Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007878.1 Hibiscus syriacus cultivar Beakdansim tig00110254_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 246905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:13971 original size:21 final size:21
Alignment explanation
Indices: 13947--13991 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
13937 GAAGAGCGTG
13947 GAAATGAAGAAGAAATTGGGA
1 GAAATGAAGAAGAAATTGGGA
*
13968 GAAATGACGAAGAAATTGGGA
1 GAAATGAAGAAGAAATTGGGA
13989 GAA
1 GAA
13992 GAGGAGGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.33, T:0.13
Consensus pattern (21 bp):
GAAATGAAGAAGAAATTGGGA
Found at i:22669 original size:32 final size:30
Alignment explanation
Indices: 22631--22692 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
22621 TTATTTAAAT
22631 TTTTTAATATAATATTCGTGATCGTTTATTTA
1 TTTTTAA-AT-ATATTCGTGATCGTTTATTTA
* * *
22663 TTTTTAAATGTATTTGTGTTCGTTTATTTA
1 TTTTTAAATATATTCGTGATCGTTTATTTA
22693 AAATTTGTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 18 0.67
31 2 0.07
32 7 0.26
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.60
Consensus pattern (30 bp):
TTTTTAAATATATTCGTGATCGTTTATTTA
Found at i:24405 original size:161 final size:162
Alignment explanation
Indices: 24166--24503 Score: 491
Period size: 161 Copynumber: 2.1 Consensus size: 162
24156 CAGTATTGAA
* * * * *
24166 ATGATAAAACTGGTAAAGCGCTATCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCCA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCCA
*
24231 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTT-AAAAAAT
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATA-TTTTAAAAAAAT
* * *
24295 GTATCGATCCAAAATGATATACCAGGTAAAAAT
130 ATATCGATCCAAAACGATATAACAGGTAAAAAT
* * **
24328 ATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATTGA
1 ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCCA
* ** *
24392 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATATTTTAAAAAAATA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATATTTTAAAAAAATA
*
24457 TATCGATCCACAACGATATAACAGGTAAAAAT
131 TATCGATCCAAAACGATATAACAGGTAAAAAT
24489 ATGATAAAACCGGTA
1 ATGATAAAACCGGTA
24504 TCAAAATGAT
Statistics
Matches: 157, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
160 4 0.03
161 109 0.69
162 44 0.28
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (162 bp):
ATGATAAAACCGGTAAAACGCTACCGGATACATTGAAAGTGTCGATACTTTAATATAAGGATCCA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATATTTTAAAAAAATA
TATCGATCCAAAACGATATAACAGGTAAAAAT
Found at i:24503 original size:20 final size:19
Alignment explanation
Indices: 24480--24526 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
24470 CGATATAACA
24480 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
24500 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
24520 GGTAAAA
1 GGTAAAA
24527 CGATACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:24531 original size:17 final size:19
Alignment explanation
Indices: 24491--24531 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
24481 GTAAAAATAT
*
24491 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
24511 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
24528 GATA
1 GATA
24532 CTGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:26777 original size:21 final size:21
Alignment explanation
Indices: 26751--26833 Score: 139
Period size: 21 Copynumber: 4.0 Consensus size: 21
26741 AAGACAATCA
26751 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
26772 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
*
26793 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAT
* *
26814 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
26834 GAGGCATAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:26912 original size:33 final size:33
Alignment explanation
Indices: 26870--26935 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
26860 AAATAGATGG
*
26870 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
26903 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
26936 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:28739 original size:19 final size:19
Alignment explanation
Indices: 28715--28763 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
28705 AATGTAGGGT
28715 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
28734 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
28753 TAATTTTGTAT
1 TAATTTTGTAT
28764 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:29618 original size:201 final size:200
Alignment explanation
Indices: 28898--29619 Score: 1140
Period size: 200 Copynumber: 3.6 Consensus size: 200
28888 GTGCAACCAT
*
28898 AAAGTGTCGATCCCAAAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * *
28963 TCGATACAAGTATACCAGTTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTT
* * * * *
29028 TGTGTTGATATTTCTGGTCCAGAATGAATGGCAAACATGCTGCAACCATAAATTGTCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
29093 TATAA
196 TATAA
* * *
29098 AAAGTGTCGATCCTATAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
29163 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTT
* * * *
29228 TGTGTCTATATTTTTTGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGCCGATCCATA
131 TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
29293 TATAA
196 TATAA
*
29298 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* * * *
29363 CCGGTACAAGTATACCGATTTTATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTTTTAGT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTATCGACAC-TTTTGTAGT
**
29428 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAATAATAAAGTGTCGATCCAT
130 TTGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAT
*
29493 GTATAA
195 ATATAA
* * *
29499 AAAGTGTCGATCCCATAGACATTGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
* *
29564 CCGGTACAAGTATACCGGTTTTATGAGAGAATTGATATATAAT-ATGTATCGACACT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATA-AATAATGTATCGACACT
29620 GTTTAATGTT
Statistics
Matches: 482, Mismatches: 38, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
200 300 0.62
201 179 0.37
202 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AAAGTGTCGATCCCATAAACATCGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATAGGTATAAATAATGTATCGACACTTTTGTAGTT
TGTGTCGATATTTTTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATA
TATAA
Found at i:31107 original size:6 final size:6
Alignment explanation
Indices: 31096--31171 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
31086 CAAGCGGTCA
* * * * * * *
31096 ATGAAG ATGAAG CTGACG ATGAAG CTGACG ATGATG ACGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * *
31144 CTGACG ATGAAG ATGACG ATGAAG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGA
31172 TGACGATAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.33, T:0.17
Consensus pattern (6 bp):
ATGAAG
Found at i:31118 original size:12 final size:12
Alignment explanation
Indices: 31101--31167 Score: 100
Period size: 12 Copynumber: 5.6 Consensus size: 12
31091 GGTCAATGAA
31101 GATGAAGCTGAC
1 GATGAAGCTGAC
31113 GATGAAGCTGAC
1 GATGAAGCTGAC
*
31125 GATGATGAC-GAC
1 GATGAAG-CTGAC
31137 GATGAAGCTGAC
1 GATGAAGCTGAC
*
31149 GATGAAGATGAC
1 GATGAAGCTGAC
31161 GATGAAG
1 GATGAAG
31168 ATGATGACGA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
11 1 0.02
12 48 0.96
13 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.34, T:0.16
Consensus pattern (12 bp):
GATGAAGCTGAC
Found at i:31168 original size:12 final size:12
Alignment explanation
Indices: 31096--31171 Score: 98
Period size: 12 Copynumber: 6.3 Consensus size: 12
31086 CAAGCGGTCA
*
31096 ATGAAGATGAAG
1 ATGACGATGAAG
*
31108 CTGACGATGAAG
1 ATGACGATGAAG
* *
31120 CTGACGATGATG
1 ATGACGATGAAG
*
31132 ACGACGATGAAG
1 ATGACGATGAAG
*
31144 CTGACGATGAAG
1 ATGACGATGAAG
31156 ATGACGATGAAG
1 ATGACGATGAAG
31168 ATGA
1 ATGA
31172 TGACGATAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.33, T:0.17
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:31183 original size:12 final size:13
Alignment explanation
Indices: 31096--31192 Score: 80
Period size: 12 Copynumber: 7.8 Consensus size: 13
31086 CAAGCGGTCA
*
31096 ATGAAGATGAA-G
1 ATGACGATGAATG
*
31108 CTGACGATGAA-G
1 ATGACGATGAATG
*
31120 CTGACGATG-ATG
1 ATGACGATGAATG
*
31132 ACGACGATGAA-G
1 ATGACGATGAATG
*
31144 CTGACGATGAA-G
1 ATGACGATGAATG
31156 ATGACGATGAAGATG
1 ATGACGATG-A-ATG
31171 ATGACGAT-AATG
1 ATGACGATGAATG
*
31183 ATGATGATGA
1 ATGACGATGA
31193 TCCAAACAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.01
12 56 0.79
13 4 0.06
14 1 0.01
15 9 0.13
ACGTcount: A:0.38, C:0.10, G:0.32, T:0.20
Consensus pattern (13 bp):
ATGACGATGAATG
Found at i:31183 original size:24 final size:24
Alignment explanation
Indices: 31109--31189 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
31099 AAGATGAAGC
*
31109 TGACGATGAAGCTGACGATGATGA
1 TGACGATGAAGCTGACGATGATAA
*
31133 CGACGATGAAGCTGACGATGA-AGA
1 TGACGATGAAGCTGACGATGATA-A
* * *
31157 TGACGATGAAGATGATGACGATAA
1 TGACGATGAAGCTGACGATGATAA
*
31181 TGATGATGA
1 TGACGATGA
31190 TGATCCAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 47 0.98
25 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.20
Consensus pattern (24 bp):
TGACGATGAAGCTGACGATGATAA
Found at i:32711 original size:184 final size:184
Alignment explanation
Indices: 32402--33894 Score: 2565
Period size: 184 Copynumber: 8.1 Consensus size: 184
32392 CAAAGTTTTC
* * *
32402 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCATT-
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACC-TTG
*
32466 TCAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATATAATAGATAATTTTGTAAT
65 TCAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
32531 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
