Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 12 of 141
Found at i:3292211 original size:43 final size:43
Alignment explanation
Indices: 3292122--3292245 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 43
3292112 AGCTTGTACA
* * * *
3292122 ATGCCAATGTCCCAGACGTGGTCTTACA-TATAATCACATA-TTG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGA-AAACACA-AGTCG
* *
3292165 ATGCCACTGTTCC-AGACAG-GGTCTTACACGTAAACACAAGTCG
1 ATGCCAATG-TCCTAGAC-GTGGTCTTACACGAAAACACAAGTCG
*
3292208 ATGCCAATGTCCTAGACGTGGTCTTACATGAAAACACA
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACA
3292246 TATCAGAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
42 5 0.07
43 58 0.87
44 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGAAAACACAAGTCG
Found at i:3292921 original size:23 final size:23
Alignment explanation
Indices: 3292895--3292946 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
3292885 TAAAACTTTA
3292895 TCAAAAATCATCAATGGCACATT
1 TCAAAAATCATCAATGGCACATT
3292918 TCAAAAATCATCAATGGCACATT
1 TCAAAAATCATCAATGGCACATT
3292941 TCAAAA
1 TCAAAA
3292947 TCTTTATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.46, C:0.21, G:0.08, T:0.25
Consensus pattern (23 bp):
TCAAAAATCATCAATGGCACATT
Found at i:3304018 original size:7 final size:6
Alignment explanation
Indices: 3303993--3304017 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3303983 GATTAGTTAT
3303993 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
3304018 ACTAAATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:3316937 original size:21 final size:20
Alignment explanation
Indices: 3316878--3316976 Score: 108
Period size: 20 Copynumber: 4.8 Consensus size: 20
3316868 CAAAACACAT
* * *
3316878 CAGAGAGCATCGAAATGCTAA
1 CAGAG-GCACCGAAGTGCAAA
*
3316899 CAGAGGCACCGTAGTGCAAA
1 CAGAGGCACCGAAGTGCAAA
3316919 CAGAGGCACCCGAAGTGCAAA
1 CAGAGGCA-CCGAAGTGCAAA
* *
3316940 CAGAGGCATCAAAGTGCAAA
1 CAGAGGCACCGAAGTGCAAA
* *
3316960 CAAAGGCACCAAAGTGC
1 CAGAGGCACCGAAGTGC
3316977 GATCCCATAC
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 44 0.65
21 24 0.35
ACGTcount: A:0.40, C:0.24, G:0.26, T:0.09
Consensus pattern (20 bp):
CAGAGGCACCGAAGTGCAAA
Found at i:3316942 original size:41 final size:41
Alignment explanation
Indices: 3316888--3316969 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
3316878 CAGAGAGCAT
* ** *
3316888 CGAAATGCTAACAGAGGCACCGTAGTGCAAACAGAGGCACC
1 CGAAATGCAAACAGAGGCACCAAAGTGCAAACAAAGGCACC
* *
3316929 CGAAGTGCAAACAGAGGCATCAAAGTGCAAACAAAGGCACC
1 CGAAATGCAAACAGAGGCACCAAAGTGCAAACAAAGGCACC
3316970 AAAGTGCGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.40, C:0.26, G:0.26, T:0.09
Consensus pattern (41 bp):
CGAAATGCAAACAGAGGCACCAAAGTGCAAACAAAGGCACC
Found at i:3324677 original size:38 final size:38
Alignment explanation
Indices: 3324631--3324735 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 38
3324621 ACCAAAATCC
* *
3324631 TTATTATAATTATTGTAATTATAATTTACGATCGAATA
1 TTATTATAATTATTGTAATTATAATTTACGATCAAACA
* * *
3324669 TTATTATAATTATTGTAATTGTAATTTTTTTCGGTCAAACA
1 TTATTATAATTATTGTAATTATAA---TTTACGATCAAACA
*
3324710 TTATTATAATTATGGTAATTATAATT
1 TTATTATAATTATTGTAATTATAATT
3324736 ATAATATTCG
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
38 25 0.44
41 32 0.56
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (38 bp):
TTATTATAATTATTGTAATTATAATTTACGATCAAACA
Found at i:3324754 original size:41 final size:39
Alignment explanation
Indices: 3324631--3324756 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 39
3324621 ACCAAAATCC
* **
3324631 TTATTATAATTATTGTAATTATAATTTACGA-TCGAAT-A
1 TTATTATAATTATTGTAATTATAATTTA-TATTCGGTTAA
* * *
3324669 TTATTATAATTATTGTAATTGTAATTT-TTTTCGGTCAAACA
1 TTATTATAATTATTGTAATTATAATTTATATTCGGT--TA-A
*
3324710 TTATTATAATTATGGTAATTATAATTATAATATTCGGTTAA
1 TTATTATAATTATTGTAATTATAATT-T-ATATTCGGTTAA
3324751 TTATTA
1 TTATTA
3324757 AAATATCAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
37 3 0.04
38 26 0.37
41 32 0.46
42 2 0.03
44 7 0.10
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.50
Consensus pattern (39 bp):
TTATTATAATTATTGTAATTATAATTTATATTCGGTTAA
Found at i:3334894 original size:45 final size:44
Alignment explanation
Indices: 3334830--3334918 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 44
3334820 ATTAGAGGCA
*
3334830 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAATG
* ***
3334875 TAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAATG
1 TAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATG
3334919 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.34
Consensus pattern (44 bp):
TAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAATG
Found at i:3339896 original size:6 final size:6
Alignment explanation
Indices: 3339887--3339923 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
3339877 GGTTGAAATT
3339887 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA GATGCA GATGCA G
3339924 TCCTGAAAAT
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:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:3340587 original size:18 final size:17
Alignment explanation
Indices: 3340559--3340593 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3340549 ATTATTAAGA
*
3340559 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
3340576 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
3340594 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:3340842 original size:45 final size:44
Alignment explanation
Indices: 3340753--3340847 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 44
3340743 TTACACCTCT
*
3340753 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
* *
