Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 57 of 318
Found at i:16234049 original size:16 final size:16
Alignment explanation
Indices: 16234017--16234054 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16234007 TAACATATCG
*
16234017 TTCAT-TATCATATAT
1 TTCATATATCATACAT
*
16234032 TTCATATATCGTACAT
1 TTCATATATCATACAT
16234048 TTCATAT
1 TTCATAT
16234055 CAAATTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (16 bp):
TTCATATATCATACAT
Found at i:16237341 original size:40 final size:39
Alignment explanation
Indices: 16237255--16237366 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
16237245 GCTGGTAATT
*
16237255 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
* *
16237294 TACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-
1 -ACATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGAC
* *
16237336 A-ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGC
16237367 GGGTTACCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 57 0.90
41 1 0.02
43 5 0.08
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
Found at i:16250890 original size:40 final size:40
Alignment explanation
Indices: 16250782--16251031 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
16250772 CGGGATTTAA
* * * * *
16250782 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
16250822 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
16250862 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
16250902 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
16250942 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
16250982 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
16251022 CCGGATATAT
1 CCGGATATAT
16251032 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:16253237 original size:47 final size:47
Alignment explanation
Indices: 16253168--16253464 Score: 445
Period size: 47 Copynumber: 6.4 Consensus size: 47
16253158 CCCTTCGGGA
* * * *
16253168 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16253215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
16253262 CTTATCACATATATACACTTTCACATTCATCACA-TGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
16253308 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
16253354 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
16253401 CTTATCACACATATGCACTTTCACATTCATCACATGGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
16253448 TTTATCACATATATACA
1 CTTATCACATATATACA
16253465 TATCACACAT
Statistics
Matches: 234, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
46 89 0.38
47 145 0.62
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:16253287 original size:38 final size:40
Alignment explanation
Indices: 16253244--16253426 Score: 111
Period size: 46 Copynumber: 4.2 Consensus size: 40
16253234 TTCACATTCA
*
16253244 TCACAT-C-GGCCATTAGGCCTTATCACATATATACACTT
1 TCACATACAGGCCATTAGGCCTTATCACACATATACACTT
*
16253282 TCACATTCATCACATGGCCATTAGGCCTTATCACACATATGCACTT
1 T--CA--CAT-ACA-GGCCATTAGGCCTTATCACACATATACACTT
* *
16253328 TCACATTCATCACATTGGCCATTCGG-CTTATCACACATATGCACTT
1 T--CA--CAT-ACA--GGCCATTAGGCCTTATCACACATATACACTT
* *
16253374 TCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTT
1 T--CA--CAT-ACA--GGCCATTAGGCCTTATCACACATATACACTT
16253421 TCACAT
1 TCACAT
16253427 TCATCACATG
Statistics
Matches: 132, Mismatches: 3, Indels: 15
0.88 0.02 0.10
Matches are distributed among these distances:
38 1 0.01
40 2 0.02
42 3 0.02
43 3 0.02
44 1 0.01
45 2 0.02
46 89 0.67
47 31 0.23
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (40 bp):
TCACATACAGGCCATTAGGCCTTATCACACATATACACTT
Found at i:16253337 original size:93 final size:94
Alignment explanation
Indices: 16253168--16253464 Score: 472
Period size: 93 Copynumber: 3.2 Consensus size: 94
16253158 CCCTTCGGGA
* * * * *
16253168 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
16253233 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
16253262 CTTATCACATATATACACTTTCACATTCATCACA-TGGCCATTAGGCCTTATCACACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
* *
16253326 TTTCACATTCATCACATTGGCCATTCGG-
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
16253354 CTTATCACACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
*
16253419 TTTCACATTCATCACATGGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
16253448 TTTATCACATATATACA
1 CTTATCACATATATACA
16253465 TATCACACAT
Statistics
Matches: 185, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 32 0.17
93 107 0.58
94 46 0.25
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:16253514 original size:48 final size:48
Alignment explanation
Indices: 16253438--16253620 Score: 305
Period size: 48 Copynumber: 3.8 Consensus size: 48
16253428 CATCACATGG
* * *
16253438 GCCATTAGGCTTTATCACATATATACATATCACACATATATTCCACATTA
1 GCCATTCGGCTTTA-C-CACATATACATATCACACATATATTTCACATTA
16253488 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
*
16253536 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCA
1 GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
16253584 GCCATTCGGC-TTACCACATATACATATCACACATATA
1 GCCATTCGGCTTTACCACATATACATATCACACATATA
16253621 CTTATTTATC
Statistics
Matches: 129, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
47 27 0.21
48 88 0.68
49 1 0.01
50 13 0.10
ACGTcount: A:0.34, C:0.27, G:0.07, T:0.32
Consensus pattern (48 bp):
GCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTA
Found at i:16256830 original size:40 final size:40
Alignment explanation
Indices: 16256773--16257094 Score: 509
Period size: 40 Copynumber: 8.1 Consensus size: 40
16256763 CGAATACACG
* * ** *
16256773 TCACCAGCATGATTGCTCTTCGGGGTTTAGCACGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
16256813 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
16256853 TCACTAGCATGAATGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
16256893 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
16256933 TCACTAGCATGAATGCTCTTCGGGACTTAGCCGGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
16256973 TCACTAGCATGAATGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
16257013 TCACTAGCATGAATTCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
16257053 TCACTAGCATGAATGCCCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
16257093 TC
1 TC
16257095 GTCGAGACCT
Statistics
Matches: 260, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 260 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:16259764 original size:47 final size:47
Alignment explanation
Indices: 16259695--16259876 Score: 294
Period size: 47 Copynumber: 3.9 Consensus size: 47
16259685 CCCTTCGGGA
* * *
16259695 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
*
16259742 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
* *
16259788 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
*
16259835 CTTATCACATATATACACTTTCACATTCATCACATTCGCCAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCAC
16259877 ATATGCACTT
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 45 0.36
47 81 0.64
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTAGGC
Found at i:16259854 original size:93 final size:93
Alignment explanation
Indices: 16259695--16259875 Score: 308
Period size: 93 Copynumber: 1.9 Consensus size: 93
16259685 CCCTTCGGGA
* * *
16259695 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
*
16259760 TTTCACATTCATCACATTGGCCATTAGC
66 TTTCACATTCATCACATTCGCCATTAGC
* *
16259788 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
16259853 TTTCACATTCATCACATTCGCCA
66 TTTCACATTCATCACATTCGCCA
16259876 CATATGCACT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 82 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (93 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTCGCCATTAGC
Found at i:16259888 original size:32 final size:32
Alignment explanation
Indices: 16259845--16259907 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
16259835 CTTATCACAT
16259845 ATATACACTTTCACATTCATCACATTCGCCAC
1 ATATACACTTTCACATTCATCACATTCGCCAC
* *
16259877 ATATGCACTTTCACATTCATCACATTGGCCA
1 ATATACACTTTCACATTCATCACATTCGCCA
16259908 TTCGGCCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.32, G:0.06, T:0.32
Consensus pattern (32 bp):
ATATACACTTTCACATTCATCACATTCGCCAC
Found at i:16259895 original size:79 final size:79
Alignment explanation
Indices: 16259798--16259954 Score: 260
Period size: 79 Copynumber: 2.0 Consensus size: 79
16259788 CTTATCACAT
*
16259798 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
16259863 ATCACATTCGCCAC
66 ATCACATTCGCCAC
* * * *
16259877 ATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
*
16259942 ATCACATTGGCCA
66 ATCACATTCGCCA
16259955 TTCGGCCTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (79 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTC
ATCACATTCGCCAC
Found at i:16259900 original size:23 final size:23
Alignment explanation
Indices: 16259864--16259948 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
16259854 TTCACATTCA
**
16259864 TCACATTCGCCACATATGCACTT
1 TCACATTCATCACATATGCACTT
*
16259887 TCACATTCATCACAT-TGGC-CAT
1 TCACATTCATCACATAT-GCACTT
* *
16259909 TCGGCCTT-ATCACACATATGCACTT
1 TC-ACATTCAT--CACATATGCACTT
16259934 TCACATTCATCACAT
1 TCACATTCATCACAT
16259949 TGGCCATTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 14
0.68 0.12 0.20
Matches are distributed among these distances:
22 7 0.15
23 23 0.49
24 10 0.21
25 7 0.15
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.32
Consensus pattern (23 bp):
TCACATTCATCACATATGCACTT
Found at i:16259921 original size:22 final size:22
Alignment explanation
Indices: 16259895--16259969 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
16259885 TTTCACATTC
16259895 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
16259917 ATCACACATAT-GCACTTTC-ACATT
1 AT--CACAT-TGGC-CATTCGGCCTT
16259941 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