32586 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTAGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
32651 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
32716 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
32770 TCACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
32835 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
32900 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
32954 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
33019 CAAAAAGTGTCGATTGAAAAACCATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* * *
33084 TAACCGGTATAAATATACCAGTTTTATGAGAGAATAGATCTACAACCTATATCG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
33138 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
33203 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
33265 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
33321 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* * *
33386 CAAAAAATGTCGACATT---TATACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* * *
33448 TATAACCGGTATAAATATATCGATTTTATGAGCGAATAGGTCTATAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
33504 ACACTTTTTAATATTGTGTCGGTACTTTATATCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* * *
33569 CAAAAAGTGTCGACATT---TACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
33631 TATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
33687 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
33752 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
** * * *
33817 TAATAGGTATAAATATACCGATTTTATAAGCGAATAGGTCTACAACCTATATTG
131 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
33871 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
33895 ATTTTAAGTA
Statistics
Matches: 1255, Mismatches: 48, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
181 3 0.00
183 525 0.42
184 724 0.58
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (184 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:36736 original size:23 final size:23
Alignment explanation
Indices: 36710--36782 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
36700 ATAGGTAAAA
* *
36710 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
36733 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
36756 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
36779 ATAT
1 ATAT
36783 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37181 original size:22 final size:22
Alignment explanation
Indices: 37137--37181 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
37127 ATTACATAAC
*
37137 TTTAAAAAAAGTATCGATCCTT
1 TTTAAAAAAAGTATCGAACCTT
*
37159 TTTATAAAAAGTAT-GAACACTT
1 TTTAAAAAAAGTATCGAAC-CTT
37181 T
1 T
37182 CAATATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGAACCTT
Found at i:37230 original size:23 final size:23
Alignment explanation
Indices: 37199--37271 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
37189 ATAGGTAAAA
*
37199 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
37222 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
37245 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
37268 ATAT
1 ATAT
37272 TATAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37285 original size:489 final size:489
Alignment explanation
Indices: 36367--38160 Score: 3186
Period size: 489 Copynumber: 3.7 Consensus size: 489
36357 TATGTACATA
36367 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
36432 ACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
* * *
36497 GGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATTAAAACAATCAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
36562 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAA
* ** *
36627 TTGAAACATAAATTACACAACTTTAAAAAAAGTATCGATTATTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTT
*
36692 TCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
*
36757 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTT
391 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
36822 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
*
36856 TTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
36921 ACG-TATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
*
36985 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATTAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
*
37050 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATT-AAAAAA
37115 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACT
260 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACT
37180 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTT
325 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTT
* *
37245 ATATAATGTAATAGGTAGTGCTTATATTATAAAGTATCTATCCTTTTTATAAAATTGTCCATACT
390 ATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACT
*
37310 TTTTTCACTGTGGAAAATATTAATTTAAGGTTATC
455 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATC
*
37345 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATTATTTATTTTTTACGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
37410 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
37475 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
131 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
37540 TTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTAGAAAACATGAAACACTATTAAAAAAA
196 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAA
*
37605 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
261 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTT
* *
37670 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAACGTTTA
326 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
37735 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
391 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
*
37800 ATTTCACTGTGGAAAACATTAATTTAAGGTTATC
456 TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
* * ** *
37834 TTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTATGTT
1 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
* * *
37899 ACGATATATATTATCATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATATTT
66 ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
37964 GGTTAATATTGTTAAATTTAAAATT-TAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
131 GGTTAATATTGTTAAATTT-AAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAAT
38028 TTTTTGTGCAAATGAAATTA-TAAATTAATATTGTAGGTAGAAAACATGAAACACTATT-AAAAA
195 TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAA
** *
38091 ATTGAAACATAAATTACATAACTTTAAAAAAA-TATCGATATTTTTTATAAAAAAATAT-AGACA
260 ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGA-ACA
38154 CTTTCAA
323 CTTTCAA
38161 CATATTATAA
Statistics
Matches: 1257, Mismatches: 43, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
486 14 0.01
487 55 0.04
488 216 0.17
489 787 0.63
490 185 0.15
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (489 bp):
TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
ACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAA
TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACACTT
TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT
TTTTCACTGTGGAAAACATTAATTTAAGGTTATC
Found at i:37719 original size:23 final size:23
Alignment explanation
Indices: 37688--37760 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37678 ATAGGTAAAA
* *
37688 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37711 ATATAATGTAATAGGTAACGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
37734 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
37757 ATAT
1 ATAT
37761 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:38263 original size:23 final size:23
Alignment explanation
Indices: 38234--38281 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
38224 AAATAAGTCA
*
38234 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAGTATATT
*
38257 ATATAAGCGCTACCTAGTATGTT
1 ATATAAGCGCTACCTAGTATATT
38280 AT
1 AT
38282 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAGTATATT
Found at i:40728 original size:18 final size:19
Alignment explanation
Indices: 40693--40728 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
40683 CACGGAATGT
40693 AAGATTACCAGTGGAATAA
1 AAGATTACCAGTGGAATAA
40712 AAGATTACCAG-GGAATA
1 AAGATTACCAGTGGAATA
40729 GGATTACAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGTGGAATAA
Found at i:41842 original size:13 final size:14
Alignment explanation
Indices: 41817--41848 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
41807 GTTTTTTTAA
41817 CGGTTCGGGTTTTT
1 CGGTTCGGGTTTTT
41831 CGGTTC-GGTTTTT
1 CGGTTCGGGTTTTT
41844 CGGTT
1 CGGTT
41849 TTTCAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.16, G:0.34, T:0.50
Consensus pattern (14 bp):
CGGTTCGGGTTTTT
Found at i:42277 original size:7 final size:6
Alignment explanation
Indices: 42241--42278 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
42231 TTGTTAGTTA
42241 AATTATT AA-TTT AATTTT AATTTT AATTTT AAATTTT A
1 AATT-TT AATTTT AATTTT AATTTT AATTTT -AATTTT A
42279 TTCACTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.14
6 17 0.59
7 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
AATTTT
Found at i:53445 original size:36 final size:36
Alignment explanation
Indices: 53400--53470 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
53390 ACTAAATTAC
* *
53400 AAGATTTTAAAATGATTAAAATTAGAGAATAAAAAT
1 AAGAGTTTAAAATGATGAAAATTAGAGAATAAAAAT
53436 AAGAGTTTAAAATGATGAAAATTAGAGAATAAAAA
1 AAGAGTTTAAAATGATGAAAATTAGAGAATAAAAA
53471 CTAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (36 bp):
AAGAGTTTAAAATGATGAAAATTAGAGAATAAAAAT
Found at i:53600 original size:13 final size:12
Alignment explanation
Indices: 53561--53601 Score: 57
Period size: 11 Copynumber: 3.3 Consensus size: 12