3340797 ATTACATTCAACCAAACA-ATTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACA-GGA-TTACTATTACACCTCTATTCC
3340842 ATTACA
1 ATTACA
3340848 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 20 0.43
45 25 0.54
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:3340847 original size:16 final size:16
Alignment explanation
Indices: 3340826--3340895 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
3340816 TTGATTTGCT
*
3340826 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
3340842 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
3340858 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
3340874 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
3340890 AATACA
1 ATTACA
3340896 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:3350906 original size:73 final size:74
Alignment explanation
Indices: 3350762--3350907 Score: 240
Period size: 73 Copynumber: 2.0 Consensus size: 74
3350752 AAAGTATAAG
* *
3350762 GAAAAAAATTTAAATTGTTCAAAAAAAAGTATAAGGATTAGTTTTAACAAATGGAAAATATAATA
1 GAAAAAAATTTAAATTGTTCAAAAAAAAGTATAAGGATTAATTTTAACAAATGAAAAATATAATA
*
3350827 CGTTAAAAA
66 CATTAAAAA
*
3350836 GAAAAAAATTTAAATTGTT-TAAAAAAAGTATAAGGATTAATTTTAACAAATGAAAAATATAATA
1 GAAAAAAATTTAAATTGTTCAAAAAAAAGTATAAGGATTAATTTTAACAAATGAAAAATATAATA
*
3350900 TATTAAAA
66 CATTAAAA
3350908 GAAGTTAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 48 0.72
74 19 0.28
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (74 bp):
GAAAAAAATTTAAATTGTTCAAAAAAAAGTATAAGGATTAATTTTAACAAATGAAAAATATAATA
CATTAAAAA
Found at i:3350971 original size:23 final size:24
Alignment explanation
Indices: 3350944--3350988 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
3350934 GGAGAAGAAT
*
3350944 AAGAAAATGAAA-AAAAAAATTAA
1 AAGAAAATAAAAGAAAAAAATTAA
*
3350967 AAGAACATAAAAGAAAAAAATT
1 AAGAAAATAAAAGAAAAAAATT
3350989 GCTTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.76, C:0.02, G:0.09, T:0.13
Consensus pattern (24 bp):
AAGAAAATAAAAGAAAAAAATTAA
Found at i:3354822 original size:23 final size:23
Alignment explanation
Indices: 3354795--3354838 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3354785 CTGAAAATTA
3354795 TAGATACGACTTTTATTTTTAAT
1 TAGATACGACTTTTATTTTTAAT
** *
3354818 TAGATTTGATTTTTATTTTTA
1 TAGATACGACTTTTATTTTTA
3354839 TTTACCTTGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (23 bp):
TAGATACGACTTTTATTTTTAAT
Found at i:3356429 original size:22 final size:22
Alignment explanation
Indices: 3356400--3356452 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
3356390 CCAAACCTTA
3356400 TTTT-TTTGTTG-GTAAGTTTG
1 TTTTCTTTGTTGTGTAAGTTTG
*
3356420 CTTTTCTTTG-TGTGTTAGTTTG
1 -TTTTCTTTGTTGTGTAAGTTTG
3356442 TTTTCTTTGTT
1 TTTTCTTTGTT
3356453 ATTTCTTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.68
Consensus pattern (22 bp):
TTTTCTTTGTTGTGTAAGTTTG
Found at i:3358362 original size:24 final size:24
Alignment explanation
Indices: 3358330--3358375 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
3358320 ATTCCAAATC
3358330 AACATTGCTTGGTAGCTTTTGATG
1 AACATTGCTTGGTAGCTTTTGATG
3358354 AACATTGCTTGGTAGCTTTTGA
1 AACATTGCTTGGTAGCTTTTGA
3358376 GGAATTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (24 bp):
AACATTGCTTGGTAGCTTTTGATG
Found at i:3366970 original size:74 final size:74
Alignment explanation
Indices: 3366892--3367090 Score: 283
Period size: 74 Copynumber: 2.7 Consensus size: 74
3366882 TCATTGTTAA
* ** **
3366892 ATCCAACTAGAGTTGGGCTCACTATTTATACGTCGGTTTA-ACGGACTAGCGCTGGGTGCAAATA
1 ATCCAACTAGAGTTGGGCTCACTAATTATTTGTCGGTTTATAC-GACTAGCGCTGGACGCAAATA
3366956 CTGTTGGTAT
65 CTGTTGGTAT
* * * *
3366966 ATCCAACTAGAGCTAGGCTCACTAATTATTTGTCGATTTATTCGACTAGCGCTGGACGCAAATAC
1 ATCCAACTAGAGTTGGGCTCACTAATTATTTGTCGGTTTATACGACTAGCGCTGGACGCAAATAC
3367031 TGTTGGTAT
66 TGTTGGTAT
* *
3367040 ATCCAACTAGAGTTGGGCTCCCTAATTATTTGTCGGTTTATTCGACTAGCG
1 ATCCAACTAGAGTTGGGCTCACTAATTATTTGTCGGTTTATACGACTAGCG
3367091 TTGGGCACAA
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 110 0.99
75 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (74 bp):
ATCCAACTAGAGTTGGGCTCACTAATTATTTGTCGGTTTATACGACTAGCGCTGGACGCAAATAC
TGTTGGTAT
Found at i:3366975 original size:35 final size:35
Alignment explanation
Indices: 3366936--3367049 Score: 86
Period size: 35 Copynumber: 3.1 Consensus size: 35
3366926 GGTTTAACGG
*
3366936 ACTAGCGCTGGGTGCAAATACTGTTGGTATATCCA
1 ACTAGCGCTGGATGCAAATACTGTTGGTATATCCA
* * * * * * * *
3366971 ACTAGAGCTAGGCT-CACTAATTATTTGTCGATTTATTCG
1 ACTAGCGCT-GGATGCA--AA-TA-CTGTTGGTATATCCA
*
3367010 ACTAGCGCTGGACGCAAATACTGTTGGTATATCCA
1 ACTAGCGCTGGATGCAAATACTGTTGGTATATCCA
3367045 ACTAG
1 ACTAG
3367050 AGTTGGGCTC
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
35 24 0.43
36 5 0.09
37 4 0.07
38 4 0.07
39 19 0.34
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (35 bp):
ACTAGCGCTGGATGCAAATACTGTTGGTATATCCA
Found at i:3368192 original size:25 final size:25
Alignment explanation
Indices: 3368164--3368218 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
3368154 TCAGTGAGTT
3368164 ACACGGCTTGGCACAC-GGACGTGTG
1 ACACGGCTTGGCACACAGGA-GTGTG
*
3368189 ACACGGCTTTGCACACAGGAGTGTG
1 ACACGGCTTGGCACACAGGAGTGTG
3368214 ACACG
1 ACACG
3368219 ACCGCGTGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.16
Consensus pattern (25 bp):
ACACGGCTTGGCACACAGGAGTGTG
Found at i:3395628 original size:6 final size:6
Alignment explanation
Indices: 3395617--3395660 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
3395607 TATTGTTGGG
3395617 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GATGGT GA
3395661 AAATTGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (6 bp):
