
49104 GTCTCGGCACCATCGGCAA
1 GCCTCGGCACCATCGGCAA
49123 CCCCGGGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 12 0.27
32 6 0.13
33 27 0.60
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.14
Consensus pattern (31 bp):
GCCTCGGCACCATCGGCAAACCCAGACGGGT
Found at i:49283 original size:32 final size:32
Alignment explanation
Indices: 49207--49424 Score: 178
Period size: 32 Copynumber: 6.6 Consensus size: 32
49197 TTGTGCGTGA
*
49207 GCCTCGGTCACCATCGGCAATCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
49239 GGCCTCGGTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
* * *
49272 GTCTCGGTCACCATCGGCAACCCCGGGCCATTGTGCGGGA
1 GCCTCGGTCACCATCGGCAA--AC---CCA--G-GCGGGT
* * *
49312 GCCTCGGTCACCA--GGC---CCCTTGTGCGTGA
1 GCCTCGGTCACCATCGGCAAACCC-AG-GCGGGT
**
49341 GCCTCGGTCACCATCGGCAGTCCCAGGCGGGT
1 GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
49373 GGCCTC-GTCACCATCGGCAAACCCAGACGGGT
1 -GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
*
49405 GTCTCGGTCACCATCGGCAA
1 GCCTCGGTCACCATCGGCAA
49425 CCCCGGGCCA
Statistics
Matches: 153, Mismatches: 16, Indels: 33
0.76 0.08 0.16
Matches are distributed among these distances:
29 20 0.13
30 2 0.01
31 7 0.05
32 60 0.39
33 37 0.24
34 4 0.03
37 3 0.02
38 3 0.02
39 1 0.01
40 16 0.10
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.16
Consensus pattern (32 bp):
GCCTCGGTCACCATCGGCAAACCCAGGCGGGT
Found at i:49434 original size:133 final size:137
Alignment explanation
Indices: 49164--49443 Score: 505
Period size: 134 Copynumber: 2.1 Consensus size: 137
49154 GAACCGAGCG
*
49164 TTGGTGCGGGAGTCTCGGTCACCATCAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
1 TTGGTGCGGGAGCCTCGGTCACCA-CAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATC
49229 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
65 CCAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACC
49294 CCGGGCCA
130 CCGGGCCA
*
49302 TT-GTGCGGGAGCCTCGGTCA-C-CAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAGTCC
1 TTGGTGCGGGAGCCTCGGTCACCACAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCC
49364 CAGGCGGGTGGCCTC-GTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCC
66 CAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCC
49428 CGGGCCA
131 CGGGCCA
49435 TTGGTGCGG
1 TTGGTGCGG
49444 TAGTGCCGCA
Statistics
Matches: 139, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
133 58 0.42
134 61 0.44
136 1 0.01
137 17 0.12
138 2 0.01
ACGTcount: A:0.15, C:0.35, G:0.32, T:0.17
Consensus pattern (137 bp):
TTGGTGCGGGAGCCTCGGTCACCACAGGCCCCTTGTGCGTGAGCCTCGGTCACCATCGGCAATCC
CAGGCGGGTGGCCTCGGTCACCATCGGCAAACCCAGACGGGTGTCTCGGTCACCATCGGCAACCC
CGGGCCA
Found at i:49827 original size:11 final size:11
Alignment explanation
Indices: 49813--49844 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
49803 TCCCGGTGGT
49813 GCTCCGGCGAC
1 GCTCCGGCGAC
49824 GCTCCGGCGAC
1 GCTCCGGCGAC
49835 GCTCCGGCGA
1 GCTCCGGCGA
49845 GACATTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.09, C:0.44, G:0.38, T:0.09
Consensus pattern (11 bp):
GCTCCGGCGAC
Done.