53551 TTTATTCTTA
53561 AATTGAAATATTT
1 AATT-AAATATTT
53574 AA-TAAATATTT
1 AATTAAATATTT
53585 AATTAAATAGTTT
1 AATTAAATA-TTT
53598 AATT
1 AATT
53602 TCTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 10 0.38
12 7 0.27
13 9 0.35
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (12 bp):
AATTAAATATTT
Found at i:55965 original size:16 final size:16
Alignment explanation
Indices: 55946--55988 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
55936 CAATTAGTAA
*
55946 TTAGCGGTTAGAAAAG
1 TTAGTGGTTAGAAAAG
*
55962 TTAGTTGTTAGAAAAG
1 TTAGTGGTTAGAAAAG
55978 TTAGTGGTTAG
1 TTAGTGGTTAG
55989 CAGAGTCCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (16 bp):
TTAGTGGTTAGAAAAG
Found at i:56278 original size:134 final size:130
Alignment explanation
Indices: 56058--56375 Score: 424
Period size: 134 Copynumber: 2.4 Consensus size: 130
56048 TCAAATATAT
**
56058 TAAATAAATAAATAAACAATGGTTAGAATGCGATAAAATAAAAATCAGTAGTTACAGAATCTGAA
1 TAAATAAATAAATAAACAATGGTTAGAATGAAATAAAATAAAAATCAGTAGTTACAGAATCTGAA
* *
56123 CCATAATAATGCATATCATACCCCAGATCAGGTCACCACAAGACGGAATCGAATATTATAAACAA
66 CCATAATAATGCAGATCATACCCCAGATCAGGTCACCACAAGACCGAATCGAATA--ATAAA-AA
56188 TAAA
128 T-AA
* * * *
56192 TAAATAAATAAAT-AACAATGGTTA-AAGTGAAATAAAATAAAAGTTAGTAGTTAGTAGAGTCTG
1 TAAATAAATAAATAAACAATGGTTAGAA-TGAAATAAAATAAAAATCAGTAGTTA-CAGAATCTG
** * * * * *
56255 AACCATAATAATGTGGATTATACCCCGGATCGGGTCACCACAAGGCCGAATCGAATAATAGAAAT
64 AACCATAATAATGCAGATCATACCCCAGATCAGGTCACCACAAGACCGAATCGAATAATAAAAAT
56320 AA
129 AA
*
56322 TAAATAAATAAATAAACAATGGTTAGAATGTAATAAAATAAAAATCAGTAGTTA
1 TAAATAAATAAATAAACAATGGTTAGAATGAAATAAAATAAAAATCAGTAGTTA
56376 ATATGCAGTA
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
130 15 0.09
131 37 0.23
132 8 0.05
133 33 0.20
134 69 0.43
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (130 bp):
TAAATAAATAAATAAACAATGGTTAGAATGAAATAAAATAAAAATCAGTAGTTACAGAATCTGAA
CCATAATAATGCAGATCATACCCCAGATCAGGTCACCACAAGACCGAATCGAATAATAAAAATAA
Found at i:56375 original size:29 final size:29
Alignment explanation
Indices: 56343--56407 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
56333 ATAAACAATG
*
56343 GTTAGAATGTAATAAAATAAAAATCAGTA
1 GTTAGAATGCAATAAAATAAAAATCAGTA
* * * *
56372 GTTA-ATATGCAGTAAAATAAAAGTTAGTT
1 GTTAGA-ATGCAATAAAATAAAAATCAGTA
56401 GTTAGAA
1 GTTAGAA
56408 ATAAATAACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.03
29 27 0.93
30 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (29 bp):
GTTAGAATGCAATAAAATAAAAATCAGTA
Found at i:57419 original size:18 final size:19
Alignment explanation
Indices: 57379--57416 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
57369 TGGTTCACGA
57379 AATGTAAGATTACCAGTGGG
1 AATGTAAGATTACCAG-GGG
57399 AATGTAAGATTACCAGGG
1 AATGTAAGATTACCAGGG
57417 AATAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (19 bp):
AATGTAAGATTACCAGGGG
Found at i:68544 original size:2 final size:2
Alignment explanation
Indices: 68537--68566 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
68527 AAAAATAAAG
68537 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
68567 AACATGACCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70281 original size:3 final size:3
Alignment explanation
Indices: 70275--70330 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
70265 TATTTATTAT
*
70275 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
70322 TAA TAA TAA
1 TAA TAA TAA
70331 AAGATCGAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:70670 original size:42 final size:42
Alignment explanation
Indices: 70586--70955 Score: 340
Period size: 42 Copynumber: 8.6 Consensus size: 42
70576 CTTTAACAGT
70586 TCTTACAGATGACCCGAAGGATTTCAACATCTTGCACTGAAGG
1 TCTTACAGATGACCCGAAGGATTT-AACATCTTGCACTGAAGG
*
70629 TCTTACAGATGACCCGAAGGCTTTAACATCTTGCACTGAAGG
1 TCTTACAGATGACCCGAAGGATTTAACATCTTGCACTGAAGG
* * * * *
70671 GCTTACAGATGACCCGAAGGATTTATAGAT-TAAGAAACCCCCGGAAGATTAG
1 TCTTACAGATGACCCGAAGGATTTA-ACATCT-TG-----CACTGAAG----G
* * * ** * * *
70723 TTTCTA-AAAT--CTC-ATTTGA--AAACATCCTGCATTGAAGG
1 TCT-TACAGATGACCCGA-AGGATTTAACATCTTGCACTGAAGG
** *
70761 TCTTATGGATGACCCGAAGGCTTTAACATCTTGCACTGAAGG
1 TCTTACAGATGACCCGAAGGATTTAACATCTTGCACTGAAGG
* *
70803 GCTTACAGATGACCCGAAGGATTTTAACATCTTGCATTGAAGG
1 TCTTACAGATGACCCGAAGGA-TTTAACATCTTGCACTGAAGG
* *
70846 TCTTACAGATGACCCAAAAGATTTCAACATCTTGCACTGAAGG
1 TCTTACAGATGACCCGAAGGATTT-AACATCTTGCACTGAAGG
*
70889 TCTTACAGATGACCCGAAGGCTTTAACATCTTGCACTGAAGG
1 TCTTACAGATGACCCGAAGGATTTAACATCTTGCACTGAAGG
*
70931 TCTTACAAATGACCCGAAGGATTTA
1 TCTTACAGATGACCCGAAGGATTTA
70956 TAGATTAAGA
Statistics
Matches: 261, Mismatches: 44, Indels: 45
0.75 0.13 0.13
Matches are distributed among these distances:
37 2 0.01
38 5 0.02
40 3 0.01
41 1 0.00
42 124 0.48
43 103 0.39
47 4 0.02
48 7 0.03
49 1 0.00
50 4 0.02
52 5 0.02
53 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (42 bp):
TCTTACAGATGACCCGAAGGATTTAACATCTTGCACTGAAGG
Found at i:71083 original size:12 final size:12
Alignment explanation
Indices: 71066--71103 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
71056 CTGCATTGAA
71066 GGTCTTATGGAT
1 GGTCTTATGGAT
*
71078 GGTCTTATAGAT
1 GGTCTTATGGAT
71090 GGTCTTATGGAT
1 GGTCTTATGGAT
71102 GG
1 GG
71104 CTCGTAGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.18, C:0.08, G:0.34, T:0.39
Consensus pattern (12 bp):
GGTCTTATGGAT
Found at i:71825 original size:22 final size:22
Alignment explanation
Indices: 71767--71826 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 22
71757 AATAAAGCTT
*
71767 TCATCTTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAA-TGAATCTA
71789 TCATCTTTGAAGAATGAATCTA
1 TCATCTTTGAAGAATGAATCTA
71811 TCATCTTTGAAGAATG
1 TCATCTTTGAAGAATG
71827 TAGATGTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAATGAATCTA
Found at i:72299 original size:55 final size:54
Alignment explanation
Indices: 72188--72325 Score: 206
Period size: 55 Copynumber: 2.5 Consensus size: 54
72178 ATAATTACTG
* *
72188 GTTCGTAGAATATTTGACAACACATTCATTATTTCTTGTGGTTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATTATTTCTTGTGGTTTCTGCACAGAT
* *
72242 GTTCGTAAAACATTTGACAACACATTTATTTTTTTCTTGTGGCTTT-TGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCA-TTATTTCTTGTGG-TTTCTGCACAGAT
*
72297 GTTCGTAAAACATTTCACAACACATTCAT
1 GTTCGTAAAACATTTGACAACACATTCAT
72326 CTTTTCCTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 26 0.34
55 47 0.62
56 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATTATTTCTTGTGGTTTCTGCACAGAT
Found at i:74107 original size:582 final size:582
Alignment explanation
Indices: 72423--74168 Score: 3379
Period size: 580 Copynumber: 3.0 Consensus size: 582
72413 TAAGAACAGA
72423 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
1 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
72488 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
66 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
* *
72553 ATTCATTTCTGTCTTACTGGAAATATTTTCTCAATTCAATGATCTTGACACAGGATGATATGGAC
131 ATTCCTTTCTGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTGACACAGGATGATATGGAC
72618 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
196 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
*
72683 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTGTTGTTGTTGTGAGCTTTCAAAAATGC
261 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTT-TTGTTGATGTGAGCTTTCAAAAATGC
72748 CCCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAA
325 CCCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAA
72813 AATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAG
390 AATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAG
72878 AATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAA
455 AATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAA
72943 TTAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
520 TTAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
73006 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
1 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
73071 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
66 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
73136 ATTCCTTTCTGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTG--ACAGGATGATATGGAC
131 ATTCCTTTCTGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTGACACAGGATGATATGGAC
73199 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
196 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
*
73264 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTTTGTTGACGTGAGCTTTCAAAAATGCC
261 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTTTGTTGATGTGAGCTTTCAAAAATGCC
73329 CCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAAA
326 CCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAAA
*
73394 ATGCCCCAACATTTGCTGATACAGATGTTAAAAATATTAATTCTTGCTGAGATGAGCCTCCAAGA
391 ATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAGA
73459 ATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAAT
456 ATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAAT
73524 TAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
521 TAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
73586 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
1 ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
*
73651 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACTGCTTCACCATTTTCATTCTTC
66 TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
* *
73716 ATTCCTTTATGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTGACACATGATGATATGGAC
131 ATTCCTTTCTGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTGACACAGGATGATATGGAC
* *
73781 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCAACAACATTCATGATTATGAT
196 CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
73846 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTTTGTTGATGTGAGCTTTCAAAAATGCC
261 TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTTTGTTGATGTGAGCTTTCAAAAATGCC
73911 CCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAAA
326 CCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAAA
73976 ATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAGA
391 ATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAGA
74041 ATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAAT
456 ATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAAT
74106 TAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
521 TAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
74168 A
1 A
74169 TGGATCTGTC
Statistics
Matches: 1149, Mismatches: 12, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
580 456 0.40
581 119 0.10
582 399 0.35
583 175 0.15
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (582 bp):
ACTCAATAGGAATACAAGGGGATGCATTGGTTTGCCAGCATCAAATCATCAGAATAATGCAACTG
TATAATGAACAAAGCAATTATATATAGTCAGCTCCATTGTCACGGCTTCACCATTTTCATTCTTC
ATTCCTTTCTGTCTTACTGGAAATATTTTCTCAAATCAATGATCTTGACACAGGATGATATGGAC
CTTCAATATGCCCCAATATTTGCTAATACAAATGTTCAAAATGCGACAACATTCATAATTATGAT
TGAAATGGGCTTTCAGCATGCCCCAACATTTGTTTTTTTTGTTGATGTGAGCTTTCAAAAATGCC
CCACCTTTTCATACTGATGTGCCTTCAAAATACCCCACATGGATATGTCTGAAGTGGCCTTTAAA
ATGCCCCAACATTTGCTGATACAGATGTTAAAAACATTAATTCTTGCTGAGATGAGCCTCCAAGA
ATGCCCAAATATTCATATTGCTGTGAGCCTTCAAAATGTCCCACATGGACCATTTCTGTTTGAAT
TAGGCATTCAAAATGCCCCAGTATTCTATTTCTGGTTAAAATGGGCCTTCAAGATGTCCCAC
Found at i:75506 original size:72 final size:72
Alignment explanation
Indices: 75389--75527 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
75379 ATATAATAGT
* *
75389 ATAACAAGCTAGCTGAATATTATCCATAATGCCGGGGTGATTAACCAATTGCTTTAGGGGGACAA
1 ATAACAAGCTACCTGAATATTATCCATAAAGCCGGGGTGATTAACCAATTGCTTTAGGGGGACAA
75454 CTCAAGC
66 CTCAAGC
* *
75461 ATAACAGGCTACCTGAATATTATCCATAAAGCCGGGGCT-ATTAACCAATTGCTTTAGGGGGATA
1 ATAACAAGCTACCTGAATATTATCCATAAAGCCGGGG-TGATTAACCAATTGCTTTAGGGGGACA
75525 ACT
65 ACT
75528 TAACCTTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 61 0.98
73 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (72 bp):
ATAACAAGCTACCTGAATATTATCCATAAAGCCGGGGTGATTAACCAATTGCTTTAGGGGGACAA
CTCAAGC
Found at i:77684 original size:7 final size:7
Alignment explanation
Indices: 77650--77689 Score: 57
Period size: 6 Copynumber: 5.9 Consensus size: 7
77640 TAAAAGTATG
77650 AATGCAA
1 AATGCAA
77657 AATG-AA
1 AATGCAA
77663 AATGCAA
1 AATGCAA
77670 AGATGCAA
1 A-ATGCAA
77678 AATGC-A
1 AATGCAA
77684 AATGCA
1 AATGCA
77690 TGTATGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 12 0.40
7 11 0.37
8 7 0.23
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (7 bp):
AATGCAA
Found at i:80229 original size:12 final size:12
Alignment explanation
Indices: 80184--80235 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
80174 CAAAGCATTT
80184 TTATTTTACTTG
1 TTATTTTACTTG
**
80196 TTCATTTTTTTTG
1 TT-ATTTTACTTG
80209 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
*
80223 TTATTTTCCTTG
1 TTATTTTACTTG
80235 T
1 T
80236 CTTTTCAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
12 11 0.34
13 12 0.38
14 9 0.28
ACGTcount: A:0.13, C:0.10, G:0.10, T:0.67
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:81752 original size:3 final size:3
Alignment explanation
Indices: 81746--81793 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
81736 ATTTATTTAT
* * *
81746 TAA TAA TAA TAA AAA T-A TATA TAA TAT TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
81791 TAA
1 TAA
81794 AGATCGAGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:83607 original size:24 final size:24
Alignment explanation
Indices: 83580--83653 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 24
83570 ACATGTTCGC
*
83580 TAAATAAACAAGTTCATGAACATA
1 TAAACAAACAAGTTCATGAACATA
* * *
83604 TAAACGAATACGTTCATGAACAT-
1 TAAACAAACAAGTTCATGAACATA
*
83627 TAAACAAACATA-TTCGTGAACA-A
1 TAAACAAACA-AGTTCATGAACATA
83650 TAAA
1 TAAA
83654 TAAATGAACG
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.51, C:0.15, G:0.09, T:0.24
Consensus pattern (24 bp):
TAAACAAACAAGTTCATGAACATA
Found at i:87692 original size:2 final size:2
Alignment explanation
Indices: 87687--87719 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
87677 AAAAAATTTA
*
87687 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87720 ATAATAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:87750 original size:14 final size:15
Alignment explanation
Indices: 87719--87756 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
87709 ATATACATAT
*
87719 AATAATAATAACATG
1 AATAATAATAAAATG
87734 AATAATAA-AAAATG
1 AATAATAATAAAATG
87748 AATAA-AATA
1 AATAATAATA
87757 TCCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:88210 original size:34 final size:34
Alignment explanation
Indices: 88169--88237 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
88159 GAATCATAGC
88169 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
*
88203 AAAATTCTATCATATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
88237 A
1 A
88238 GTAGGACGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:89092 original size:105 final size:105
Alignment explanation
Indices: 88785--89779 Score: 1401
Period size: 105 Copynumber: 9.5 Consensus size: 105
88775 CATTGTTCCA
* * * * ** * *
88785 AGTCCAATATCCTCCGTCGTGAAGCTGAAATTGGCTCTGGAACCGGAAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
* * *
88850 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
88891 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-T--GAAATT-TTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* * *
88951 AGCGGTCCATTCATCGTGAAGTTAAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
88991 AGTCCAATATCCTTAGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
*
89056 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
89096 ATTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
*
89161 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
89201 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
89266 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
89306 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAAC
89371 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
89412 AGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATTGTTGTTGACAACT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* * * *
89477 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
89517 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGAC-AA
89582 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
89624 AGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
* * *
89689 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
89730 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
89780 CCCCTTCATC
Statistics
Matches: 804, Mismatches: 75, Indels: 20
0.89 0.08 0.02
Matches are distributed among these distances:
99 1 0.00
100 78 0.10
101 1 0.00
102 6 0.01
104 5 0.01
105 391 0.49
106 226 0.28
107 96 0.12
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:89487 original size:211 final size:209
Alignment explanation
Indices: 88785--89779 Score: 1408
Period size: 211 Copynumber: 4.7 Consensus size: 209
88775 CATTGTTCCA
* * * ** *
88785 AGTCCAATATCCTCCG-TCGTGAAGCTGAAATTGGCTCTGGAACCGGAAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA
* *
88849 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
64 -CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
** * * * *
88914 GTTGAAATTGAATCTG-AA-T--GAA-ATTTTGTTGACAAACAGCGGTCCATTCATCGTGAAGTT
128 GTTGAAATTGGCTCTGAAATTGGGAAGTTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
88974 AAACTTGCGTTGTCTGG
193 GAACTTGCGTTGTCTGG
* * * * *
88991 AGTCCAATATCCTTAGTTGTGAAGTTAAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAA-C
* * ** *
89056 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGATTCCAATATCCTTCGTTGTGAAGT
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
* * * *
89121 TGAAATTGACTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCTCTGAAATTGGGAAGTTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
89186 ACTTGCGTTGTCTGA
195 ACTTGCGTTGTCTGG
* * * *
89201 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAA-C
* * * *
89266 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
89331 TGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
130 TGAAATTGGCTCTGAAATTGGGAAGTT-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
89396 AACTTGCGTTGTCTGG
194 AACTTGCGTTGTCTGG
*
89412 AGTCCAATATCCTTCGCTGTGAAGTTGAAACTGGCTCTGAAATTGGGAAATTGTTGTTGACAACT
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAAC-
* *
89477 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGATGTGAAGT
65 AGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
*
89542 TGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAACCAGCGGTCCCTTCGTCGTGAAGTT
130 TGAAATTGGCTCTGAAATTGGGAAGTT-TTTGTTGAC-AACCAGCGGTCCCTTCGTCGTGAAGTT
89607 GAACTTGCGTTGTCTGG
193 GAACTTGCGTTGTCTGG
* * *
89624 AGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTATGAAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAA-
* * *
89689 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCATTCGTTGTGAAG
64 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
89754 TTGAAATTGGCTCTGAAATTGGGAAG
129 TTGAAATTGGCTCTGAAATTGGGAAG
89780 CCCCTTCATC
Statistics
Matches: 716, Mismatches: 62, Indels: 15
0.90 0.08 0.02
Matches are distributed among these distances:
205 82 0.11
206 42 0.06
207 2 0.00
209 3 0.00
210 196 0.27
211 201 0.28
212 93 0.13
213 96 0.13
214 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (209 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACA
GCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGGGAAGTTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGG
Found at i:90955 original size:18 final size:18
Alignment explanation
Indices: 90928--90963 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90918 TGTTGAATCC
*
90928 CCAAATATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
90946 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
90964 TTGATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:91403 original size:22 final size:22
Alignment explanation
Indices: 91377--91431 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
91367 TTGTGTTTGG
91377 TCAAAGGTTTGGCATTTGATAC
1 TCAAAGGTTTGGCATTTGATAC
*
91399 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATAC
91421 TCAAAGGTTTG
1 TCAAAGGTTTG
91432 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATAC
Found at i:92105 original size:16 final size:15
Alignment explanation
Indices: 92063--92142 Score: 65
Period size: 16 Copynumber: 5.1 Consensus size: 15
92053 TTTTTGTCCC
92063 TTTTTCTTTTTGATT-T
1 TTTTTCTTTTT--TTGT
*
92079 TTATTCTTTTTTTTGT
1 TTTTTC-TTTTTTTGT
92095 TTTCTTCTTTTTTTGCT
1 TTT-TTCTTTTTTTG-T
92112 TCTTTTC-TTTTTTGT
1 T-TTTTCTTTTTTTGT
* *
92127 TTTTGCTCTTTTTGT
1 TTTTTCTTTTTTTGT
92142 T
1 T
92143 CTGATTGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.07
15 12 0.22
16 23 0.43
17 13 0.24
18 2 0.04
ACGTcount: A:0.03, C:0.11, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTTTTTGT
Found at i:95540 original size:5 final size:5
Alignment explanation
Indices: 95530--95558 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
95520 TCAAGTGATG
95530 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
95559 GAAAGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:97253 original size:2 final size:2
Alignment explanation
Indices: 97244--97289 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
97234 AATAAATAAA
97244 AT AT -T AT AT AT AT AT 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 AT AT AT AT AT AT AT AT AT
97284 AT AT AT
1 AT AT AT
97290 GAATAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97770 original size:34 final size:34
Alignment explanation
Indices: 97727--97795 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
97717 GAATCATAGC
97727 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
97761 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
97795 A
1 A
97796 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:105197 original size:21 final size:21
Alignment explanation
Indices: 105156--105198 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
105146 TCGTCTCAAG
*
105156 AACTTTTGTCTCAATTAAAAT
1 AACTTTTGTCTCAATGAAAAT
*
105177 AACTTTT-TCTTAATGATAAAT
1 AACTTTTGTCTCAATGA-AAAT
105198 A
1 A
105199 TCATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (21 bp):
AACTTTTGTCTCAATGAAAAT
Found at i:107240 original size:6 final size:6
Alignment explanation
Indices: 107229--107265 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
107219 ATAAAGAGAA
107229 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG G
1 GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG GAAAGG G
107266 GAGGAGAGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GAAAGG
Found at i:111993 original size:34 final size:34
Alignment explanation
Indices: 111940--112051 Score: 163
Period size: 34 Copynumber: 3.3 Consensus size: 34
111930 CCTTTTTTAA
* **
111940 ATTAATGATCATCTGAGCTAAACGTTAACATACAT
1 ATTAA-GATAATCTGAGCTAAGTGTTAACATACAT
*
111975 ATTAAGATAATCCGAGCTAAGTGTTAACATACAT
1 ATTAAGATAATCTGAGCTAAGTGTTAACATACAT
112009 ATTAAGATAATCTGAGCTAAGTGTTAACATACGA-
1 ATTAAGATAATCTGAGCTAAGTGTTAACATAC-AT
112043 ATTAAGATA
1 ATTAAGATA
112052 TGATAGTCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 65 0.92
35 6 0.08
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (34 bp):
ATTAAGATAATCTGAGCTAAGTGTTAACATACAT
Found at i:112389 original size:20 final size:20
Alignment explanation
Indices: 112364--112415 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
112354 TAAGCAAAGT
112364 AGTACTGATACTACTATAAC
1 AGTACTGATACTACTATAAC
*
112384 AGTACTGGTACTACTATAAC
1 AGTACTGATACTACTATAAC
112404 AGTACTGATACT
1 AGTACTGATACT
112416 GTTAAAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
AGTACTGATACTACTATAAC
Found at i:118353 original size:22 final size:20
Alignment explanation
Indices: 118294--118379 Score: 118
Period size: 20 Copynumber: 4.2 Consensus size: 20
118284 TTAGTACCGG
118294 TACTGTTCATCCAGTATCGA
1 TACTGTTCATCCAGTATCGA
118314 TACTGTTCATCCAGTATCGA
1 TACTGTTCATCCAGTATCGA
*
118334 TACTGTTCTTGCTCAGTATCGA
1 TACTGTTCAT-C-CAGTATCGA
** *
118356 TACTGTTCATATAGTACCGA
1 TACTGTTCATCCAGTATCGA
118376 TACT
1 TACT
118380 ATTCTTGTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
20 40 0.68
21 1 0.02
22 18 0.31
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (20 bp):
TACTGTTCATCCAGTATCGA
Found at i:118354 original size:42 final size:42
Alignment explanation
Indices: 118305--118386 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
118295 ACTGTTCATC
* * *
118305 CAGTATCGATACTGTTCATCCAGTATCGATACTGTTCTTGCT
1 CAGTATCGATACTGTTCATACAGTACCGATACTATTCTTGCT
*
118347 CAGTATCGATACTGTTCATATAGTACCGATACTATTCTTG
1 CAGTATCGATACTGTTCATACAGTACCGATACTATTCTTG
118387 TAGCCTCGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (42 bp):
CAGTATCGATACTGTTCATACAGTACCGATACTATTCTTGCT
Found at i:118866 original size:4 final size:4
Alignment explanation
Indices: 118859--118895 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
118849 TTTGTTTATA
*
118859 TATG TATG TA-- TATG TATG TATG TATG TATA TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
118896 TTTTTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 2 0.07
4 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:118872 original size:10 final size:10
Alignment explanation
Indices: 118857--118889 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
118847 AGTTTGTTTA
118857 TATATGTATG
1 TATATGTATG
118867 TATATGTATG
1 TATATGTATG
118877 --TATGTATG
1 TATATGTATG
118885 TATAT
1 TATAT
118890 ATGTATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (10 bp):
TATATGTATG
Found at i:121624 original size:21 final size:21
Alignment explanation
Indices: 121595--121648 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
121585 TAATGCAGGG
*
121595 AGTATTGATACTGATAGACGT
1 AGTACTGATACTGATAGACGT
121616 AGTACTGATACTGATAGACGT
1 AGTACTGATACTGATAGACGT
121637 AGTACTGATACT
1 AGTACTGATACT
121649 ACAAGTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (21 bp):
AGTACTGATACTGATAGACGT
Found at i:123467 original size:27 final size:27
Alignment explanation
Indices: 123437--123494 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
123427 GCCAAATAGG
* *
123437 CGTGGTGTATAGGTCGCGTCTTACTGT
1 CGTGGTGTATAGGCCGCGCCTTACTGT
123464 CGTGGTGTATAGGCCGCGCCTTACTGT
1 CGTGGTGTATAGGCCGCGCCTTACTGT
123491 CGTG
1 CGTG
123495 TGACACATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.22, G:0.34, T:0.33
Consensus pattern (27 bp):
CGTGGTGTATAGGCCGCGCCTTACTGT
Found at i:123695 original size:29 final size:30
Alignment explanation
Indices: 123649--123731 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 30
123639 ATACGCTCTT
* *
123649 AACCCGTAAACAT-TCACAACAATCCGCTC
1 AACCCGTAAATATCACACAACAATCCGCTC
* **
123678 AACCCG-AAA-ACTCACACAACAAACCTTTC
1 AACCCGTAAATA-TCACACAACAATCCGCTC
*
123707 AACCCGTAAATATCACCCAACAATC
1 AACCCGTAAATATCACACAACAATC
123732 TTGTTGAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.02
28 4 0.09
29 24 0.55
30 14 0.32
31 1 0.02
ACGTcount: A:0.42, C:0.37, G:0.05, T:0.16
Consensus pattern (30 bp):
AACCCGTAAATATCACACAACAATCCGCTC
Found at i:123794 original size:19 final size:19
Alignment explanation
Indices: 123750--123788 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
123740 TTAATCGATC
123750 GACGAATCGACCAAGAGGG
1 GACGAATCGACCAAGAGGG
123769 GACGAATCGACCAAGAGGG
1 GACGAATCGACCAAGAGGG
123788 G
1 G
123789 GTGAATTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.21, G:0.38, T:0.05
Consensus pattern (19 bp):
GACGAATCGACCAAGAGGG
Found at i:127283 original size:23 final size:22
Alignment explanation
Indices: 127252--127333 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
127242 AAACCCGACT
*
127252 AGTGTATCGATGCACATTCAAAG
1 AGTGCATCGATGCACATTC-AAG
* * *
127275 AGTGCATCGGTGCACCTTCATG
1 AGTGCATCGATGCACATTCAAG
*
127297 -GTGAATCGATGCACATTCAAG
1 AGTGCATCGATGCACATTCAAG
*
127318 GGATGCATCGATGCAC
1 AG-TGCATCGATGCAC
127334 TAACTAGTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 17 0.35
22 3 0.06
23 28 0.58
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (22 bp):
AGTGCATCGATGCACATTCAAG
Found at i:131192 original size:22 final size:21
Alignment explanation
Indices: 131150--131189 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
131140 AAGACTATTT
131150 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
131171 TCATTTTTGC-ATTTTGAAA
1 TCATTTTT-CAATTTTGAAA
131190 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:141222 original size:3 final size:3
Alignment explanation
Indices: 141214--141258 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
141204 CTCCTCACTG
* * *
141214 TCA TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCG TCG TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
141259 GGAGCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.36, G:0.04, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:143158 original size:27 final size:30
Alignment explanation
Indices: 143104--143159 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
143094 CTAAAAATAT
* *
143104 TAATAATTACAAAAATTAATTTATATAAAC
1 TAATAATTACAAAAATTAATATAAATAAAC