GATGGT
Found at i:3397073 original size:22 final size:21
Alignment explanation
Indices: 3397036--3397088 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
3397026 CACTTATTTG
3397036 TTTTCTTATTTATATTTT-TA
1 TTTTCTTATTTATATTTTATA
3397056 TTTTCTTTATATTATATTTTATA
1 TTTTC-TTAT-TTATATTTTATA
3397079 -TTTCTTATTT
1 TTTTCTTATTT
3397089 CAGTGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.23
21 8 0.27
22 13 0.43
23 2 0.07
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTATTTATATTTTATA
Found at i:3397075 original size:21 final size:21
Alignment explanation
Indices: 3397036--3397088 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
3397026 CACTTATTTG
3397036 TTTTC-TTATTTATATTTTTA
1 TTTTCTTTATTTATATTTTTA
3397056 TTTTCTTTATATTATA-TTTTA
1 TTTTCTTTAT-TTATATTTTTA
3397077 TATTTC-TTATTT
1 T-TTTCTTTATTT
3397089 CAGTGTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.23
21 14 0.47
22 9 0.30
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTTTATTTATATTTTTA
Found at i:3399242 original size:21 final size:21
Alignment explanation
Indices: 3399196--3399246 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
3399186 ATGAAACTAT
* *
3399196 TTACTATGTCGTGACACGCCC
1 TTACTATGTCGCGACACGCAC
*
3399217 CTACTATGTCGCGACAC-CAAC
1 TTACTATGTCGCGACACGC-AC
3399238 TTACTATGT
1 TTACTATGT
3399247 TGCAACATCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (21 bp):
TTACTATGTCGCGACACGCAC
Found at i:3403154 original size:55 final size:54
Alignment explanation
Indices: 3403059--3403208 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
3403049 CTACTTTGTT
* ** * *
3403059 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
3403113 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
3403168 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
3403209 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:3403171 original size:27 final size:27
Alignment explanation
Indices: 3403031--3403208 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
3403021 TAAATTGTAC
3403031 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
3403058 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
3403084 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
3403112 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
3403140 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
3403167 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
3403194 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
3403209 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:3403172 original size:82 final size:81
Alignment explanation
Indices: 3403032--3403187 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
3403022 AAATTGTACA
* * * *
3403032 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
3403097 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
3403113 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
3403176 TGTGCGAGTTGA
63 TGTGCGAATTGA
3403188 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:3405209 original size:26 final size:26
Alignment explanation
Indices: 3405156--3405204 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
3405146 GCTAATCATG
*
3405156 ATTAAATTTTAATTATTAATAGATTA
1 ATTAAATTTTAATTATTAAAAGATTA
3405182 ATTAAATTTTAA-T-TTAAAAGATT
1 ATTAAATTTTAATTATTAAAAGATT
3405205 TTAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (26 bp):
ATTAAATTTTAATTATTAAAAGATTA
Found at i:3406292 original size:46 final size:45
Alignment explanation
Indices: 3406213--3406406 Score: 201
Period size: 46 Copynumber: 4.2 Consensus size: 45
3406203 TTTGTTATGA
* ** * *
3406213 AGGTTCAACCTTAATAGGTGACCAGGCACTATTATCCGATTCATGT
1 AGGTTCAACCCTAACGGGTGA-CAAGCACTATTATCCGATTCGTGT
*
3406259 AGGTTCAACCCTAACGGGTGAGCAAGCATTATTATCCGATTTC-TGT
1 AGGTTCAACCCTAACGGGTGA-CAAGCACTATTATCCGA-TTCGTGT
* * * *
3406305 AGGTTCAAACCTAACGGGTGACTAGGCACTATTATTCAATTCGTGT
1 AGGTTCAACCCTAACGGGTGAC-AAGCACTATTATCCGATTCGTGT
* * * *
3406351 AGGCTCAACCCTAACGGGTTATAAGGCACTATTATCTGATTCGTGT
1 AGGTTCAACCCTAACGGGTGACAA-GCACTATTATCCGATTCGTGT
*
3406397 AGGTTTAACC
1 AGGTTCAACC
3406407 TTGATGAGTA
Statistics
Matches: 123, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
45 5 0.04
46 115 0.93
47 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (45 bp):
AGGTTCAACCCTAACGGGTGACAAGCACTATTATCCGATTCGTGT
Found at i:3406384 original size:92 final size:92
Alignment explanation
Indices: 3406229--3406401 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 92
3406219 AACCTTAATA
* * *
3406229 GGTGACCAGGCACTATTATCCGATTCATGTAGGTTCAACCCTAACGGGTGAGCAAGCATTATTAT
1 GGTGACCAGGCACTATTATCCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAAGCACTATTAT
3406294 CCGATTTC-TGTAGGTTCAAACCTAACG
66 CCGA-TTCGTGTAGGTTCAAACCTAACG
* * * * *
3406321 GGTGACTAGGCACTATTATTCAATTCGTGTAGGCTCAACCCTAACGGGTTA-TAAGGCACTATTA
1 GGTGACCAGGCACTATTATCCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAA-GCACTATTA
*
3406385 TCTGATTCGTGTAGGTT
65 TCCGATTCGTGTAGGTT
3406402 TAACCTTGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 5 0.07
92 65 0.93
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (92 bp):
GGTGACCAGGCACTATTATCCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAAGCACTATTAT
CCGATTCGTGTAGGTTCAAACCTAACG
Found at i:3406424 original size:92 final size:92
Alignment explanation
Indices: 3406233--3406434 Score: 221
Period size: 92 Copynumber: 2.2 Consensus size: 92
3406223 TTAATAGGTG
* * * *
3406233 ACCAGGCACTATTATCCGATTCATGTAGGTTCAACCCTAACGGGTGAGCAAGCATTATTATCCGA
1 ACCAGGCACTATTATTCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAAGCACTATTATCCGA
* *
3406298 TTTCTGTAGGTTCAAACCTAACGGGTG
66 TTTCTGTAGGTTCAAACCTAACGAGTA