16259964 ATCACA
1 ATCACA
16259970 CATATGTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 10 0.25
25 7 0.17
ACGTcount: A:0.25, C:0.32, G:0.12, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:16259931 original size:47 final size:47
Alignment explanation
Indices: 16259874--16260015 Score: 234
Period size: 47 Copynumber: 3.0 Consensus size: 47
16259864 TCACATTCGC
16259874 CACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
16259921 CACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
16259968 CACATATGTACTTTCACATTCAACACA-TGGTCCATTAGG-CTTATCA
1 CACATATGCACTTTCACATTCATCACATTGG-CCATTCGGCCTTATCA
16260014 CA
1 CA
16260016 TATGCATATC
Statistics
Matches: 91, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
46 12 0.13
47 79 0.87
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
CACATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
Found at i:16259981 original size:126 final size:125
Alignment explanation
Indices: 16259752--16259995 Score: 389
Period size: 126 Copynumber: 1.9 Consensus size: 125
16259742 CTTATCACAT
*
16259752 ATATACACTTTCACATTCATCACATTGGCCATTAGCCTTATCACATATATACACTTTCACATTCA
1 ATATACACTTTCACATTCATCACATTGGCCATTAGCCTTATCACACATATACACTTTCACATTCA
* *
16259817 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTCGCCAC
66 TCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAACACATTCGCCAC
* * *
16259877 ATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTC
1 ATATACACTTTCACATTCATCACATTGGCCATT-AGCCTTATCACACATATACACTTTCACATTC
* * **
16259942 ATCACATTGGCCATTCGGCCTTATCACACATATGTACTTTCACATTCAACACAT
65 ATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAACACAT
16259996 GGTCCATTAG
Statistics
Matches: 108, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
125 32 0.30
126 76 0.70
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (125 bp):
ATATACACTTTCACATTCATCACATTGGCCATTAGCCTTATCACACATATACACTTTCACATTCA
TCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCAACACATTCGCCAC
Found at i:16260041 original size:46 final size:47
Alignment explanation
Indices: 16259999--16260175 Score: 295
Period size: 46 Copynumber: 3.8 Consensus size: 47
16259989 AACACATGGT
* * *
16259999 CCATTAGGC-TTATCACATATGCATATCACACATATATTCACATTAG
1 CCATTCGGCTTTACCACATATACATATCACACATATATTCACATTAG
16260045 CCATTCGGCTTTACCACATATACATATCACACATAT-TTCACATTAG
1 CCATTCGGCTTTACCACATATACATATCACACATATATTCACATTAG
*
16260091 CCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCAG
1 CCATTCGGCTTTACCACATATACATATCACACATATA-TTCACATTAG
16260139 CCATTCGGCTTTACCACATATACATATCACACATATA
1 CCATTCGGCTTTACCACATATACATATCACACATATA
16260176 CTTATTTATC
Statistics
Matches: 124, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
46 54 0.44
47 24 0.19
48 46 0.37
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.32
Consensus pattern (47 bp):
CCATTCGGCTTTACCACATATACATATCACACATATATTCACATTAG
Found at i:16260042 original size:172 final size:172
Alignment explanation
Indices: 16259710--16260047 Score: 477
Period size: 172 Copynumber: 2.0 Consensus size: 172
16259700 CACATTTATA
*
16259710 CACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACACATATACACTTTCACATTCATCAC
* *
16259775 ATTGGCCATTAGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 ATTGGCCATTAGCCTTATCACACATATACACTTTCACATTCAACACATCGGCCATTAGGCCTTAT
* ** *
16259840 CACATATATACACTTTCACATTCATCACATTCGCCACATATG
131 CACATATACACACTCACACATTCATCACATTAGCCACATATG
* * *
16259882 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACACATATACACTTTCACATTCATCAC
* **
16259947 ATTGGCCATTCGGCCTTATCACACATATGTACTTTCACATTCAACACAT-GGTCCATTAGG-CTT
66 ATTGGCCATT-AGCCTTATCACACATATACACTTTCACATTCAACACATCGG-CCATTAGGCCTT
* *
16260010 ATCACATATGCATA-TCACACATAT-ATTCACATTAGCCA
129 ATCACATATACACACTCACACAT-TCA-TCACATTAGCCA
16260048 TTCGGCTTTA
Statistics
Matches: 147, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
171 7 0.05
172 99 0.67
173 41 0.28
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (172 bp):
CACTTTCACATCCATCACATTGGCCACTCGGCCTTATCACACATATACACTTTCACATTCATCAC
ATTGGCCATTAGCCTTATCACACATATACACTTTCACATTCAACACATCGGCCATTAGGCCTTAT
CACATATACACACTCACACATTCATCACATTAGCCACATATG
Found at i:16260153 original size:94 final size:92
Alignment explanation
Indices: 16259999--16260174 Score: 298
Period size: 94 Copynumber: 1.9 Consensus size: 92
16259989 AACACATGGT
* * *
16259999 CCATTAGGCTTATCACATATGCATATCACACATATATTCACATTAGCCATTCGGCTTTACCACAT
1 CCATTAGGCTTACCACATATACATATCACACATATATTCACATCAGCCATTCGGCTTTACCACAT
16260064 ATACATATCACACATATTTCACATTAG
66 ATACATATCACACATATTTCACATTAG
*
16260091 CCATTCGGCTTTACCACATATACATATCACACATATATTTCACATCAGCCATTCGGCTTTACCAC
1 CCATTAGGC-TTACCACATATACATATCACACATATA-TTCACATCAGCCATTCGGCTTTACCAC
16260156 ATATACATATCACACATAT
64 ATATACATATCACACATAT
16260175 ACTTATTTAT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 8 0.10
93 25 0.32
94 45 0.58
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.32
Consensus pattern (92 bp):
CCATTAGGCTTACCACATATACATATCACACATATATTCACATCAGCCATTCGGCTTTACCACAT
ATACATATCACACATATTTCACATTAG
Found at i:16266038 original size:33 final size:33
Alignment explanation
Indices: 16265981--16266131 Score: 153
Period size: 33 Copynumber: 4.5 Consensus size: 33
16265971 ACATCATCAG
* *
16265981 TCCAACCAAACACACCAGATGCTCACTCA-AGCCAA
1 TCCAACC-ATCACACCA-ATGCTCA-TAAGAGCCAA
* * *
16266016 TCTATCCATCACACCAATGCTCATAAGAGCTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCCAA
*
16266049 TCCAACCATCACACCAATGCTCATAAGAGCTAA
1 TCCAACCATCACACCAATGCTCATAAGAGCCAA
* * *
16266082 ACCAACCATCATACCAATGCTCATACA-AGCTAA
1 TCCAACCATCACACCAATGCTCATA-AGAGCCAA
* *
16266115 TCCAACTAGCACACCAA
1 TCCAACCATCACACCAA
16266132 ATAGAGAGTA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
32 2 0.02
33 85 0.84
34 9 0.09
35 5 0.05
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (33 bp):
TCCAACCATCACACCAATGCTCATAAGAGCCAA
Found at i:16267230 original size:27 final size:27
Alignment explanation
Indices: 16267169--16267221 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16267159 TCATACATCT
** *
16267169 CATAGGGTAATAATAGTCATTTTATCA
1 CATAGGGGCATAATAGCCATTTTATCA
16267196 CATAGGGGCATAATAGCCATTTTATC
1 CATAGGGGCATAATAGCCATTTTATC
16267222 GATTAGGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
CATAGGGGCATAATAGCCATTTTATCA
Found at i:16269999 original size:27 final size:27
Alignment explanation
Indices: 16269961--16270023 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
16269951 ATGGTTACAT
16269961 TTCAAACATGCATTATTTTACCTATAA
1 TTCAAACATGCATTATTTTACCTATAA
16269988 TTCAAACATGCATTATTTTACCTATAA
1 TTCAAACATGCATTATTTTACCTATAA
16270015 TTCAAACAT
1 TTCAAACAT
16270024 ACCAAATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (27 bp):
TTCAAACATGCATTATTTTACCTATAA
Found at i:16272580 original size:27 final size:26
Alignment explanation
Indices: 16272535--16272594 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
16272525 CGAGGCTGCT
16272535 AGATATTGTGACGAAGTCACCAGATAC
1 AGATATTGTGACGAAGTCACCAGA-AC
* * * *
16272562 AGATATTGTGGCTAGGTCACCATAAC
1 AGATATTGTGACGAAGTCACCAGAAC
16272588 AGATATT
1 AGATATT
16272595 ATATGTGGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (26 bp):
AGATATTGTGACGAAGTCACCAGAAC
Found at i:16275996 original size:2 final size:2
Alignment explanation
Indices: 16275989--16276013 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16275979 TTTGGCCACA
16275989 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16276014 CACATCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16276084 original size:46 final size:46
Alignment explanation
Indices: 16276016--16276152 Score: 175
Period size: 46 Copynumber: 3.0 Consensus size: 46
16276006 TATATATACA
* * * *
16276016 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
16276062 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * * *
16276108 TAACTCATACACATTTCGCATTAGCCATTCAGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
16276153 ATACATGTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:16283896 original size:27 final size:26
Alignment explanation
Indices: 16283848--16283907 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
16283838 GCGATGCTGC
*
16283848 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
16283875 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
16283901 CAAATAT
1 CAGATAT
16283908 ATACATATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16285731 original size:55 final size:55
Alignment explanation
Indices: 16285660--16285769 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
16285650 ATATTCAAAA
16285660 CATACCAAAATAATGTGCCATAATCATCACAATTTGTTTCATTTCCAAATACATT
1 CATACCAAAATAATGTGCCATAATCATCACAATTTGTTTCATTTCCAAATACATT
16285715 CATACCAAAATAATGTGCCATAATCATCACAATTTGTTTCATTTCCAAATACATT
1 CATACCAAAATAATGTGCCATAATCATCACAATTTGTTTCATTTCCAAATACATT
16285770 AACTCATCAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (55 bp):
CATACCAAAATAATGTGCCATAATCATCACAATTTGTTTCATTTCCAAATACATT
Found at i:16286593 original size:43 final size:43
Alignment explanation
Indices: 16286537--16286652 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
16286527 TAACATATAT
* * * * *
16286537 CGATACCACTGTCCCAGACAGGGTCTTACACGAAATC-GATTAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-A
* * *
16286580 CGATGCCAATGTCCCAAACATGGTCTTACATGTAATCTCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
* *
16286623 CAATGCCAATGTCCTAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
16286653 TGTAATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
Found at i:16290305 original size:15 final size:16
Alignment explanation
Indices: 16290285--16290324 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
16290275 TAAATTGGAA
16290285 AAATGAAAAGTT-ATT
1 AAATGAAAAGTTAATT
* *
16290300 AAATGACAATTTAATT
1 AAATGAAAAGTTAATT
16290316 AAATGAAAA
1 AAATGAAAA