143134 TAATAA-TA-AAAAATTAA-ATAAATAAA
1 TAATAATTACAAAAATTAATATAAATAAA
143160 TTATTACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 9 0.38
29 2 0.08
30 6 0.25
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATAATTACAAAAATTAATATAAATAAAC
Found at i:143298 original size:13 final size:13
Alignment explanation
Indices: 143280--143331 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
143270 ACTGCAAATA
143280 AAATAAAATAATT
1 AAATAAAATAATT
**
143293 AAATAAAATACTAAAA
1 AAAT-AAA-A-TAATT
*
143309 AAATTAAATAATT
1 AAATAAAATAATT
143322 AAATAAAATA
1 AAATAAAATA
143332 CTAACAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 3 0.10
16 7 0.23
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:143317 original size:29 final size:30
Alignment explanation
Indices: 143279--143349 Score: 117
Period size: 29 Copynumber: 2.4 Consensus size: 30
143269 AACTGCAAAT
*
143279 AAAATAAAATAATTAAATAAAATACTAA-A
1 AAAATTAAATAATTAAATAAAATACTAACA
143308 AAAATTAAATAATTAAATAAAATACTAACA
1 AAAATTAAATAATTAAATAAAATACTAACA
143338 AAATATTAAATA
1 AAA-ATTAAATA
143350 GAATAAAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 27 0.69
30 4 0.10
31 8 0.21
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (30 bp):
AAAATTAAATAATTAAATAAAATACTAACA
Found at i:143328 original size:21 final size:19
Alignment explanation
Indices: 143275--143329 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
143265 TTATAACTGC
*
143275 AAAT-AAAATAAAATAATT
1 AAATAAAAATAAAAAAATT
143293 AAATAAAATACTAAAAAAATT
1 AAATAAAA-A-TAAAAAAATT
143314 AAATAATTAAATAAAA
1 AAATAA--AAATAAAA
143330 TACTAACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 1 0.03
21 20 0.65
22 1 0.03
23 2 0.06
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (19 bp):
AAATAAAAATAAAAAAATT
Found at i:143459 original size:5 final size:5
Alignment explanation
Indices: 143443--143483 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
143433 GAGATATTTA
* * *
143443 TAGGG TAAGG TAGGG TAGGG TAGGG TAGAG TAGGG TGGGG T
1 TAGGG TAGGG TAGGG TAGGG TAGGG TAGGG TAGGG TAGGG T
143484 GATGGCAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (5 bp):
TAGGG
Found at i:143835 original size:31 final size:31
Alignment explanation
Indices: 143756--143835 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 31
143746 ATATATTCGG
* *
143756 GTCGGGTCGGATCAGGTGAAACCTTAATTTT
1 GTCGGGTCGGGTCAAGTGAAACCTTAATTTT
*
143787 GTCGGGTCGATCGGGTCAATTGAAACCTTAATTTT
1 GTC-GG--G-TCGGGTCAAGTGAAACCTTAATTTT
143822 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
143836 CGGGTGGAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 11 0.26
32 3 0.07
34 3 0.07
35 25 0.60
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (31 bp):
GTCGGGTCGGGTCAAGTGAAACCTTAATTTT
Found at i:144237 original size:22 final size:21
Alignment explanation
Indices: 144190--144237 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
144180 AATCGTCTTT
*
144190 ATTTTATATATTAGTTTTAAA
1 ATTTTATATATTAATTTTAAA
144211 A-TTTATAT-TTAATTTTCATAA
1 ATTTTATATATTAATTTT-A-AA
144232 ATTTTA
1 ATTTTA
144238 GTTTAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 7 0.30
20 8 0.35
21 4 0.17
22 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTATATATTAATTTTAAA
Found at i:145166 original size:6 final size:6
Alignment explanation
Indices: 145155--145180 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
145145 AAATAAGGAC
145155 GAGTTT GAGTTT GAGTTT GAGTTT GA
1 GAGTTT GAGTTT GAGTTT GAGTTT GA
145181 CTCGACTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (6 bp):
GAGTTT
Found at i:145588 original size:39 final size:38
Alignment explanation
Indices: 145512--145597 Score: 120
Period size: 38 Copynumber: 2.2 Consensus size: 38
145502 TCCGATTCAA
*
145512 TCGGGTCGGATTTTTTTAAAAAAATTTTCGGGTTCGGG
1 TCGGGTCGGATTTTTTTAAAAAAATGTTCGGGTTCGGG
* *
145550 TCGGGTCGGATTTTTTTAAAATGCACTGTTCGGG-TCGGG
1 TCGGGTCGGATTTTTTTAAAA--AAATGTTCGGGTTCGGG
145589 TCGGGTCGG
1 TCGGGTCGG
145598 GTTTAGGGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 21 0.49
39 14 0.33
40 8 0.19
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (38 bp):
TCGGGTCGGATTTTTTTAAAAAAATGTTCGGGTTCGGG
Found at i:150398 original size:15 final size:15
Alignment explanation
Indices: 150380--150410 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
150370 AAATTCTAAA
150380 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
150395 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
150410 T
1 T
150411 CATCGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:154963 original size:37 final size:38
Alignment explanation
Indices: 154881--154966 Score: 111
Period size: 38 Copynumber: 2.3 Consensus size: 38
154871 TTTGAAAATA
* * **
154881 TTTTTAAAAACATATAATATATAGTTTTTAGAAAACGG
1 TTTTTGAAAACATATAATATATAATTTCGAGAAAACGG
* *
154919 TTATTGAAAATATATAATATATAATTTCGA-AAAACGG
1 TTTTTGAAAACATATAATATATAATTTCGAGAAAACGG
154956 TTTTTGAAAAC
1 TTTTTGAAAAC
154967 GTATTTTGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
37 16 0.40
38 24 0.60
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.38
Consensus pattern (38 bp):
TTTTTGAAAACATATAATATATAATTTCGAGAAAACGG
Found at i:154988 original size:88 final size:87
Alignment explanation
Indices: 154869--155039 Score: 224
Period size: 88 Copynumber: 2.0 Consensus size: 87
154859 TACAGTATAA
* *
154869 TTTTTGAAAATATTTTTAAAAACATATAATATATAGTTTTTAG-AAAACGGTTATT-GAAAATAT
1 TTTTTGAAAATATTTTTAAAAACATAAAATATATAG-TTTTAGTAAAACAGTT-TTCGAAAATAT
154932 ATA-ATATATAATTTCGAAAAACGG
64 ATATA-ATATAATTTCGAAAAACGG
* *
154956 TTTTTGAAAACGTA-TTTTGAAAACATAAAATATATAGTTTTAGTAAAACAGTTTTCGAAAATGT
1 TTTTTGAAAA--TATTTTTAAAAACATAAAATATATAGTTTTAGTAAAACAGTTTTCGAAAATAT
*
155020 ATATAATATAATTTTGAAAA
64 ATATAATATAATTTCGAAAA
155040 CATATATATA
Statistics
Matches: 74, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
87 18 0.24
88 53 0.72
89 3 0.04
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.39
Consensus pattern (87 bp):
TTTTTGAAAATATTTTTAAAAACATAAAATATATAGTTTTAGTAAAACAGTTTTCGAAAATATAT
ATAATATAATTTCGAAAAACGG
Found at i:155010 original size:51 final size:50
Alignment explanation
Indices: 154903--155023 Score: 127
Period size: 51 Copynumber: 2.4 Consensus size: 50
154893 TATAATATAT
* * *
154903 AGTTTTTAGAAAACGGT-TATTGAAAATATATAATATATAATTTCGAAAAAC
1 AGTTTTT-GAAAAC-GTATATTGAAAACATAAAATATATAATTTAGAAAAAC
* * * *
154954 GGTTTTTGAAAACGTATTTTGAAAACATAAAATATATAGTTTTAGTAAAAC
1 AGTTTTTGAAAACGTATATTGAAAACATAAAATATATA-ATTTAGAAAAAC
* *
155005 AGTTTTCGAAAATGTATAT
1 AGTTTTTGAAAACGTATAT
155024 AATATAATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.04
50 25 0.44
51 30 0.53
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (50 bp):
AGTTTTTGAAAACGTATATTGAAAACATAAAATATATAATTTAGAAAAAC
Found at i:155056 original size:22 final size:23
Alignment explanation
Indices: 155005--155062 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
154995 TTAGTAAAAC
**
155005 AGTTTTCGAAAATGTATATAATAT
1 AGTTTT-GAAAACATATATAATAT
*
155029 AATTTTGAAAACATATAT-ATAT
1 AGTTTTGAAAACATATATAATAT
*
155051 AGTTTTTAAAAC
1 AGTTTTGAAAAC
155063 GGTTTTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 14 0.48
23 10 0.34
24 5 0.17
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (23 bp):
AGTTTTGAAAACATATATAATAT
Found at i:155112 original size:62 final size:58
Alignment explanation
Indices: 154969--155124 Score: 179
Period size: 60 Copynumber: 2.6 Consensus size: 58
154959 TTGAAAACGT
* *
154969 ATTTTGAAAACATAAAATATATAGTTTTAGTAAAACAGTTTTCGAAAATGTATATAATATA
1 ATTTTGAAAACAT-ATATATATAGTTTT--TAAAACAGTTTTCGAAAATATATATAATATA
* *
155030 ATTTTGAAAACATATATATATAGTTTTTAAAACGGTTTTTGAAAACATATATAATATATATA
1 ATTTTGAAAACATATATATATAGTTTTTAAAACAGTTTTCG-AAA-ATATAT-ATA-ATATA
*
155092 ATTTTTGAAATCATAT-TATATAGTTTTTGAAAA
1 A-TTTTGAAAACATATATATATAGTTTTT-AAAA
155125 TATAATTTAT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
58 12 0.14
59 3 0.04
60 18 0.21
61 16 0.19
62 18 0.21
63 17 0.20
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (58 bp):
ATTTTGAAAACATATATATATAGTTTTTAAAACAGTTTTCGAAAATATATATAATATA
Found at i:155134 original size:24 final size:23
Alignment explanation
Indices: 155078--155134 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
155068 TTGAAAACAT
*
155078 ATATAATATATATAATTTTTGAA
1 ATATAATTTATATAATTTTTGAA
*
155101 ATCAT-A-TTATATAGTTTTTGAAA
1 AT-ATAATTTATATAATTTTTG-AA
155124 ATATAATTTAT
1 ATATAATTTAT
155135 GTTATATAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 14 0.50
23 8 0.29
24 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (23 bp):
ATATAATTTATATAATTTTTGAA
Found at i:155196 original size:9 final size:8
Alignment explanation
Indices: 155169--155242 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 8
155159 AGTATACGCT
155169 TTATATATA
1 TTAT-TATA
*
155178 TATATAATA
1 T-TATTATA
155187 TTAGTTATA
1 TTA-TTATA
155196 TTATTATTA
1 TTATTA-TA
*
155205 TTTATTATT
1 -TTATTATA
155214 TTA-TAT-
1 TTATTATA
155220 TTATTATA
1 TTATTATA
155228 TTA-TAT-
1 TTATTATA
155234 TTATT-TA
1 TTATTATA
155241 TT
1 TT
155243 TAATTTTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
6 7 0.13
7 12 0.22
8 11 0.20
9 15 0.28
10 9 0.17
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:155212 original size:18 final size:18
Alignment explanation
Indices: 155191--155242 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 18
155181 ATAATATTAG
155191 TTATATTATTATTATTTA
1 TTATATTATTATTATTTA
155209 -T-TATT-TTA-TATTTA
1 TTATATTATTATTATTTA
155223 TTATATTA-TATTTATTTA
1 TTATATTATTA-TTATTTA
155241 TT
1 TT
155243 TAATTTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 6 0.21
15 4 0.14
16 10 0.34
17 1 0.03
18 8 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATATTATTATTATTTA
Found at i:155222 original size:14 final size:14
Alignment explanation
Indices: 155194--155252 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
155184 ATATTAGTTA
*
155194 TATTATTAT-TATT
1 TATTATTTTATATT
155207 TATTATTTTATATT
1 TATTATTTTATATT
*
155221 TATTATATTATATT
1 TATTATTTTATATT
*
155235 TATTTATTTAAT-TT
1 TA-TTATTTTATATT
155249 TATT
1 TATT
155253 TTTGACTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
13 10 0.25
14 23 0.57
15 7 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATTTTATATT
Found at i:155253 original size:32 final size:32
Alignment explanation
Indices: 155191--155253 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
155181 ATAATATTAG
*
155191 TTATATTATTATTATTTATTATTTTATATTTA
1 TTATATTATTATTATTTATTAATTTATATTTA
155223 TTATATTA-TATTTATTTATTTAATTT-TATTT
1 TTATATTATTA-TTATTTA-TTAATTTATATTT
155254 TTGACTGTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 2 0.07
32 20 0.71
33 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (32 bp):
TTATATTATTATTATTTATTAATTTATATTTA
Found at i:156430 original size:15 final size:16
Alignment explanation
Indices: 156412--156441 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
156402 CGTTTATGTT
156412 TTTTTATTTA-TTTAA
1 TTTTTATTTACTTTAA
156427 TTTTTATTTACTTTA
1 TTTTTATTTACTTTA
156442 TTCTAACCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATTTACTTTAA
Found at i:157483 original size:36 final size:35
Alignment explanation
Indices: 157441--157509 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
157431 TCAGAAAATT
*
157441 AACATGTGAGATAGAA-ATCATGTCTGGGTAGGAAAA
1 AACATGTGAGATA-AACATCATGT-GGGGTAGGAAAA
* *
157477 AACATGTGGGGTAAACATCATGTGGGGTAGGAA
1 AACATGTGAGATAAACATCATGTGGGGTAGGAA
157510 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.22
Consensus pattern (35 bp):
AACATGTGAGATAAACATCATGTGGGGTAGGAAAA
Found at i:158280 original size:22 final size:22
Alignment explanation
Indices: 158226--158281 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
158216 ACTGAAGTAG
*
158226 GTATCGGTACCATATAAGAGAA
1 GTATCGGTACTATATAAGAGAA
158248 GTATCGGTACTATATAAGAGAA
1 GTATCGGTACTATATAAGAGAA
158270 GTATCGGTACTA
1 GTATCGGTACTA
158282 CAAGAAGAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (22 bp):
GTATCGGTACTATATAAGAGAA
Found at i:159039 original size:23 final size:23
Alignment explanation
Indices: 159009--159099 Score: 137
Period size: 23 Copynumber: 4.0 Consensus size: 23
158999 GTCGAGGGTT
*
159009 CTATGTGGTCCTTTGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
159032 CTATGTGGTCTTTTGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
* *
159055 CTATGTGATCATTCGGGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
159078 CTATGTGGTCCTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
159100 TACGTGGAAC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:161914 original size:24 final size:24
Alignment explanation
Indices: 161887--161959 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
161877 TCAAGAAGAC
* *
161887 TCATCTGCTACAAAAGCATAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
*
161911 TCATCTGTTGCAAAAGCACAAGCT
1 TCATCTGCTGCAAAAGCACAAGCT
161935 TCATC-GACTGCAAAAGCACAAGCT
1 TCATCTG-CTGCAAAAGCACAAGCT
161959 T
1 T
161960 TCGTAACTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 43 0.98
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (24 bp):
TCATCTGCTGCAAAAGCACAAGCT
Found at i:165379 original size:18 final size:18
Alignment explanation
Indices: 165356--165390 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
165346 CTGAAGTTGG
*
165356 GCACGAATGAATAAAAGC
1 GCACGAAAGAATAAAAGC
165374 GCACGAAAGAATAAAAG
1 GCACGAAAGAATAAAAG
165391 AAAAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.23, T:0.09
Consensus pattern (18 bp):
GCACGAAAGAATAAAAGC
Found at i:167384 original size:54 final size:54
Alignment explanation
Indices: 167319--167710 Score: 596
Period size: 54 Copynumber: 7.3 Consensus size: 54
167309 CTTTGGGGTA
* *
167319 CACACGTAGTGCCTATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTG
* *
167373 CACACTTAGTGCCGATACAGTCGTTCATAAACATATTATGAA-TTCTGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGTTG
* *
167427 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATAAATTCCGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTG
167481 CACACTTAGTGCCGATACGGTCGTTCATAAA-TATATTATGAATTTCGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACT-TATTATGAATTTCGTGGGTTG
*
167535 CACACTTAGTTCCGATACGGTCGTTCATAAACTTATTATGAA-TTCTGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGTTG
*
167589 CACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTAT-GTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATT-TCGTGGGTTG
** * *
167643 CACACTTAGTGTTGATACGATCGTTTATAAACTTATTATGAA-TTCTGTGGGTTG
1 CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTC-GTGGGTTG
167697 CACACTTAGTGCCG
1 CACACTTAGTGCCG
167711 GTAGTACACC
Statistics
Matches: 309, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
52 1 0.00
53 8 0.03
54 295 0.95
55 4 0.01
56 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (54 bp):
CACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTG
Found at i:171083 original size:21 final size:21
Alignment explanation
Indices: 171028--171109 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
171018 TATACAATTG
*
171028 TCCCGAAGGACCACGTAGAAATA
1 TCCCGAAGGACCAC--ATAAATA
* * * * *
171051 TCCCTAATGACCATATATATT
1 TCCCGAAGGACCACATAAATA
171072 TCCCGAAGGACCACATAAATA
1 TCCCGAAGGACCACATAAATA
171093 TCCCGAAGGACCACATA
1 TCCCGAAGGACCACATA
171110 GAGTTGTCCC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 37 0.77
23 11 0.23
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.20
Consensus pattern (21 bp):
TCCCGAAGGACCACATAAATA
Found at i:171175 original size:21 final size:20
Alignment explanation
Indices: 171151--171209 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
171141 AAAGAACCAA
*
171151 ATATATGTCTCGAAGGATCGC
1 ATATATGT-TCGAAGGATCAC
* *
171172 ATATATGTTCCAAAGGATTAC
1 ATATATGTT-CGAAGGATCAC
171193 ATATATGTTCTGAAGGA
1 ATATATGTTC-GAAGGA
171210 CCGCGTAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 30 0.94
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (20 bp):
ATATATGTTCGAAGGATCAC
Found at i:175444 original size:21 final size:21
Alignment explanation
Indices: 175414--175568 Score: 114
Period size: 21 Copynumber: 7.3 Consensus size: 21
175404 TAAAATTGTC
* *
175414 CCGAATGACCCCATATATGTT
1 CCGAAGGACCACATATATGTT
* *
175435 CCGAAGGACCACATAAAT-AT
1 CCGAAGGACCACATATATGTT
* * * *
175455 CCTGAAGAATCACATAAAATTGTC
1 CC-GAAGGACCACAT-ATA-TGTT
*
175479 CCTAAGGACCACATATATGTT
1 CCGAAGGACCACATATATGTT
** * * *
175500 CTAAAGGACCAAATATATATC
1 CCGAAGGACCACATATATGTT
175521 CCGAAGGACCACATATATGTT
1 CCGAAGGACCACATATATGTT
* * * *
175542 CCAAAAGATCACATATATGTC
1 CCGAAGGACCACATATATGTT
175563 CCGAAG
1 CCGAAG
175569 AACCGCGTAG
Statistics
Matches: 101, Mismatches: 29, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
20 3 0.03
21 81 0.80
22 5 0.05
23 10 0.10
24 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (21 bp):
CCGAAGGACCACATATATGTT
Found at i:175507 original size:65 final size:65
Alignment explanation
Indices: 175403--175535 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 65
175393 TGAGTGCCAT
* * * * * *
175403 ATAAAATTGTCCCGAATGACCCCATATATGTTCCGAAGGACCACATAAATATCCTGAAGAATCAC
1 ATAAAATTGTCCCGAAGGACCACATATATGTTCCAAAGGACCAAATAAATATCCCGAAGAACCAC
* * * *
175468 ATAAAATTGTCCCTAAGGACCACATATATGTTCTAAAGGACCAAATATATATCCCGAAGGACCAC
1 ATAAAATTGTCCCGAAGGACCACATATATGTTCCAAAGGACCAAATAAATATCCCGAAGAACCAC
175533 ATA
1 ATA
175536 TATGTTCCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (65 bp):
ATAAAATTGTCCCGAAGGACCACATATATGTTCCAAAGGACCAAATAAATATCCCGAAGAACCAC
Found at i:175535 original size:42 final size:42
Alignment explanation
Indices: 175477--175568 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
175467 CATAAAATTG
* * *
175477 TCCCTAAGGACCACATATATGTTCTAAAGGACCAAATATATA
1 TCCCGAAGGACCACATATATGTTCCAAAAGACCAAATATATA
* * *
175519 TCCCGAAGGACCACATATATGTTCCAAAAGATCACATATATG
1 TCCCGAAGGACCACATATATGTTCCAAAAGACCAAATATATA
175561 TCCCGAAG
1 TCCCGAAG
175569 AACCGCGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (42 bp):
TCCCGAAGGACCACATATATGTTCCAAAAGACCAAATATATA
Found at i:178307 original size:36 final size:36
Alignment explanation
Indices: 178177--178385 Score: 157
Period size: 37 Copynumber: 5.8 Consensus size: 36
178167 TAATATGTAG
* *
178177 TATAGTTTTTGAAAATAT-TTTTGAAAAC--ATAAAA
1 TATAG-TTTTGAAAACATATTTTGAAAACGTATAATA
** *
178211 TATAGTCTCAGAAAACGAT-TGTTGAAAACGTATAATA
1 TATAGT-TTTGAAAAC-ATATTTTGAAAACGTATAATA
* *
178248 TATAGTTTCGAAAAACGGT-TTTTGAAAACGTAT-ATAA
1 TATAGTTTTG-AAAAC-ATATTTTGAAAACGTATAAT-A
* *
178285 TATGGTTTTGAAAACATATTTTGAAAACATATAATA
1 TATAGTTTTGAAAACATATTTTGAAAACGTATAATA
* *
178321 TATAGTTTT-AAAA-ATTGGTTTTCGAAAACTTAT-ATAA
1 TATAGTTTTGAAAACA-T-ATTTT-GAAAACGTATAAT-A
*
178358 TATAGTTTTGAAAAGATATTTTGAAAAC
1 TATAGTTTTGAAAACATATTTTGAAAAC
178386 ACACACACAC
Statistics
Matches: 144, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
33 1 0.01
34 12 0.08
35 17 0.12
36 43 0.30
37 65 0.45
38 5 0.03
39 1 0.01
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (36 bp):
TATAGTTTTGAAAACATATTTTGAAAACGTATAATA
Found at i:178308 original size:13 final size:13
Alignment explanation
Indices: 178290--178316 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
178280 TATAATATGG
178290 TTTTGAAAACATA
1 TTTTGAAAACATA
178303 TTTTGAAAACATA
1 TTTTGAAAACATA
178316 T
1 T
178317 AATATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TTTTGAAAACATA
Found at i:178309 original size:73 final size:73
Alignment explanation
Indices: 178232--178386 Score: 231