* * * * *
3406325 ACTAGGCACTATTATTCAATTCGTGTAGGCTCAACCCTAACGGGTTA-TAAGGCACTATTATCTG
1 ACCAGGCACTATTATTCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAA-GCACTATTATCCG
* * *
3406389 A-TTCGTGTAGGTT-TAACCTTGATGAGTA
65 ATTTC-TGTAGGTTCAAACC-TAACGAGTA
*
3406417 ACCAGGCACTATGATTCA
1 ACCAGGCACTATTATTCA
3406435 TTACTCGTGT
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
91 9 0.10
92 82 0.90
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (92 bp):
ACCAGGCACTATTATTCAATTCATGTAGGCTCAACCCTAACGGGTGAGCAAGCACTATTATCCGA
TTTCTGTAGGTTCAAACCTAACGAGTA
Found at i:3407864 original size:25 final size:25
Alignment explanation
Indices: 3407836--3407885 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3407826 GGGCCAAATC
* *
3407836 GAATACGCCACAAAGGCGTCATACA
1 GAATACACCACAAAGGCATCATACA
*
3407861 GAATACACCACGAAGGCATCATACA
1 GAATACACCACAAAGGCATCATACA
3407886 AAATCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.28, G:0.18, T:0.12
Consensus pattern (25 bp):
GAATACACCACAAAGGCATCATACA
Found at i:3418941 original size:23 final size:23
Alignment explanation
Indices: 3418913--3418960 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
3418903 AATGTTAAAG
* *
3418913 AAAGAGATATAAATAATAGAATA
1 AAAGAGACATAAAGAATAGAATA
3418936 AAAGAGACATAAAGAATAGAATA
1 AAAGAGACATAAAGAATAGAATA
3418959 AA
1 AA
3418961 GGGAAGAGAT
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:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (23 bp):
AAAGAGACATAAAGAATAGAATA
Found at i:3423000 original size:3 final size:3
Alignment explanation
Indices: 3422992--3423033 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
3422982 ATAGCTAGCT
*
3422992 ATC ATC ATC ATC ATC ATC ACC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3423034 CATTTCCATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:3431018 original size:14 final size:14
Alignment explanation
Indices: 3430999--3431026 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3430989 CCAATTTACT
3430999 AATGAATTATTAAA
1 AATGAATTATTAAA
3431013 AATGAATTATTAAA
1 AATGAATTATTAAA
3431027 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:3434447 original size:17 final size:17
Alignment explanation
Indices: 3434425--3434466 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
3434415 CAAATTATCA
3434425 GAAGCTCGATTAGGTTG
1 GAAGCTCGATTAGGTTG
* *
3434442 GAAGCTTGATTGGGTTG
1 GAAGCTCGATTAGGTTG
3434459 GAAGCTCG
1 GAAGCTCG
3434467 TTGAAGATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.38, T:0.29
Consensus pattern (17 bp):
GAAGCTCGATTAGGTTG
Found at i:3434662 original size:15 final size:16
Alignment explanation
Indices: 3434642--3434671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3434632 TGGTGCCTTG
3434642 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
3434657 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
3434672 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:3441296 original size:61 final size:58
Alignment explanation
Indices: 3441177--3441313 Score: 159
Period size: 61 Copynumber: 2.3 Consensus size: 58
3441167 TTAATATAAA
* *
3441177 AATAATTATATTAAGAATGTTATTAAATTATATATTAGTTTTATGAAATTATAGTTAAT
1 AATAATTATATTAA-AATATGATTAAATTATATATTAGTTTTATGAAATTATAGTTAAT
* * * * *
3441236 AATAATTATATTAAAATATGATTAAATTATTTATTTTTATTTTTATTAACTTATATTTAAT
1 AATAATTATATTAAAATATGATTAAATTA--TA-TATTAGTTTTATGAAATTATAGTTAAT
3441297 AATAATGT-TATTAAAAT
1 AATAAT-TATATTAAAAT
3441314 TTAATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
58 13 0.19
59 14 0.21
60 2 0.03
61 37 0.55
62 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (58 bp):
AATAATTATATTAAAATATGATTAAATTATATATTAGTTTTATGAAATTATAGTTAAT
Found at i:3441485 original size:46 final size:44
Alignment explanation
Indices: 3441403--3441492 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 44
3441393 AAATCTATTC
* *
3441403 CATTCAACCAAACACAAGAATACTATTACAGTTCTATTTCATTA
1 CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTA
3441447 CATTCAACCAAA-A-AATTGAATTACTGATTACAGCTCTATTCCATTA
1 CATTCAACCAAACACAA--GAA-TACT-ATTACAGCTCTATTCCATTA
3441493 TAGTTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 2 0.05
43 1 0.03
44 15 0.38
45 4 0.10
46 18 0.45
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACAGCTCTATTCCATTA
Found at i:3441502 original size:16 final size:16
Alignment explanation
Indices: 3441481--3441539 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
3441471 TGATTACAGC
*
3441481 TCTATTCCATTATAGT
1 TCTATTCCATTATAGA
* * *
3441497 TTTATTTCATTACAGA
1 TCTATTCCATTATAGA
3441513 TCTATTCCATTATA-A
1 TCTATTCCATTATAGA
*
3441528 CTCTATTTCATT
1 -TCTATTCCATT
3441540 CCAGTGAACC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (16 bp):
TCTATTCCATTATAGA
Found at i:3441535 original size:32 final size:32
Alignment explanation
Indices: 3441473--3441539 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
3441463 TGAATTACTG
* ** *
3441473 ATTACAGCTCTATTCCATTATAGTTTTATTTC
1 ATTACAGATCTATTCCATTATAACTCTATTTC
3441505 ATTACAGATCTATTCCATTATAACTCTATTTC
1 ATTACAGATCTATTCCATTATAACTCTATTTC
3441537 ATT
1 ATT
3441540 CCAGTGAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.48
Consensus pattern (32 bp):
ATTACAGATCTATTCCATTATAACTCTATTTC
Found at i:3443823 original size:66 final size:66
Alignment explanation
Indices: 3443712--3443843 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
3443702 AGGATCACCT
*
3443712 CTGCCTCTTTATTACTAAAGAGTCTGGTAATTACTTCCTCATTCCACTGTCTTAAATTTAAATCA
1 CTGCCTCTTTATTACTAAAGAGTCTAGTAATTACTTCCTCATTCCACTGTCTTAAATTTAAATCA
3443777 A
66 A
* * *
3443778 CTGCCTCTTTGTTTCTAAAGAGTCTAGTAATTACTTCCTCCTTCCACTGTCTTAAATTTAAATCA