16290325 AGAAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (16 bp):
AAATGAAAAGTTAATT
Found at i:16290566 original size:19 final size:20
Alignment explanation
Indices: 16290530--16290567 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16290520 CATGGATGAA
*
16290530 TATGTTAGAAATATGAAATT
1 TATGGTAGAAATATGAAATT
16290550 TATGGTAGAAA-ATGAAAT
1 TATGGTAGAAATATGAAAT
16290568 ATTGTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (20 bp):
TATGGTAGAAATATGAAATT
Found at i:16297089 original size:27 final size:26
Alignment explanation
Indices: 16297050--16297109 Score: 93
Period size: 27 Copynumber: 2.3 Consensus size: 26
16297040 CCACAAAAAT
*
16297050 ATATCTGTTCTGGTGACTTTGTCACA
1 ATATCTGTTCTGGTGACTTCGTCACA
*
16297076 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTTCGTCACA
16297103 ATATCTG
1 ATATCTG
16297110 GTAGCTTCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 7 0.23
27 23 0.77
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTTCGTCACA
Found at i:16306888 original size:31 final size:31
Alignment explanation
Indices: 16306842--16306913 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
16306832 TATCAGAACT
* *
16306842 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAACCAGAATCAGTATCAGGTAAC
*
16306873 ATAATCAAAACCAGAATCAGTATCAGGTAAC
1 AGAATCAAAACCAGAATCAGTATCAGGTAAC
16306904 AGAATCAAAA
1 AGAATCAAAA
16306914 ATCAGAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (31 bp):
AGAATCAAAACCAGAATCAGTATCAGGTAAC
Found at i:16307100 original size:27 final size:26
Alignment explanation
Indices: 16307058--16307159 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
16307048 GCTCAGTTAT
* *
16307058 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
16307085 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
16307111 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
16307139 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
16307160 TTAATAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:16307346 original size:22 final size:22
Alignment explanation
Indices: 16307318--16307382 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
16307308 GCAAATACGT
*
16307318 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
16307340 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
16307362 TTGACACAAAGCCTTAATCAG
1 TTGGCACAAAGCCATAATCAG
16307383 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:16307996 original size:27 final size:27
Alignment explanation
Indices: 16307809--16308003 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
16307799 GGGGCAAAAT
* * * *
16307809 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
16307835 GGTAATTCCACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
16307862 AGTAATTCTACCCTAAAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
16307889 TGTAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
16307916 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16307943 GGTAATT-TCACCCTACAGGGGTATTTC
1 GGTAATTCT-ACCCTACAGGGGTATTTC
* *
16307970 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
16307997 GGTAATT
1 GGTAATT
16308004 TTGTAAATCG
Statistics
Matches: 143, Mismatches: 23, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 14 0.10
27 128 0.90
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:16308017 original size:27 final size:27
Alignment explanation
Indices: 16307987--16308247 Score: 204
Period size: 27 Copynumber: 9.7 Consensus size: 27
16307977 CTACCCTACA
* **
16307987 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAATCG
**** * ** *
16308014 AGGGTAAAACGGTAATTCTGTAAATCT
1 AGGGTATTTTGGTAATTTTACAAATCG
*
16308041 AGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
*** **
16308068 AGGGTATTTCAATAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACAAATCG
** *
16308095 AGGGTATTTCAGTAATTTCACAAATC-
1 AGGGTATTTTGGTAATTTTACAAATCG
*
16308121 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAATCG
* * *
16308148 AGGGGTATTTTGATAATTTTACAAACCA
1 A-GGGTATTTTGGTAATTTTACAAATCG
* *
16308176 ATGGTATTTTGGTAATTTTACAAA-CT
1 AGGGTATTTTGGTAATTTTACAAATCG
* * *
16308202 AGGGGTATTTTGGTAATTTTATAAACCA
1 A-GGGTATTTTGGTAATTTTACAAATCG
*
16308230 AGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
16308248 GGTAAACTAA
Statistics
Matches: 195, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.02
27 187 0.96
28 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTACAAATCG
Found at i:16308182 original size:81 final size:80
Alignment explanation
Indices: 16308042--16308247 Score: 227
Period size: 81 Copynumber: 2.5 Consensus size: 80
16308032 TGTAAATCTA
* * * *** *
16308042 GGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACCAAGGGTATTTCA
16308106 GTAATTTCACAAA-TCAG
64 GTAATTTCACAAACT-AG
* **
16308123 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAATGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAAGGGTATTTCAG
*
16308188 TAATTTTACAAACTAG
65 TAATTTCACAAACTAG
* * *
16308204 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTT
16308248 GGTAAACTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.01
81 101 0.94
82 5 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACCAAGGGTATTTCAGT
AATTTCACAAACTAG
Found at i:16308256 original size:54 final size:54
Alignment explanation
Indices: 16308042--16308247 Score: 234
Period size: 54 Copynumber: 3.8 Consensus size: 54
16308032 TGTAAATCTA
** * *** ** *
16308042 GGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
** * * *
16308095 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
16308150 GGGTATTTTGATAATTTTACAAACCAATGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
* *
16308204 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
16308248 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 23, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 125 0.98
55 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
Found at i:16311900 original size:48 final size:48
Alignment explanation
Indices: 16311847--16311997 Score: 114
Period size: 48 Copynumber: 3.1 Consensus size: 48
16311837 AAAAACTAGC
16311847 CAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACT
1 CAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACT
* * * ** ** * * * *
16311895 CAATTT-CACAACCAAAACATACCA-AAAT-CATTAAAC-TTGTATAACTTGC-
1 CAATTTATAC-A-CATATCATGTCATCTATACA-CAATCATT-T-CAAC-TACT
16311944 CAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACT
1 CAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACT
16311992 CAATTT
1 CAATTT
16311998 CACAACCAAA
Statistics
Matches: 70, Mismatches: 22, Indels: 22
0.61 0.19 0.19
Matches are distributed among these distances:
47 8 0.11
48 30 0.43
49 24 0.34
50 8 0.11
ACGTcount: A:0.40, C:0.25, G:0.03, T:0.33
Consensus pattern (48 bp):
CAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACT
Found at i:16311995 original size:97 final size:97
Alignment explanation
Indices: 16311840--16312038 Score: 389
Period size: 97 Copynumber: 2.1 Consensus size: 97
16311830 AAACAATAAA
*
16311840 AACTAGCCAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACTCAATTTCACA
1 AACTTGCCAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACTCAATTTCACA
16311905 ACCAAAACATACCAAAATCATTAAACTTGTAT
66 ACCAAAACATACCAAAATCATTAAACTTGTAT
16311937 AACTTGCCAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACTCAATTTCACA
1 AACTTGCCAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACTCAATTTCACA
16312002 ACCAAAACATACCAAAATCATTAAACTTGTAT
66 ACCAAAACATACCAAAATCATTAAACTTGTAT
16312034 AACTT
1 AACTT
16312039 CTAAATGCAT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 101 1.00
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (97 bp):
AACTTGCCAATTTATACACATATCATGTCATCTATACACAATCATTTCAACTACTCAATTTCACA
ACCAAAACATACCAAAATCATTAAACTTGTAT
Found at i:16315040 original size:40 final size:40
Alignment explanation
Indices: 16314995--16315161 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16314985 CGGAATATAA
16314995 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
16315035 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16315075 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16315115 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16315154 CCGGATAT
1 CCGGATAT
16315162 TATTCGATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16321795 original size:40 final size:40
Alignment explanation
Indices: 16321750--16321916 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
16321740 CGGAATATAA
16321750 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
16321790 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
16321830 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
16321870 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
16321909 CCGGATAT
1 CCGGATAT
16321917 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:16331499 original size:47 final size:47
Alignment explanation
Indices: 16331438--16331721 Score: 290
Period size: 47 Copynumber: 6.0 Consensus size: 47
16331428 CATACATATC
* ** * * *
16331438 TCACATTAGCCATTCGG-CTTCGCCACATATATACACT-TCCACGTTTA
1 TCACATTGGCCATTCGGCCTT-ATCACACATATACA-TGTCCACATTCA
* ** * *
16331485 TCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATACATGTCCACATTCA
* * *
16331532 TCACATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATACATGTCCACATTCA
* * *
16331579 TCACATTGGCCATTCGGCCTTATCACATATATACACT-TCCACGTTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATACA-TGTCCACATTCA
** * *
16331626 TCACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATACATGTCCACATTCA
*
16331673 TCACATTGGCCATTCGGCCTTATCACATATATGCACAT-T-CACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATAT--ACATGTCCACATTCA
16331720 TC
1 TC
16331722 TCATGAAATC
Statistics
Matches: 201, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
46 2 0.01
47 191 0.95
48 5 0.02
49 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATACATGTCCACATTCA
Found at i:16331535 original size:25 final size:25
Alignment explanation
Indices: 16331506--16331583 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
16331496 ATTCTACCTT
16331506 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
16331531 AT--CACAT-TGGTCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
16331553 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
16331578 ATCACA
1 ATCACA
16331584 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:16331584 original size:94 final size:93
Alignment explanation
Indices: 16331484--16331721 Score: 341
Period size: 94 Copynumber: 2.5 Consensus size: 93
16331474 TTCCACGTTT
* ** * * *
16331484 ATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCACATTCATCACATTGGTCATTCGG
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCAT-TTCACATTCATCACATTGGCCATTCGA
16331549 CCTTATCACACATATGCATGTTCACATTC
65 CCTTATCACACATATGCATGTTCACATTC
* * * * *
16331578 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACGTTTATCACATTGGCCATTCTA
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCA-TTTCACATTCATCACATTGGCCATTCGA
16331643 CCTTATCACACATATGCATGTTCACATTC
65 CCTTATCACACATATGCATGTTCACATTC
*
16331672 ATCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTCATC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCA-TTTCACATTCATC
16331722 TCATGAAATC
Statistics
Matches: 127, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 126 0.99
95 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (93 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATTTCACATTCATCACATTGGCCATTCGAC
CTTATCACACATATGCATGTTCACATTC
Found at i:16331651 original size:22 final size:22
Alignment explanation
Indices: 16331578--16331700 Score: 61
Period size: 23 Copynumber: 5.3 Consensus size: 22
16331568 GTTCACATTC
**
16331578 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCCACCTT
*** *
16331600 ATCACATATATACACTTCCACGTTT
1 ATCACAT-TGGCCA-TTCCAC-CTT
*
16331625 ATCACATTGGCCATTCTACCTT
1 ATCACATTGGCCATTCCACCTT
* *
16331647 ATCACACATAT-G-CATGTTCACATT
1 AT--CACAT-TGGCCAT-TCCACCTT
**
16331671 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCCACCTT
16331694 ATCACAT
1 ATCACAT
16331701 ATATGCACAT
Statistics
Matches: 73, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
22 19 0.26
23 21 0.29
24 21 0.29
25 12 0.16
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCCACCTT
Found at i:16331692 original size:141 final size:141
Alignment explanation
Indices: 16331438--16331721 Score: 480
Period size: 141 Copynumber: 2.0 Consensus size: 141
16331428 CATACATATC
*
16331438 TCACATTAGCCATTCGGCTTCGCCACATATATACACTTCCACGTTTATCACATTAGCCATTCTAC
1 TCACATTAGCCATTCGGCTTCACCACATATATACACTTCCACGTTTATCACATTAGCCATTCTAC
* *
16331503 CTTATCACACATATGCATGTTCACATTCATCACATTGGTCATTCGGCCTTATCACACATATGCAT
66 CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
*
16331568 GTTCACATTCA
131 ATTCACATTCA
* * *
16331579 TCACATTGGCCATTCGGCCTT-ATCACATATATACACTTCCACGTTTATCACATTGGCCATTCTA
1 TCACATTAGCCATTCGG-CTTCACCACATATATACACTTCCACGTTTATCACATTAGCCATTCTA
*
16331643 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA
65 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCA
16331708 CATTCACATTCA
130 CATTCACATTCA
16331720 TC
1 TC
16331722 TCATGAAATC
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 131 0.98
142 3 0.02
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (141 bp):
TCACATTAGCCATTCGGCTTCACCACATATATACACTTCCACGTTTATCACATTAGCCATTCTAC
CTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCAC
ATTCACATTCA
Found at i:16333996 original size:32 final size:32
Alignment explanation
Indices: 16333960--16334022 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
16333950 TAATTCCCAA
16333960 CACAAGATGGCCGAATGCCTTAGGTGTTCTTG
1 CACAAGATGGCCGAATGCCTTAGGTGTTCTTG
16333992 CACAAGATGGCCGAATGCCTTAGGTGTTCTT
1 CACAAGATGGCCGAATGCCTTAGGTGTTCTT
16334023 TCTTCCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (32 bp):
CACAAGATGGCCGAATGCCTTAGGTGTTCTTG
Found at i:16339753 original size:30 final size:25
Alignment explanation
Indices: 16339693--16339742 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16339683 AAAGGGTTAG
*
16339693 AATCGAGATAATTTCAATATATTAC
1 AATCAAGATAATTTCAATATATTAC
16339718 AATCAAGATAATTTCAATATATTAC
1 AATCAAGATAATTTCAATATATTAC
16339743 CCCACTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (25 bp):
AATCAAGATAATTTCAATATATTAC
Found at i:16340960 original size:5 final size:5
Alignment explanation
Indices: 16340950--16341017 Score: 50
Period size: 6 Copynumber: 12.8 Consensus size: 5
16340940 TATGTCTTGC
* *
16340950 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
16340998 AAAAAT AAAAT AAAAT AAAA
1 -AAAAT AAAAT AAAAT AAAA
16341018 ATAAGACTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
3 3 0.06
5 22 0.43
6 26 0.51
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:16340979 original size:6 final size:6
Alignment explanation
Indices: 16340970--16341021 Score: 63
Period size: 6 Copynumber: 9.0 Consensus size: 6
16340960 AATAAAATTG
* * *
16340970 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
16341016 AAATAA
1 AAATAA
16341022 GACTAAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 10 0.25
6 30 0.75
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:16340982 original size:17 final size:17
Alignment explanation
Indices: 16340960--16341021 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
16340950 AAAATAAAAT
* *
16340960 AATAAAATTGAAATGAA
1 AATAAAAATAAAATGAA
16340977 AATAAAAATCAAAA-GAAA
1 AATAAAAAT-AAAATG-AA
16340995 AATAAAAATAAAAT-AA
1 AATAAAAATAAAATGAA
16341011 AATAAAAATAA
1 AATAAAAATAA
16341022 GACTAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.32
17 13 0.32
18 14 0.35
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAAATAAAATGAA
Found at i:16341001 original size:11 final size:11
Alignment explanation
Indices: 16340950--16341021 Score: 65
Period size: 11 Copynumber: 6.2 Consensus size: 11
16340940 TATGTCTTGC
16340950 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
16340963 AAAATTGAAAT
1 AAAATAAAAAT
16340974 GAAAATAAAAAT
1 -AAAATAAAAAT
*
16340986 CAAAAGAAAAAT
1 -AAAATAAAAAT
16340998 AAAA-ATAAAAT
1 AAAATA-AAAAT
16341009 AAAATAAAAAT
1 AAAATAAAAAT
16341020 AA
1 AA
16341022 GACTAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 1 0.02
11 23 0.46
12 21 0.42
13 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:16341014 original size:16 final size:16
Alignment explanation
Indices: 16340950--16341034 Score: 77
Period size: 16 Copynumber: 5.2 Consensus size: 16
16340940 TATGTCTTGC
16340950 AAAATAAAAT--AATA
1 AAAATAAAATAAAATA
* *
16340964 AAATTGAAATGAAAATA
1 AAAATAAAAT-AAAATA
*
16340981 AAAATCAAAAGAAAAATA
1 AAAAT-AAAA-TAAAATA
16340999 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
16341015 AAAATAAGACT-AAATA
1 AAAATAA-AATAAAATA
16341031 AAAA
1 AAAA
16341035 AAGGAGGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
14 8 0.14
16 22 0.38
17 14 0.24
18 14 0.24
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:16347735 original size:46 final size:46
Alignment explanation
Indices: 16347550--16347734 Score: 189
Period size: 46 Copynumber: 4.0 Consensus size: 46
16347540 TCACTTGTGT
* * * *
16347550 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGA
* * *
16347596 GAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCAATGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGA
* * * *
16347644 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTATGAGATG-A
16347691 -AGCCAGTGTAAGACATGT-TCGGGACATGCATCGGCTATGAGATG
1 GAGCCAGTGTAAGACATGTCT-GGGACATGCATCGGCTATGAGATG
16347735 TGTTAGTGTA
Statistics
Matches: 115, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
45 4 0.03
46 57 0.50
47 29 0.25
48 24 0.21
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGA
Found at i:16349687 original size:16 final size:17
Alignment explanation
Indices: 16349661--16349697 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
16349651 AGAGAGTACC
16349661 ATTAGGGTATTTGATGA
1 ATTAGGGTATTTGATGA
16349678 ATTA-GGTATTTGATGA
1 ATTAGGGTATTTGATGA
16349694 ATTA
1 ATTA
16349698 TCGTGCATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (17 bp):
ATTAGGGTATTTGATGA
Found at i:16357467 original size:17 final size:18
Alignment explanation
Indices: 16357425--16357473 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
16357415 AGTTGAAAAG
16357425 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
16357444 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
16357461 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
16357474 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:16358362 original size:40 final size:40
Alignment explanation
Indices: 16358296--16358462 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
16358286 AAATTGAATG
* * *
16358296 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
16358335 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
16358375 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
16358415 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
16358455 ATATCCGG
1 ATATCCGG
16358463 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:16366470 original size:28 final size:29
Alignment explanation
Indices: 16366390--16366520 Score: 156
Period size: 29 Copynumber: 4.6 Consensus size: 29
16366380 AATTTAAGCC
* *** * *
16366390 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
** * *
16366419 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
16366448 TGCACA-TTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16366476 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16366505 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
16366521 ATCTCGTCAC
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 23 0.26
29 64 0.74