Period size: 73 Copynumber: 2.1 Consensus size: 73
178222 AAAACGATTG
* * *
178232 TTGAAAACGTATAATATATAGTTTCGAAAAA-CGGTTTTTGAAAACGTATATAATATGGTTTTGA
1 TTGAAAACATATAATATATAGTTT-GAAAAATCGGTTTTCGAAAACGTATATAATATAGTTTTGA
178296 AAACATATT
65 AAACATATT
* * *
178305 TTGAAAACATATAATATATAGTTTTAAAAATTGGTTTTCGAAAACTTATATAATATAGTTTTGAA
1 TTGAAAACATATAATATATAGTTTGAAAAATCGGTTTTCGAAAACGTATATAATATAGTTTTGAA
*
178370 AAGATATT
66 AACATATT
178378 TTGAAAACA
1 TTGAAAACA
178387 CACACACACA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
72 5 0.07
73 69 0.93
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (73 bp):
TTGAAAACATATAATATATAGTTTGAAAAATCGGTTTTCGAAAACGTATATAATATAGTTTTGAA
AACATATT
Found at i:178391 original size:2 final size:2
Alignment explanation
Indices: 178384--178424 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
178374 TATTTTGAAA
178384 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
178425 TATATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:178494 original size:24 final size:24
Alignment explanation
Indices: 178467--178523 Score: 91
Period size: 22 Copynumber: 2.5 Consensus size: 24
178457 TTGAAAACAT
178467 ATATAATATATATAATTTTTGAAA
1 ATATAATATATATAATTTTTGAAA
*
178491 ATAT-AT-TATATAGTTTTTGAAA
1 ATATAATATATATAATTTTTGAAA
178513 ATATAATATAT
1 ATATAATATAT
178524 GTTATATAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 19 0.63
23 4 0.13
24 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (24 bp):
ATATAATATATATAATTTTTGAAA
Found at i:178554 original size:31 final size:29
Alignment explanation
Indices: 178491--178556 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
178481 ATTTTTGAAA
* *
178491 ATATATTATATAGTTTTTGAAAATATAAT
1 ATATGTTATATAGTTTTTAAAAATATAAT
*
178520 ATATGTTATATAGTTTTTAAATAAATATAGT
1 ATATGTTATATAGTTTTT-AA-AAATATAAT
178551 ATATGT
1 ATATGT
178557 ATTATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 17 0.53
30 1 0.03
31 14 0.44
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (29 bp):
ATATGTTATATAGTTTTTAAAAATATAAT
Found at i:178564 original size:5 final size:5
Alignment explanation
Indices: 178556--178643 Score: 89
Period size: 5 Copynumber: 18.2 Consensus size: 5
178546 ATAGTATATG
* *
178556 TATTA TATTA TATTA TA-TA T-TTA TATTA TATTA TTATTT TTTATA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA TAT-TA TATTA
178606 TATT- TA-TA TATTA TATTA TATATA TATTA T-TTA T-TTA T
1 TATTA TATTA TATTA TATTA TAT-TA TATTA TATTA TATTA T
178644 TTAATTTCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
3 1 0.01
4 18 0.25
5 41 0.57
6 12 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TATTA
Found at i:178581 original size:13 final size:14
Alignment explanation
Indices: 178544--178630 Score: 110
Period size: 13 Copynumber: 6.4 Consensus size: 14
178534 TTTTAAATAA
*
178544 ATATAGTATATGTAT
1 ATATATTATAT-TAT
178559 -TATATTATATTAT
1 ATATATTATATTAT
178572 ATAT-TTATATTAT
1 ATATATTATATTAT
* *
178585 AT-TATTATTTTTT
1 ATATATTATATTAT
178598 ATATATTATATT-T
1 ATATATTATATTAT
178611 ATATATTATATTAT
1 ATATATTATATTAT
178625 ATATAT
1 ATATAT
178631 ATTATTTATT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
12 1 0.02
13 36 0.56
14 27 0.42
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
ATATATTATATTAT
Found at i:178602 original size:2 final size:2
Alignment explanation
Indices: 178544--178632 Score: 54
Period size: 2 Copynumber: 49.0 Consensus size: 2
178534 TTTTAAATAA
* *
178544 AT AT AGT AT AT GT AT -T AT AT -T AT AT -T AT AT AT TT AT AT -T
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
178583 AT AT -T AT -T AT -T TT TT AT AT AT -T AT AT TT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178620 AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT
178633 TATTTATTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 22
0.70 0.07 0.22
Matches are distributed among these distances:
1 10 0.14
2 57 0.83
3 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (2 bp):
AT
Found at i:178606 original size:40 final size:40
Alignment explanation
Indices: 178559--178644 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 40
178549 GTATATGTAT
*
178559 TATATTATA-TTATATATTTATATTATAT-TATTATTTTTTA
1 TATATTATATTTATATA-TTATATTATATATA-TATTATTTA
178599 TATATTATATTTATATATTATATTATATATATATTATTTA
1 TATATTATATTTATATATTATATTATATATATATTATTTA
*
178639 TTTATT
1 TATATT
178645 TAATTTCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 33 0.79
41 9 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (40 bp):
TATATTATATTTATATATTATATTATATATATATTATTTA
Found at i:178655 original size:5 final size:4
Alignment explanation
Indices: 178558--178646 Score: 56
Period size: 4 Copynumber: 20.8 Consensus size: 4
178548 AGTATATGTA
* *
178558 TTAT ATTAT ATTAT ATAT TTAT ATTAT ATTA- TTAT TT-T TTAT ATAT
1 TTAT -TTAT -TTAT TTAT TTAT -TTAT -TTAT TTAT TTAT TTAT TTAT
* *
178604 TATAT TTAT ATAT TATAT TATAT ATAT ATTAT TTAT TTAT TTA
1 T-TAT TTAT TTAT T-TAT T-TAT TTAT -TTAT TTAT TTAT TTA
178647 ATTTCATTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
3 6 0.09
4 32 0.46
5 32 0.46
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:179825 original size:17 final size:16
Alignment explanation
Indices: 179765--179822 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
179755 GATCCTTATA
*
179765 ATTTAAATTTTTGTTT
1 ATTTAAATTTTTATTT
*
179781 ATTT---CTTTTATTT
1 ATTTAAATTTTTATTT
179794 ATTTAAATTTTTATTT
1 ATTTAAATTTTTATTT
179810 AATTTTAAATTTT
1 -A-TTTAAATTTT
179823 ATTACTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 11 0.32
16 12 0.35
17 1 0.03
18 10 0.29
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTTAAATTTTTATTT
Found at i:179825 original size:29 final size:29
Alignment explanation
Indices: 179765--179821 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
179755 GATCCTTATA
* * **
179765 ATTTAAATTTTTGTTTATTTCTTTTATTT
1 ATTTAAATTTTTATTTAATTCTTAAATTT
179794 ATTTAAATTTTTATTTAATT-TTAAATTT
1 ATTTAAATTTTTATTTAATTCTTAAATTT
179822 TATTACTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (29 bp):
ATTTAAATTTTTATTTAATTCTTAAATTT
Found at i:183472 original size:25 final size:24
Alignment explanation
Indices: 183436--183492 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
183426 CATATATTTT
183436 AAAATTTTTATTTAAAAAAAAT-C
1 AAAATTTTTATTTAAAAAAAATCC
**
183459 AAAATATTATTATTTTTAAAAAATCC
1 AAAAT-TT-TTATTTAAAAAAAATCC
183485 AAAATTTT
1 AAAATTTT
183493 CTAAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 15 0.52
26 6 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAATTTTTATTTAAAAAAAATCC
Found at i:185743 original size:64 final size:63
Alignment explanation
Indices: 185624--185746 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 63
185614 TACTGATTAG
* * * *
185624 TATGTTAATATTATTTTTATAAATATTTGTAGTTGTATTTTACCTTTTCTGGATTTATTGTTGT
1 TATGTTAATATTATTTTTATAAATATTTGTAATTGTATATAACATTTTC-GGATTTATTGTTGT
*
185688 TATGTTAATATTATTTTTAT-AATATTTTTATATTGTATAATAACATTTTAC-GATTTATT
1 TATGTTAATATTATTTTTATAAATATTTGTA-ATTGTAT-ATAACATTTT-CGGATTTATT
185747 ATCATAGTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
63 9 0.18
64 34 0.67
65 7 0.14
66 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.09, T:0.59
Consensus pattern (63 bp):
TATGTTAATATTATTTTTATAAATATTTGTAATTGTATATAACATTTTCGGATTTATTGTTGT
Found at i:193919 original size:44 final size:48
Alignment explanation
Indices: 193840--193931 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 48
193830 TATTATTTTG
193840 ACAATATTATTTGACTATTTAATAATAAAATACTTAATTAAAAAATAT
1 ACAATATTATTTGACTATTTAATAATAAAATACTTAATTAAAAAATAT
*
193888 ACAA-ATTATTT-A-TA-TTAATTAAT-AAATACTTAATTGAAAAATAT
1 ACAATATTATTTGACTATTTAA-TAATAAAATACTTAATTAAAAAATAT
193932 TATTTTACTA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
44 24 0.57
45 6 0.14
46 1 0.02
47 7 0.17
48 4 0.10
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (48 bp):
ACAATATTATTTGACTATTTAATAATAAAATACTTAATTAAAAAATAT
Found at i:194412 original size:22 final size:22
Alignment explanation
Indices: 194369--194412 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
194359 ACACGTGTAA
* *
194369 TAGTTTTATTAAAAATAATATT
1 TAGTATTATGAAAAATAATATT
* *
194391 TAGTATTATGAAATATATTATT
1 TAGTATTATGAAAAATAATATT
194413 AAAAATATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
TAGTATTATGAAAAATAATATT
Found at i:194496 original size:30 final size:30
Alignment explanation
Indices: 194461--194528 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
194451 TTATTTTAAT
194461 ATTTAATAA-ACTAAAATACTATTTAGATAA
1 ATTTAA-AATACTAAAATACTATTTAGATAA
* *
194491 ATTTAAAATATTAAAATACTATTTAGATTA
1 ATTTAAAATACTAAAATACTATTTAGATAA
194521 ATATTAAA
1 AT-TTAAA
194529 TTATTGTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 2 0.06
30 27 0.79
31 5 0.15
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (30 bp):
ATTTAAAATACTAAAATACTATTTAGATAA
Found at i:194592 original size:16 final size:16
Alignment explanation
Indices: 194571--194603 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
194561 TCCACATTTT
194571 ATTTTATACAAATAAC
1 ATTTTATACAAATAAC
194587 ATTTTATACAAATAAC
1 ATTTTATACAAATAAC
194603 A
1 A
194604 ATGGACTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTATACAAATAAC
Found at i:194650 original size:34 final size:34
Alignment explanation
Indices: 194611--194679 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
194601 ACAATGGACT
194611 TTATAGTTCTTGTCGATGTTGGGATGTTGTGGAA
1 TTATAGTTCTTGTCGATGTTGGGATGTTGTGGAA
194645 TTATAGTTCTTGTCGATGTTGGGATGTTGTGGAA
1 TTATAGTTCTTGTCGATGTTGGGATGTTGTGGAA
194679 T
1 T
194680 AATAATGTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.06, G:0.32, T:0.45
Consensus pattern (34 bp):
TTATAGTTCTTGTCGATGTTGGGATGTTGTGGAA
Done.