1 CTGCCTCTTTATTACTAAAGAGTCTAGTAATTACTTCCTCATTCCACTGTCTTAAATTTAAATCA
3443843 A
66 A
3443844 TCAAGTCTGC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.40
Consensus pattern (66 bp):
CTGCCTCTTTATTACTAAAGAGTCTAGTAATTACTTCCTCATTCCACTGTCTTAAATTTAAATCA
A
Found at i:3451055 original size:73 final size:73
Alignment explanation
Indices: 3450968--3451113 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
3450958 AGTTCTAATC
*
3450968 CTCTTAGCTTGCTTGGACCTGCTTTGATGTTATGCAATTTGTAAGCAATTTGGGATCCCATTTGT
1 CTCTTAGCTTGCTTGGACCTGCTTTGATGTTATGCAATTGGTAAGCAATTTGGGATCCCATTTGT
3451033 ATGTGGAG
66 ATGTGGAG
3451041 CTCTTAGCTTGCTTGGACCTGCTTTGATGTTATGCAATTGGTAAGCAATTTGGGATCCCATTTGT
1 CTCTTAGCTTGCTTGGACCTGCTTTGATGTTATGCAATTGGTAAGCAATTTGGGATCCCATTTGT
3451106 ATGTGGAG
66 ATGTGGAG
3451114 TTGGCTGTTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.39
Consensus pattern (73 bp):
CTCTTAGCTTGCTTGGACCTGCTTTGATGTTATGCAATTGGTAAGCAATTTGGGATCCCATTTGT
ATGTGGAG
Found at i:3452651 original size:18 final size:19
Alignment explanation
Indices: 3452607--3452651 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
3452597 ATATTACTAA
3452607 ATTGATATTAGAAAAATAAT
1 ATTGA-ATTAGAAAAATAAT
3452627 ATT-AATTA-AAAAATTAAT
1 ATTGAATTAGAAAAA-TAAT
3452645 -TTGAATT
1 ATTGAATT
3452652 TTTAGAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 1 0.04
20 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
ATTGAATTAGAAAAATAAT
Found at i:3463611 original size:27 final size:27
Alignment explanation
Indices: 3463581--3463790 Score: 262
Period size: 27 Copynumber: 7.8 Consensus size: 27
3463571 TAAACACGTG
* *
3463581 ATGAAAGAATTGCCTCTATGGTGAATC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
* * *
3463608 ATGAAAGAAATGCATTTGTAGTGAATC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
*
3463635 ATGAAAGAAATGCCTTTGTGGTGAATC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
3463662 ATGAAAGAATTGCCTTTGTGGTGAATC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
* * **
3463689 ATGAAAGAAATGTCTTTGTGGCAAATC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
3463716 ATGAAAGAATTGCCTTTG-GG-GCATATC
1 ATGAAAGAATTGCCTTTGTGGTG-A-ATC
* *
3463743 ATGAAAGAATTTCCTTTGTGGTGAACC
1 ATGAAAGAATTGCCTTTGTGGTGAATC
**
3463770 ATGAAAGAAACGCCTTTGTGG
1 ATGAAAGAATTGCCTTTGTGG
3463791 CAGATTATGA
Statistics
Matches: 159, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 3 0.02
27 152 0.96
28 3 0.02
29 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (27 bp):
ATGAAAGAATTGCCTTTGTGGTGAATC
Found at i:3466270 original size:44 final size:44
Alignment explanation
Indices: 3466219--3466308 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
3466209 GATTGATAAG
*
3466219 GGGATAGAAAAGAGTTTGGCGGCATTGTGGAATGGTTATCTATT
1 GGGATAGAAAAGAGTTTGGCGGCATTGTGGAATGGGTATCTATT
* *
3466263 GGGATAGAAAAGAGTTTGGGGGCATTGTTGAATGGGTATCTATT
1 GGGATAGAAAAGAGTTTGGCGGCATTGTGGAATGGGTATCTATT
3466307 GG
1 GG
3466309 CTCGCTATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.06, G:0.37, T:0.31
Consensus pattern (44 bp):
GGGATAGAAAAGAGTTTGGCGGCATTGTGGAATGGGTATCTATT
Found at i:3470072 original size:40 final size:40
Alignment explanation
Indices: 3470020--3470163 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
3470010 TAACTCATAC
* *
3470020 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
3470060 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
3470100 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
3470141 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
3470164 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 9 0.10
40 70 0.78
41 11 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:3481338 original size:26 final size:26
Alignment explanation
Indices: 3481289--3481338 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
3481279 TAGACAGTGA
* * **
3481289 ACTCTTTCCTAGACTTTGGTTGTACC
1 ACTCTTTCCCAGACTCTGACTGTACC
3481315 ACTCTTTCCCAGACTCTGACTGTA
1 ACTCTTTCCCAGACTCTGACTGTA
3481339 TCAAGACAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.38
Consensus pattern (26 bp):
ACTCTTTCCCAGACTCTGACTGTACC
Found at i:3487294 original size:40 final size:40
Alignment explanation
Indices: 3487239--3487321 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
3487229 TATTCGGATG
* * *
3487239 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCAGACTAAGATCCGAAGACAATTGTGCTAGTTACT
* *
3487279 ATATCCAGACTAAGATCTGAAGACAATTGTGCTAGTTATT
1 ATATCCAGACTAAGATCCGAAGACAATTGTGCTAGTTACT
3487319 ATA
1 ATA
3487322 ACCGGGTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (40 bp):
ATATCCAGACTAAGATCCGAAGACAATTGTGCTAGTTACT
Found at i:3487349 original size:40 final size:40
Alignment explanation
Indices: 3487255--3487391 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
3487245 GGACTAAGAT
* * * **
3487255 CCGAAGGCATTTGTGCTAGTTACTATATCCAGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTATTATAACCGGGTTAA-ATC
* * * *
3487295 CTGAAGACAATTGTGCTAGTTATTATAACCGGGTTAACTC
1 CCGAAGGCATTTGTGCTAGTTATTATAACCGGGTTAAATC
** *
3487335 CCGAAGGCATTTGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTTGTGCTAGTTATTATAACCGGGTTAAATC
*
3487375 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTTGTGCT
3487392 GGTTGTTACA
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 78 0.99
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTATTATAACCGGGTTAAATC
Found at i:3492305 original size:51 final size:51
Alignment explanation
Indices: 3492151--3493218 Score: 1962
Period size: 51 Copynumber: 21.1 Consensus size: 51
3492141 GCCCTGTCAC
*
3492151 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--AT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