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:16374202 original size:29 final size:29
Alignment explanation
Indices: 16374169--16374271 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
16374159 CCTTCGAGCT
** * *
16374169 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
16374198 TGCACATTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16374227 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
16374256 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
16374272 ATCTCGTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:16374203 original size:58 final size:58
Alignment explanation
Indices: 16374140--16374271 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
16374130 AATTTAAGCC
* * * * * *
16374140 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * * **
16374198 TGCACATTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
16374256 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
16374272 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:16377372 original size:40 final size:40
Alignment explanation
Indices: 16377293--16377496 Score: 272
Period size: 40 Copynumber: 5.1 Consensus size: 40
16377283 CAGGATTTAA
* *
16377293 CCGGATATAGCT-ACTCGCTC-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
16377332 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
16377372 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
16377412 TCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16377452 CC-GAAACTAGTCACTAGCGCA-AAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACT--CGCACAAATGCCTTCGGGACTTAGC
16377493 CCGG
1 CCGG
16377497 TTATCATCCA
Statistics
Matches: 148, Mismatches: 11, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 19 0.13
40 101 0.68
41 22 0.15
42 5 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16380911 original size:68 final size:68
Alignment explanation
Indices: 16380771--16380965 Score: 282
Period size: 68 Copynumber: 2.8 Consensus size: 68
16380761 CGATTTATCT
* * * * * * *
16380771 CGTAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAATCACTCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGGATACATC-C--CGTATCACACATGTGACCTAGCTACATTTAT
16380836 CTCTCA
63 CTCTCA
* *
16380842 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCAAGCTACATTTATCTT
1 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTTATCTC
16380907 TCA
66 TCA
16380910 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC
16380966 TATATAGTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
68 86 0.75
70 1 0.01
71 27 0.24
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.32
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTTATCTC
TCA
Found at i:16380998 original size:68 final size:66
Alignment explanation
Indices: 16380766--16380991 Score: 247
Period size: 68 Copynumber: 3.3 Consensus size: 66
16380756 CTAGCCGATT
* * * * * * *
16380766 TATCTCGTAGCTCTCTTGTCTACATGGTATCCTTCACTTGGAATCACTCATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGGATACATC-C--CGTATCACACATGTGACCTAGCTACA
16380831 TTTA
63 TTTA
* *
16380835 TCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCAAGCTACAT
1 TATCT--CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACAT
16380900 TTA
64 TTA
* *
16380903 TCTTTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACTA
1 --TATCTCGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC-A
*
16380968 TATA
63 TTTA
16380972 GTATCTCGTAGC-CTTCTTGT
1 -TATCTCGTAGCTC-TCTTGT
16380992 ACACATGATG
Statistics
Matches: 135, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
67 1 0.01
68 95 0.70
69 8 0.06
70 4 0.03
71 27 0.20
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (66 bp):
TATCTCGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTACATTT
A
Found at i:16386566 original size:58 final size:57
Alignment explanation
Indices: 16386416--16386566 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
16386406 TATCGTATTA
* * *
16386416 CAGGAATACCAGTCCAGGCTAAATCCTTTATGTAACGTATGCTCAGAAGAGCTCATT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCAGAAGAGATCATT
* * * * * *
16386473 TAAGATTACTAGTCCAGGCTAAAT-CTTAATTGTAACATATGCTCA-AGAGGGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTTTA-TGTAACATATGCTCAGA-AGAGATCAT-T
* * *
16386531 CAGGATTACCCGTCCGGGCTAAATCCTTTACGTAAC
1 CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAAC
16386567 GAGGTCAATA
Statistics
Matches: 74, Mismatches: 16, Indels: 7
0.76 0.16 0.07
Matches are distributed among these distances:
56 5 0.07
57 40 0.54
58 25 0.34
59 4 0.05
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (57 bp):
CAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACATATGCTCAGAAGAGATCATT
Found at i:16390515 original size:42 final size:42
Alignment explanation
Indices: 16390466--16390576 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 42
16390456 TGAGATTATG
**
16390466 TGTAAGACCATATCTGGGATATGGCATCA-ATATGAGA-CTTTA
1 TGTAAGACCATATCTGGGATATGGCAT-AGATATGAGATC-CCA
* * *
16390508 TGTAAGA-CATAGCTTGGCTATTGGCATAGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATAGATATGAGATCCCA
* *
16390550 TGTAAGACCATATTTGGGATATTGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
16390577 TGGTATGGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
41 11 0.20
42 34 0.62
43 10 0.18
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATAGATATGAGATCCCA
Found at i:16390705 original size:20 final size:19
Alignment explanation
Indices: 16390659--16390705 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
16390649 CGACAAAGTT
16390659 TAAGTTGTGAAAGACTATG
1 TAAGTTGTGAAAGACTATG
* *
16390678 GAATGTTGTGAAAGATTATAG
1 TAA-GTTGTGAAAGACTAT-G
16390699 TAAGTTG
1 TAAGTTG
16390706 CAAGTTGGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (19 bp):
TAAGTTGTGAAAGACTATG
Found at i:16395511 original size:23 final size:23
Alignment explanation
Indices: 16395484--16395533 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
16395474 AAGAGAGCAG
16395484 AAGGATTGAATAAAGAAGAAATT
1 AAGGATTGAATAAAGAAGAAATT
* * *
16395507 AAGGATTGATTAGATAAGAAATT
1 AAGGATTGAATAAAGAAGAAATT
16395530 AAGG
1 AAGG
16395534 TTTCTGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (23 bp):
AAGGATTGAATAAAGAAGAAATT
Found at i:16396832 original size:27 final size:27
Alignment explanation
Indices: 16396801--16396859 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
16396791 TAGGTGTAAG
16396801 TGATTTTGACAAGCAACTAAGTGTATA
1 TGATTTTGACAAGCAACTAAGTGTATA
* *
16396828 TGATTTTGATAAGCAACTAAGTGTATG
1 TGATTTTGACAAGCAACTAAGTGTATA
16396855 TGATT
1 TGATT
16396860 CGGATTCCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.37
Consensus pattern (27 bp):
TGATTTTGACAAGCAACTAAGTGTATA
Found at i:16411224 original size:22 final size:22
Alignment explanation
Indices: 16411199--16411262 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
16411189 TTTATTAAAT
16411199 CACCACTAC-AAAACCACCATAC
1 CACCAC-ACTAAAACCACCATAC
* * *
16411221 CACCACACTAACACCACCGTAT
1 CACCACACTAAAACCACCATAC
* * *
16411243 CACCACCCTTACACCACCAT
1 CACCACACTAAAACCACCAT
16411263 TGAAACACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 2 0.06
22 33 0.94
ACGTcount: A:0.38, C:0.48, G:0.02, T:0.12
Consensus pattern (22 bp):
CACCACACTAAAACCACCATAC
Found at i:16412300 original size:17 final size:17
Alignment explanation
Indices: 16412280--16412317 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
16412270 AACATGCCTG
16412280 TTGTTTTATAAATGAGA
1 TTGTTTTATAAATGAGA
16412297 TTGTTTTATAAATGAGA
1 TTGTTTTATAAATGAGA
16412314 TTGT
1 TTGT
16412318 AAATTTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (17 bp):
TTGTTTTATAAATGAGA
Found at i:16412374 original size:48 final size:48
Alignment explanation
Indices: 16412318--16412424 Score: 160
Period size: 48 Copynumber: 2.2 Consensus size: 48
16412308 ATGAGATTGT
* * *
16412318 AAATTTGGTGGTTTATCCATAACCTACATGTATTAGTAGTTTGTCTGA
1 AAATTTGGTGGTTTATCCACAACCTACATGTATTAGCAGCTTGTCTGA
* * *
16412366 AAATTTGGTGGTTTATCCACAAGCTACATGTTTTAGCAGCTTGTCTGC
1 AAATTTGGTGGTTTATCCACAACCTACATGTATTAGCAGCTTGTCTGA
16412414 AAATTTGGTGG
1 AAATTTGGTGG
16412425 CTTCGTCCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (48 bp):
AAATTTGGTGGTTTATCCACAACCTACATGTATTAGCAGCTTGTCTGA
Found at i:16413846 original size:44 final size:44
Alignment explanation
Indices: 16413793--16413884 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
16413783 ACATAAATAC
16413793 ACATTCATGCAAAATTCACTCATATCC-ATATTAGAAATATATTT
1 ACATTCATGCAAAATTCACTCATA-CCTATATTAGAAATATATTT
16413837 ACATTCATGCAAAATTCACTCATACCTATATTAGAAATATATTT
1 ACATTCATGCAAAATTCACTCATACCTATATTAGAAATATATTT
16413881 ACAT
1 ACAT
16413885 GAATGCTTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 2 0.04
44 45 0.96
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.36
Consensus pattern (44 bp):
ACATTCATGCAAAATTCACTCATACCTATATTAGAAATATATTT
Found at i:16422449 original size:40 final size:40
Alignment explanation
Indices: 16422394--16422602 Score: 224
Period size: 40 Copynumber: 5.2 Consensus size: 40
16422384 TGAATGATAC
*
16422394 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
16422434 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* ** *
16422474 CTGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
16422514 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * *
16422554 CCAGGTTAAGACTCGAAGGCAATTGTGCTTGTGGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGT-GATTATAT
16422595 CC-GGCTAA
1 CCGGGCTAA
16422603 ATTCCGAAGA
Statistics
Matches: 143, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 134 0.94
41 8 0.06
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:16426108 original size:23 final size:21
Alignment explanation
Indices: 16426064--16426106 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
16426054 CTATTTAAAA
16426064 ATATATTTTATATTAACATTT
1 ATATATTTTATATTAACATTT
16426085 ATATAATTTTATAATTAA-ATTT
1 ATAT-ATTTTAT-ATTAACATTT