3492200 ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--AT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492249 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492300 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492351 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492402 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492453 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492504 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492555 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492606 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492657 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492708 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492759 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492810 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492861 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492912 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3492963 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3493014 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
3493065 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3493112 ATATATACACTTTCACATTCATCACATCGGCCATTAGTTAGGCCTTATCAC----
1 ATATATACACTTTCACATTCATCACATCGGCC---A-TTAGGCCTTATCACATAT
* *
3493163 ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
3493214 ATATA
1 ATATA
3493219 CATTCACATC
Statistics
Matches: 1002, Mismatches: 7, Indels: 18
0.98 0.01 0.02
Matches are distributed among these distances:
47 44 0.04
48 1 0.00
49 95 0.09
50 1 0.00
51 861 0.86
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (51 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:3495767 original size:23 final size:23
Alignment explanation
Indices: 3495741--3495785 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
3495731 AAGAAGTATA
*
3495741 GGGAAAGAATAAAGTGTTAGAGC
1 GGGAAAGAATAAAGTGCTAGAGC
3495764 GGGAAAGAATAAAGTGCTAGAG
1 GGGAAAGAATAAAGTGCTAGAG
3495786 GTATTACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.36, T:0.16
Consensus pattern (23 bp):
GGGAAAGAATAAAGTGCTAGAGC
Found at i:3501530 original size:58 final size:58
Alignment explanation
Indices: 3501440--3501609 Score: 331
Period size: 58 Copynumber: 2.9 Consensus size: 58
3501430 ACGTGAAGTA
*
3501440 AAAGAACTATGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACAGGT
1 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACAGGT
3501498 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACAGGT
1 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACAGGT
3501556 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCAC
1 AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCAC
3501610 GGGGTCGAAG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 111 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (58 bp):
AAAGAACTACGAAATAAGAAAATCTCATTAGTGAAGGTACTGTGGCTTAAGCACAGGT
Found at i:3503503 original size:93 final size:93
Alignment explanation
Indices: 3503344--3503514 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
3503334 GGATGGTTGA
* * * * *
3503344 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGGCCAAACTCGTTGAGT
3503409 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* * *
3503437 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGTGAACGGCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGGCCAAACTCGTTGAGT
*
3503502 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
3503515 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGCGAACGGCCAAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:3503511 original size:46 final size:46
Alignment explanation
Indices: 3503348--3503519 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
3503338 GGTTGAGCAT
* * *
3503348 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGG
** * * * *
3503394 CTAAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATGT-AACTAGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC--GG
* *
3503438 CATCCGAACTCATTGAGTTGAGCCCGAGTTCACTTATGGATGTGAACGG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGG
*
3503487 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
3503520 GGGGCGGTTA
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.57
47 23 0.24
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGG
Found at i:3505256 original size:28 final size:28
Alignment explanation
Indices: 3505193--3505654 Score: 881
Period size: 28 Copynumber: 16.5 Consensus size: 28
3505183 ATATTAAGTC
* *
3505193 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
3505220 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505248 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505276 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505304 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505332 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505360 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505388 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505416 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505444 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505472 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505500 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505528 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505556 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505584 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
3505612 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3505640 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3505655 GTACAATTTA
Statistics
Matches: 431, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 22 0.05