16426107 TAAGAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATATTTTATATTAACATTT
Found at i:16426710 original size:26 final size:26
Alignment explanation
Indices: 16426678--16426728 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16426668 AAATAATTAA
*
16426678 TATAAATAAGGATATTTTGATAATTC
1 TATAAATAAGAATATTTTGATAATTC
16426704 TATAAATAAGAATATTTTGATAATT
1 TATAAATAAGAATATTTTGATAATT
16426729 TTACTTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (26 bp):
TATAAATAAGAATATTTTGATAATTC
Found at i:16427196 original size:15 final size:14
Alignment explanation
Indices: 16427173--16427221 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
16427163 TTATACTTTA
*
16427173 ATTTAATATTTTTT
1 ATTTTATATTTTTT
16427187 ATCTTTATATTTTTT
1 AT-TTTATATTTTTT
16427202 AATTTTA-ATTTTTT
1 -ATTTTATATTTTTT
16427216 AGTTTT
1 A-TTTT
16427222 GAATAAATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 15 0.48
16 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (14 bp):
ATTTTATATTTTTT
Found at i:16427207 original size:22 final size:22
Alignment explanation
Indices: 16427155--16427207 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
16427145 ATTATATAGA
16427155 TTTAATTTTTATACTTTAATTT
1 TTTAATTTTTATACTTTAATTT
** *
16427177 AATATTTTTTAT-CTTTATATTT
1 TTTAATTTTTATACTTTA-ATTT
16427199 TTTAATTTT
1 TTTAATTTT
16427208 AATTTTTTAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTAATTTTTATACTTTAATTT
Found at i:16427212 original size:14 final size:14
Alignment explanation
Indices: 16427155--16427221 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
16427145 ATTATATAGA
* **
16427155 TTTAATTTTTATAC
1 TTTAATTTTAATTT
16427169 TTTAA-TTTAATATT
1 TTTAATTTTAAT-TT
*
16427183 TTTTATCTTTATATTT
1 TTTAAT-TTTA-ATTT
16427199 TTTAATTTTAATTT
1 TTTAATTTTAATTT
*
16427213 TTTAGTTTT
1 TTTAATTTT
16427222 GAATAAATAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
13 5 0.12
14 21 0.49
15 4 0.09
16 11 0.26
17 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.70
Consensus pattern (14 bp):
TTTAATTTTAATTT
Found at i:16434821 original size:40 final size:40
Alignment explanation
Indices: 16434736--16434886 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
16434726 AATTGAATGA
* * * **
16434736 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
16434776 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
16434817 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
16434856 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
16434887 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:16434900 original size:40 final size:40
Alignment explanation
Indices: 16434773--16434902 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
16434763 ATGCTGGAAA
* * *
16434773 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
16434813 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
16434853 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
16434893 TTATATCCGG
1 TTATATCCGG
16434903 TTATATTCTG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:16439559 original size:15 final size:17
Alignment explanation
Indices: 16439529--16439560 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16439519 TTGATACTTG
16439529 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
16439546 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
16439561 ATTTATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:16443939 original size:17 final size:19
Alignment explanation
Indices: 16443905--16443941 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
16443895 TAGGATTTAT
*
16443905 TTTTTTTTTCCTTCTTCTA
1 TTTTTTATTCCTTCTTCTA
16443924 TTTTTTATT-CTT-TTCTA
1 TTTTTTATTCCTTCTTCTA
16443941 T
1 T
16443942 CCTTCTCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTATTCCTTCTTCTA
Found at i:16444631 original size:8 final size:8
Alignment explanation
Indices: 16444618--16444650 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
16444608 CTAGATCGGC
16444618 AAAAGCCG
1 AAAAGCCG
16444626 AAAAGCCG
1 AAAAGCCG
16444634 AAAAGCCG
1 AAAAGCCG
16444642 AAAAGCCG
1 AAAAGCCG
16444650 A
1 A
16444651 CATTTGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:16445289 original size:20 final size:20
Alignment explanation
Indices: 16445259--16445303 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
16445249 CTGTTTTATT
16445259 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
16445278 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
16445298 ATGGGC
1 ATGGGC
16445304 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:16450497 original size:41 final size:43
Alignment explanation
Indices: 16450415--16450648 Score: 158
Period size: 41 Copynumber: 5.3 Consensus size: 43
16450405 TACAACTCCA
* *** *
16450415 AGGGA-ATAAGACTTGTTATCTTTAGTCTGCTCCGTTGCAACTTT
1 AGGGAGATAAGACTTG-TATCTTGA-TCTGCTCTACTGCAACTTC
16450459 AGGGAGATAAGACTTGT-T-TTGATCTGCTCTACTGCAACTTC
1 AGGGAGATAAGACTTGTATCTTGATCTGCTCTACTGCAACTTC
* * * * * *
16450500 AGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTGTAAC-TC
1 AGGGAGATAAGA-CT----TGTAT--CTT-GATCTGCTCTACTGCAACTTC
* * *
16450550 TAGGGA-AGTAAGACTTGCTATCTTCAGCCTACTCTACTGCAACTTC
1 -AGGGAGA-TAAGACTTG-TATCTTGA-TCTGCTCTACTGCAACTTC
16450596 AGGGAGATAAGACTTGT-T-TTGATCTGCTCTACTGCAACTTC
1 AGGGAGATAAGACTTGTATCTTGATCTGCTCTACTGCAACTTC
*
16450637 AGAGAGATAAGA
1 AGGGAGATAAGA
16450649 TCTGCAATTT
Statistics
Matches: 150, Mismatches: 23, Indels: 37
0.71 0.11 0.18
Matches are distributed among these distances:
41 54 0.36
42 8 0.05
43 2 0.01
44 8 0.05
45 38 0.25
46 6 0.04
47 4 0.03
50 7 0.05
51 23 0.15
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (43 bp):
AGGGAGATAAGACTTGTATCTTGATCTGCTCTACTGCAACTTC
Found at i:16450591 original size:137 final size:136
Alignment explanation
Indices: 16450345--16450749 Score: 567
Period size: 137 Copynumber: 3.0 Consensus size: 136
16450335 TCCACTACAA
* * * ** *
16450345 CTGCTCTATTACAACTCCAGAGAGATAAGATCTATGATTTATAGATTCAATCTGTTCCACTACAA
1 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTACAA
* * * ** *
16450410 CTCCAAGGGAATAAGACTTGTTATCTTTAGTCTGCTCCGTTGCAACTTTAGGGAGATAAGACTTG
66 CT-CAAGGGAATAAGACTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
16450475 TTTTGAT
130 TTTTGAT
**
16450482 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTGTAA
1 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTACAA
* * *
16450547 CTCTAGGGAAGTAAGACTTGCTATCTTCAGCCTACTCTACTGCAACTTCAGGGAGATAAGACTTG
66 CTCAAGGGAA-TAAGACTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
16450612 TTTTGAT
130 TTTTGAT
* *
16450619 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAACTTCAATCTGTTCCACTACAA
1 CTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTACAA
* ** * *
16450684 CTCCACGAAAATAAGACTTGCTATCTTCAGCCTGCTCCACTGCAACTGCAGGGAGATACGACTTG
66 CT-CAAGGGAATAAGACTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
16450749 T
130 T
16450750 AATTTCAACC
Statistics
Matches: 237, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
136 7 0.03
137 226 0.95
138 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (136 bp):
CTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAATTTATAGCTTCAATCTGTTCCACTACAA
CTCAAGGGAATAAGACTTGCTATCTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT
TTTGAT
Found at i:16450607 original size:45 final size:45
Alignment explanation
Indices: 16450390--16450767 Score: 156
Period size: 45 Copynumber: 8.3 Consensus size: 45
16450380 GATTTATAGA
* * * * *
16450390 TTCAATCTGTTCCACTACAACTCCAAGGGA-ATAAGACTTGTTATC
1 TTCAACCTGCTCCACTGCAACTTC-AGGGAGATAAGACTTGCTATC
* ** ** *
16450435 TTTAGTCTGCTCCGTTGCAACTTTAGGGAGATAAGACTTG-T-T-
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * * *
16450477 TT-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACAAT-TTATAGC
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT----TGCTAT--C
* * *
16450527 TTCAATCTGTTCCACTGTAAC-TCTAGGGA-AGTAAGACTTGCTATC
1 TTCAACCTGCTCCACTGCAACTTC-AGGGAGA-TAAGACTTGCTATC
* * *
16450572 TTCAGCCTACTCTACTGCAACTTCAGGGAGATAAGACTTG-T-T-
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * * *
16450614 TT-GATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGCAATTTATAAC
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGC----TAT--C
* * * * * * *
16450664 TTCAATCTGTTCCACTACAACTCCACGAAAATAAGACTTGCTATC
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
* * *
16450709 TTCAGCCTGCTCCACTGCAACTGCAGGGAGATACGACTTG-TAAT-
1 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCT-ATC
*
16450753 TTCAACCTACTCCAC
1 TTCAACCTGCTCCAC
16450768 CGTATCTTCT
Statistics
Matches: 251, Mismatches: 52, Indels: 61
0.69 0.14 0.17
Matches are distributed among these distances:
40 1 0.00
41 56 0.22
42 6 0.02
43 2 0.01
44 21 0.08
45 90 0.36
46 7 0.03
47 8 0.03
50 9 0.04
51 50 0.20
52 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (45 bp):
TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTATC
Found at i:16462539 original size:255 final size:255
Alignment explanation
Indices: 16462088--16462554 Score: 668
Period size: 255 Copynumber: 1.8 Consensus size: 255
16462078 CGAAGTGGAT
*
16462088 ATTAAGATTCTCTTGTTCCGAAGAAATAAAAAATCACATCCAGCACGTAGCACACGACATTTCAA
1 ATTAAGATTATCTTGTTCCGAAGAAATAAAAAATCACATCCAGCACGTAGCACACGACATTTCAA
** * *
16462153 ACCTTTGATGCCAAAATCATCTCATGATTTCCAAAACTTGTGCATTGAAACTTTAAAAAGATATT
66 ACCTTCAATGCCAAAATCATCTCATGATTCCCAAAACTTGTACATTGAAACTTTAAAAAGATATT
* *
16462218 CGGTGGTTCGGTCAAACGAAAAATCGAAACCCAACACGTAGGGCACAATTTCTCGAAATTTCCAA
131 CGGTGGTTCAGCCAAACGAAAAATCGAAACCCAACACGTAGGGCACAATTTCTCGAAATTTCCAA
16462283 ACACGAAATATTACCTTTTTTTAAAAAAAAACTCGAATAAAAATGCAATTGTATGAAACA
196 ACACGAAATATTACCTTTTTTTAAAAAAAAACTCGAATAAAAATGCAATTGTATGAAACA
* * * * ** *
16462343 ATTAAGATTATTTTGTTTCGAATAAATAAAATATCACATCCAGCACGTAGGGCACGATATTTCAA
1 ATTAAGATTATCTTGTTCCGAAGAAATAAAAAATCACATCCAGCACGTAGCACACGACATTTCAA
* * * * *