28 409 0.95
ACGTcount: A:0.35, C:0.29, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:3513812 original size:29 final size:29
Alignment explanation
Indices: 3513749--3513816 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
3513739 TAATCAACCG
*
3513749 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
3513778 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
3513807 CGCACACTTA
1 CGCACACTTA
3513817 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:3513929 original size:174 final size:174
Alignment explanation
Indices: 3513638--3513965 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
3513628 AACTCAAGGT
* * *
3513638 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
3513703 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
3513768 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
3513812 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
3513877 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
3513942 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
3513966 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:3513957 original size:29 final size:30
Alignment explanation
Indices: 3513918--3513996 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
3513908 CTTAATAATC
3513918 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
3513948 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
3513977 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
3513997 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:3528142 original size:39 final size:40
Alignment explanation
Indices: 3528047--3528308 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
3528037 TTGAATGATG
*
3528047 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
3528085 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
3528126 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
3528165 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
3528204 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
3528243 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
3528282 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
3528309 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:3529217 original size:18 final size:20
Alignment explanation
Indices: 3529170--3529219 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
3529160 TCACTCTCAA
3529170 TCTCTTTTTGCTCTTTTTCAT
1 TCTCTTTTT-CTCTTTTTCAT
* *
3529191 TCTCCTTTTCT-TTTTTGAT
1 TCTCTTTTTCTCTTTTTCAT
3529210 T-TCTTTTTCT
1 TCTCTTTTTCT
3529220 GTCTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 8 0.31
20 2 0.08
21 8 0.31
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (20 bp):
TCTCTTTTTCTCTTTTTCAT
Found at i:3530976 original size:28 final size:28
Alignment explanation
Indices: 3530936--3530989 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
3530926 ATCCCGAAAG
3530936 ATCTCACAACTCCCTTCAAACGGCTCTA
1 ATCTCACAACTCCCTTCAAACGGCTCTA
3530964 ATCTCACAACTCCCTTCAAACGGCTC
1 ATCTCACAACTCCCTTCAAACGGCTC
3530990 CCAGAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.41, G:0.07, T:0.24
Consensus pattern (28 bp):
ATCTCACAACTCCCTTCAAACGGCTCTA
Found at i:3536897 original size:49 final size:49
Alignment explanation
Indices: 3536825--3536922 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
3536815 TGCTGCTGTC
*
3536825 AGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCATGATT
1 AGCATCTGCCTTTAAGGGAGACTTTACCTATTTCATAGTTTCCATGATT
3536874 AGCATCTGCCTTTAAGGGAGACTTTACCTATTTCATAGTTTCCATGATT
1 AGCATCTGCCTTTAAGGGAGACTTTACCTATTTCATAGTTTCCATGATT
3536923 CAACTAGCCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (49 bp):
AGCATCTGCCTTTAAGGGAGACTTTACCTATTTCATAGTTTCCATGATT
Found at i:3538160 original size:47 final size:47
Alignment explanation
Indices: 3538082--3538432 Score: 567
Period size: 47 Copynumber: 7.4 Consensus size: 47
3538072 CCCTTCGGGA
* * * * * *
3538082 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3538129 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3538176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3538223 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3538270 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
3538317 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3538364 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3538413 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
3538433 GTACATCAAT
Statistics
Matches: 287, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 244 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3540736 original size:40 final size:40
Alignment explanation
Indices: 3540691--3541011 Score: 439
Period size: 40 Copynumber: 8.1 Consensus size: 40
3540681 CGAGTACATG
* * * *
3540691 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * * *
3540731 ACACCAGCACGAATGCTCTTCGAGG-TTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCG-GGACTTAGCCCGGATACA
* * * *
3540771 TTACTAGCACGAATGCTCTTCGGAACTTAGACCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
3540811 TCACTAGCATGAATGCTCTTCGGGACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
3540851 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGAATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
3540891 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGGTACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
3540931 TCACTAGCACGAATGCTCTTTGGGACTTAGCCTGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
3540971 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
3541010 TC
1 TC
3541012 GTCGAGACCT
Statistics
Matches: 250, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 243 0.97