16462408 ACCTTCAATTCCAAAATCATCTCATGATTCCCAAGACTT-TACTTTGAAATTTTGAAAAGGATAT
66 ACCTTCAATGCCAAAATCATCTCATGATTCCCAAAACTTGTACATTGAAACTTT-AAAAAGATAT
* * * * *
16462472 TTGGTTGTTCAGCCAAACGATAAATCGCAACCCAGCACGTAGGGCACAATTTCTC-AGAATTTCC
130 TCGGTGGTTCAGCCAAACGAAAAATCGAAACCCAACACGTAGGGCACAATTTCTCGA-AATTTCC
* *
16462536 AAACGCGAAATATTGCCTT
194 AAACACGAAATATTACCTT
16462555 CAACTTTGAA
Statistics
Matches: 184, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
254 12 0.07
255 172 0.93
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (255 bp):
ATTAAGATTATCTTGTTCCGAAGAAATAAAAAATCACATCCAGCACGTAGCACACGACATTTCAA
ACCTTCAATGCCAAAATCATCTCATGATTCCCAAAACTTGTACATTGAAACTTTAAAAAGATATT
CGGTGGTTCAGCCAAACGAAAAATCGAAACCCAACACGTAGGGCACAATTTCTCGAAATTTCCAA
ACACGAAATATTACCTTTTTTTAAAAAAAAACTCGAATAAAAATGCAATTGTATGAAACA
Found at i:16471927 original size:25 final size:25
Alignment explanation
Indices: 16471898--16471948 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16471888 CAAAGGAAAA
**
16471898 TCCTAATCTAATTCTTAATTTAAAG
1 TCCTAATAGAATTCTTAATTTAAAG
16471923 TCCTAATAGAATTCTTAATTTAAAG
1 TCCTAATAGAATTCTTAATTTAAAG
16471948 T
1 T
16471949 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (25 bp):
TCCTAATAGAATTCTTAATTTAAAG
Found at i:16476593 original size:25 final size:25
Alignment explanation
Indices: 16476564--16476614 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
16476554 CAAAGGAAAA
**
16476564 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
16476589 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
16476614 T
1 T
16476615 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:16489369 original size:29 final size:29
Alignment explanation
Indices: 16489302--16489426 Score: 171
Period size: 29 Copynumber: 4.3 Consensus size: 29
16489292 AAGTTTACAT
* *
16489302 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
16489330 TCATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
16489359 ACATTCGTATGGCCCAATAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
16489388 ACATTCATATGGCGCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
16489417 ACATTCATAT
1 ACATTCATAT
16489427 ACATGTTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 20 0.24
29 63 0.76
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:16491751 original size:24 final size:24
Alignment explanation
Indices: 16491724--16491786 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
16491714 CTTATTATGT
16491724 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
16491748 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
16491772 TCGCACACATAGTGC
1 TCGCACACATAGTGC
16491787 ATTTGAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:16492970 original size:19 final size:18
Alignment explanation
Indices: 16492920--16492971 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
16492910 GGATGGACAC
16492920 TTTTTTTTTC-T-TTTCT
1 TTTTTTTTTCATATTTCT
**
16492936 TTGTTTTCATCATATTTCT
1 TT-TTTTTTTCATATTTCT
16492955 TTTTTTTTTCATTATTT
1 TTTTTTTTTCA-TATTT
16492972 GATTCTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 6 0.21
18 8 0.29
19 12 0.43
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTCATATTTCT
Found at i:16499628 original size:24 final size:24
Alignment explanation
Indices: 16499601--16499687 Score: 174
Period size: 24 Copynumber: 3.6 Consensus size: 24
16499591 CTTATTATGT
16499601 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
16499625 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
16499649 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
16499673 TCGCACACATAGTGC
1 TCGCACACATAGTGC
16499688 ATTTGAGATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:16500876 original size:19 final size:18
Alignment explanation
Indices: 16500826--16500877 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
16500816 GGATGGACAC
16500826 TTTTTTTTTC-T-TTTCT
1 TTTTTTTTTCATATTTCT
**
16500842 TTGTTTTCATCATATTTCT
1 TT-TTTTTTTCATATTTCT
16500861 TTTTTTTTTCATTATTT
1 TTTTTTTTTCA-TATTT
16500878 GATTCTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 2 0.07
17 6 0.21
18 8 0.29
19 12 0.43
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTTTTTTTCATATTTCT
Found at i:16504182 original size:49 final size:50
Alignment explanation
Indices: 16504100--16504334 Score: 246
Period size: 49 Copynumber: 4.7 Consensus size: 50
16504090 TGATCTATTG
* * *
16504100 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* * *
16504150 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATC-CGTACCCGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTACCGGATAA
* ** * ** **
16504199 CTTCA-ATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGG
1 -TT-AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
* *
16504250 TTAGGTCACGA-GTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAA
1 TTAGGTCAC-ATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
*
16504300 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
16504335 TGCGTACTAA
Statistics
Matches: 149, Mismatches: 28, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
48 1 0.01
49 69 0.46
50 45 0.30
51 34 0.23
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
Found at i:16504299 original size:101 final size:98
Alignment explanation
Indices: 16504105--16504347 Score: 267
Period size: 100 Copynumber: 2.4 Consensus size: 98
16504095 TATTGTTAGG
* ** *
16504105 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAAATAATTGGTCACATGTGTAGTACT
16504170 AAGTGCAGGCTACTATCCGTACCCGATAACTTCAA
66 AAGTGCAGGCTACTATCCGTACCCGATAA-TT-AA
* **
16504205 TCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAAATGGTTAGGTCACGA-GTGTAGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AAATAATT-GGTCAC-ATGTGTAGT
* * * **
16504268 ACTAAGTGTAGGCTACTA-CATGTACCGGATAATTGG
63 ACTAAGTGCAGGCTACTATC-CGTACCCGATAATTAA
* * * *
16504304 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAAATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAAATA
16504348 GCTTTAGCTA
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
99 37 0.31
100 43 0.36
101 39 0.32
102 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATCCGTACCCGATAATTAA
Found at i:16509176 original size:40 final size:40
Alignment explanation
Indices: 16509091--16509241 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
16509081 AATTGAATGA
* * *
16509091 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
16509131 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
16509172 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
16509211 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
16509242 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:16509255 original size:40 final size:40
Alignment explanation
Indices: 16509127--16509257 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
16509117 TATGCTGGAA
* * *
16509127 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
16509167 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
16509207 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
16509247 ATTATATCCGG
1 ATTATATCCGG
16509258 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:16517182 original size:40 final size:40
Alignment explanation
Indices: 16517097--16517247 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
16517087 AATTGAATGA
* * *
16517097 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
16517137 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
16517178 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
16517217 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
16517248 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:16517261 original size:40 final size:40
Alignment explanation
Indices: 16517133--16517263 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
16517123 TATGCTGGAA
* * *
16517133 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
16517173 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
16517213 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
16517253 ATTATATCCGG
1 ATTATATCCGG
16517264 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:16518693 original size:28 final size:28
Alignment explanation
Indices: 16518662--16518716 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
16518652 AGGGTGTTAC
16518662 AGGCACTGATTCAATTTTCAATTTAGAA
1 AGGCACTGATTCAATTTTCAATTTAGAA
16518690 AGGCACTGATTCAATTTTCAATTTAGA
1 AGGCACTGATTCAATTTTCAATTTAGA
16518717 CATCTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (28 bp):
AGGCACTGATTCAATTTTCAATTTAGAA
Found at i:16519331 original size:29 final size:29
Alignment explanation
Indices: 16519289--16519348 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
16519279 ATTTACTCGA
16519289 CCTTGCACTATGAAATTGTTCTTTCTCAG
1 CCTTGCACTATGAAATTGTTCTTTCTCAG
16519318 CCTTGCACTATGAAATTGTTCTTTCTCAG
1 CCTTGCACTATGAAATTGTTCTTTCTCAG
16519347 CC
1 CC
16519349 ATCTCAGGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (29 bp):
CCTTGCACTATGAAATTGTTCTTTCTCAG
Found at i:16520808 original size:31 final size:32
Alignment explanation
Indices: 16520767--16520832 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
16520757 TTTAAATTAG
*
16520767 TTAATTAGATA-AATATTATTTTATTAATATT
1 TTAATGAGATATAATATTATTTTATTAATATT
* *
16520798 TTAATGAGATATTTATTATTATTTTATTATTATT
1 TTAATGAGATA--TAATATTATTTTATTAATATT
16520832 T
1 T
16520833 ATTCAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 10 0.34
34 19 0.66
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (32 bp):
TTAATGAGATATAATATTATTTTATTAATATT
Found at i:16522575 original size:32 final size:32
Alignment explanation
Indices: 16522479--16522591 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 32
16522469 TACCTAAAAG
* *
16522479 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTTGAAAAGGAAATGTACCCT-TGTGT
* * *
16522512 GTACAACTTAAAAAGGAAACGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
16522545 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
16522577 GTACAA-TGTGAAAAG
1 GTACAACT-TGAAAAG
16522592 TGGTAGCTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.43
33 38 0.56
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (32 bp):
GTACAACTTGAAAAGGAAATGTACCCTTGTGT
Found at i:16522625 original size:31 final size:31
Alignment explanation
Indices: 16522587--16522727 Score: 176
Period size: 31 Copynumber: 4.5 Consensus size: 31
16522577 GTACAATGTG
*
16522587 AAAAGTGGTAGCTTCGGCTACCTGACCAGTA
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
* *
16522618 AAAAGTGGTAGCTTCGGCTACCTAATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
* * * *
16522649 AAAAGTAGTAGCTTCAGCTACCTGATTAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
* *
16522680 AAAAGTGGTAGCTCCAGCTACCTGATCAG-A
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
*
16522710 GAATAGTGGTAGCTTCGG
1 -AAAAGTGGTAGCTTCGG
16522728 TTACAAGTGA
Statistics
Matches: 95, Mismatches: 14, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
31 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
Found at i:16522661 original size:62 final size:62
Alignment explanation
Indices: 16522584--16522727 Score: 198
Period size: 62 Copynumber: 2.3 Consensus size: 62
16522574 TGTGTACAAT
* *
16522584 GTGAAAAGTGGTAGCTTCGGCTACCTGACCAGTAAAAAGTGGTAGCTTCGGCTACCTAATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGACCAGTAAAAAGTGGTAGCTCCAGCTACCTAATCA
* * ** * *
16522646 GTGAAAAGTAGTAGCTTCAGCTACCTGATTAGTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGACCAGTAAAAAGTGGTAGCTCCAGCTACCTAATCA
* *
16522708 GAGAATAGTGGTAGCTTCGG
1 GTGAAAAGTGGTAGCTTCGG
16522728 TTACAAGTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (62 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGACCAGTAAAAAGTGGTAGCTCCAGCTACCTAATCA
Found at i:16522851 original size:27 final size:27
Alignment explanation
Indices: 16522820--16522872 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16522810 ATAGTTGAAC
* *
16522820 TATGGTAAAGTGATAAAGTGTTCCAAT
1 TATGGGAAAGTGATAAAGTGTGCCAAT
*
16522847 TATGGGAAAGTGATATAGTGTGCCAA
1 TATGGGAAAGTGATAAAGTGTGCCAA
16522873 ACATATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (27 bp):
TATGGGAAAGTGATAAAGTGTGCCAAT
Found at i:16525736 original size:19 final size:19
Alignment explanation
Indices: 16525712--16525777 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
16525702 CCAGTGTGCT
16525712 CACTCGAAATATTACCGAA
1 CACTCGAAATATTACCGAA
*
16525731 CACTCGGAATATTACCGAA
1 CACTCGAAATATTACCGAA
* *
16525750 CACTCGGAATATTACCGGA
1 CACTCGAAATATTACCGAA
*
16525769 CACCCGAAA
1 CACTCGAAA
16525778 ATCTTGCACA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (19 bp):
CACTCGAAATATTACCGAA
Found at i:16528218 original size:36 final size:37
Alignment explanation
Indices: 16528170--16528351 Score: 179
Period size: 36 Copynumber: 4.9 Consensus size: 37
16528160 ACAAATGGAA
*
16528170 TACTAATTCTACTGAAAGTGCTC-AACGAGCAATATC
1 TACTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
16528206 TACTGATCCTACTGAATGTGCTCAAACGAGCAATGTC
1 TACTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
* * *
16528243 TACTGATTCTACT-AAACTGCTCAAATGAGCAATATA
1 TACTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
* * * *
16528279 TACTAATTCTACTGAATACTTGCTCAAGCGAGAAATATC
1 TACTGATTCTACTGAA-A-GTGCTCAAACGAGCAATATC
* * * *
16528318 CACTGATTATACTGAATGCTTACTCAAACGAGCA
1 TACTGATTCTACTGAAAG--TGCTCAAACGAGCA
16528352 TTACCCACTT
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
36 50 0.43
37 26 0.22
38 1 0.01
39 39 0.34
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (37 bp):
TACTGATTCTACTGAAAGTGCTCAAACGAGCAATATC
Found at i:16528316 original size:39 final size:39
Alignment explanation
Indices: 16528170--16528374 Score: 183
Period size: 39 Copynumber: 5.5 Consensus size: 39
16528160 ACAAATGGAA
*
16528170 TACTAATTCTACTGAA-A-GTGCTC-AACGAGCAATATC
1 TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
* *
16528206 TACTGATCCTACTGAAT--GTGCTCAAACGAGCAATGTC
1 TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
* *
16528243 TACTGATTCTACT-AA-AC-TGCTCAAATGAGCAATATA
1 TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
* * * *
16528279 TACTAATTCTACTGAATACTTGCTCAAGCGAGAAATATC
1 TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
* * * * * * *
16528318 CACTGATTATACTGAATGCTTACTCAAACGAGCATTACC
1 TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
* * *
16528357 CACTTATTATACTGAATA
1 TACTGATTCTACTGAATA
16528375 AGATTTTTTG
Statistics
Matches: 139, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
36 50 0.36
37 26 0.19
38 2 0.01
39 61 0.44
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (39 bp):
TACTGATTCTACTGAATACGTGCTCAAACGAGCAATATC
Found at i:16532665 original size:28 final size:28
Alignment explanation
Indices: 16532633--16532731 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
16532623 GCAATAAGCC
*
16532633 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
* *
16532661 CGCACACTTAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
16532689 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
16532718 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16532732 CAATTTGTGA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
27 2 0.03
28 39 0.67
29 16 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:16540347 original size:28 final size:28
Alignment explanation
Indices: 16540315--16540413 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
16540305 GCAATAAGCC
*
16540315 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
16540343 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
16540371 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
16540400 CGCACACTTAGTGC
1 CGCACACTTAGTGC
16540414 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:16548119 original size:49 final size:49
Alignment explanation
Indices: 16548059--16548173 Score: 221
Period size: 49 Copynumber: 2.3 Consensus size: 49
16548049 GTATGAGATA
16548059 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTG
*
16548108 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTG
16548157 TATATATGTGATAAGGC
1 TATATATGTGATAAGGC
16548174 GAAAGTGTGT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTG
Found at i:16548180 original size:26 final size:26
Alignment explanation
Indices: 16548148--16548199 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16548138 TGATGAATGT
16548148 GAAAGTGTGTATATATGTGATAAGGC
1 GAAAGTGTGTATATATGTGATAAGGC
16548174 GAAAGTGTGTATATATGTGATAAGGC
1 GAAAGTGTGTATATATGTGATAAGGC
16548200 CTAATGGCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.31
Consensus pattern (26 bp):
GAAAGTGTGTATATATGTGATAAGGC
Found at i:16548180 original size:75 final size:75
Alignment explanation
Indices: 16548099--16548248 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
16548089 TGATGAATGT
16548099 GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATAT
1 GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATAT
16548164 GTGATAAGGC
66 GTGATAAGGC
16548174 GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATAT
1 GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATAT
16548239 GTGATAAGGC
66 GTGATAAGGC
16548249 CATTAATGTG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.32, C:0.07, G:0.31, T:0.31
Consensus pattern (75 bp):
GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATAT
GTGATAAGGC
Found at i:16548198 original size:124 final size:119
Alignment explanation
Indices: 16548059--16548292 Score: 387
Period size: 124 Copynumber: 1.9 Consensus size: 119
16548049 GTATGAGATA
16548059 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
* *
16548124 CCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCGAAAGTGTG
66 CC--AT---CAATGTGATGAATGTGAAAGTGTGTATACATGTGATAAGGCGAAAGTGTG
*
16548183 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
*
16548248 CCATTAATGTGATGAATGTGAAAGTGTGTATACATGTGATAAGGC
66 CCATCAATGTGATGAATGTGAAAGTGTGTATACATGTGATAAGGC
16548293 CTAATGGCCG
Statistics
Matches: 106, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
119 38 0.36
122 2 0.02
124 66 0.62
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.31
Consensus pattern (119 bp):
TATATATGTGATAAGGCCTAATGGACGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
CCATCAATGTGATGAATGTGAAAGTGTGTATACATGTGATAAGGCGAAAGTGTG
Found at i:16548229 original size:49 final size:48
Alignment explanation
Indices: 16548174--16548431 Score: 325
Period size: 47 Copynumber: 5.5 Consensus size: 48
16548164 GTGATAAGGC
*
16548174 GAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
16548223 GAAAGTGTGTATATATGTGATAAGGCC--AT---TAATGTGATGAATGT
1 GAAAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* *
16548267 GAAAGTGTGTATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
*
16548316 G-AAGGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGT
1 GAAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* * * * *
16548363 GAAA-GTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
* *
16548410 GGAA-GTGTATAAATGTGATAAG
1 GAAAGGTGTATATATGTGATAAG
16548432 TCCCGAAGGG
Statistics
Matches: 187, Mismatches: 16, Indels: 14
0.86 0.07 0.06
Matches are distributed among these distances:
44 39 0.21
46 2 0.01
47 100 0.53
48 5 0.03
49 41 0.22
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (48 bp):
GAAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGT
Found at i:16558592 original size:24 final size:24
Alignment explanation
Indices: 16558527--16558574 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
16558517 TCTTGAGAGT
16558527 AAACCAAAATATCATCTATAAATA
1 AAACCAAAATATCATCTATAAATA
16558551 AAACCAAAATATCATCTATAAATA
1 AAACCAAAATATCATCTATAAATA
16558575 CCACCACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.58, C:0.17, G:0.00, T:0.25
Consensus pattern (24 bp):
AAACCAAAATATCATCTATAAATA
Done.