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:3543336 original size:47 final size:47
Alignment explanation
Indices: 3543234--3544154 Score: 1419
Period size: 47 Copynumber: 19.6 Consensus size: 47
3543224 CCCTTCGGGA
* * * * * * *
3543234 CTTATCACATTTATACACTTTCACATCCATCTCGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543281 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
3543328 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543375 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543422 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543469 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543516 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543563 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543610 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543657 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543704 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543753 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543800 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543847 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543894 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3543941 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3543988 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3544035 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
3544082 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
3544129 TTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
3544155 CACAATTATC
Statistics
Matches: 795, Mismatches: 77, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
47 752 0.95
49 43 0.05
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:3543398 original size:94 final size:94
Alignment explanation
Indices: 3543234--3544154 Score: 1635
Period size: 94 Copynumber: 9.8 Consensus size: 94
3543224 CCCTTCGGGA
* * * * ** * * *
3543234 CTTATCACATTTATACACTTTCACATCCATCTCGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
*
3543299 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * ** *
3543328 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543393 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543422 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543487 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543516 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543581 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543610 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543675 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543704 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATAC
3543769 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
3543800 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543865 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543894 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3543959 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
3543988 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
3544053 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * * *
3544082 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCTTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
*
3544147 ATTCACAT
66 TTTCACAT
3544155 CACAATTATC
Statistics
Matches: 801, Mismatches: 24, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
94 707 0.88
96 94 0.12
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCGTTCGGCCTTATCACATGTATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:3563089 original size:19 final size:17
Alignment explanation
Indices: 3563065--3563103 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
3563055 GATTTTATTA
3563065 AATTAATTAATCTTAAGCT
1 AATTAATTAAT-TTAA-CT
*
3563084 AATTAATTTATTTAACT
1 AATTAATTAATTTAACT
3563101 AAT
1 AAT
3563104 CAGCAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTAATTAATTTAACT
Found at i:3565116 original size:6 final size:6
Alignment explanation
Indices: 3565107--3565241 Score: 69
Period size: 6 Copynumber: 22.5 Consensus size: 6
3565097 TCAATCTCAA
* * ** **
3565107 TTTCTT TTTCAAT TTTC-T TTTCTT CATTT-TT TTTCTC TCACTT TTTCAA
1 TTTCTT TTTC-TT TTTCTT TTTCTT --TTTCTT TTTCTT TTTCTT TTTCTT
* ** * *
3565156 TTTCTT TTTCTT TTGCAA TTTCTT TTTCTT TTTCAT TTTCAT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* ** * * *
3565204 CTTCAC TTTCTT TTTCAT TTTCAT TTT-TT TTTGTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
3565242 ATTACAATGT
Statistics
Matches: 96, Mismatches: 27, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
5 12 0.12
6 74 0.77
7 7 0.07
8 3 0.03
ACGTcount: A:0.10, C:0.18, G:0.01, T:0.71
Consensus pattern (6 bp):
TTTCTT
Found at i:3565128 original size:18 final size:18
Alignment explanation
Indices: 3565107--3565241 Score: 114
Period size: 18 Copynumber: 7.5 Consensus size: 18
3565097 TCAATCTCAA
3565107 TTTCTTTTTCAATTTTC-T
1 TTTCTTTTTC-ATTTTCTT
* *
3565125 TTTCTTCATTT-TTTTTCTC
1 TTTCTT--TTTCATTTTCTT
** *
3565144 TCACTTTTTCAATTTCTT
1 TTTCTTTTTCATTTTCTT
* *
3565162 TTTCTTTTGCAATTTCTT
1 TTTCTTTTTCATTTTCTT
*
3565180 TTTCTTTTTCATTTTCAT
1 TTTCTTTTTCATTTTCTT
* *
3565198 TTTCTTCTTCACTTTCTT
1 TTTCTTTTTCATTTTCTT
*
3565216 TTTCATTTTCATTTT-TT
1 TTTCTTTTTCATTTTCTT
*
3565233 TTTGTTTTT
1 TTTCTTTTT
3565242 ATTACAATGT
Statistics
Matches: 92, Mismatches: 21, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
17 12 0.13
18 73 0.79
19 4 0.04
20 3 0.03
ACGTcount: A:0.10, C:0.18, G:0.01, T:0.71
Consensus pattern (18 bp):
TTTCTTTTTCATTTTCTT
Found at i:3565201 original size:24 final size:23
Alignment explanation
Indices: 3565156--3565241 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
3565146 ACTTTTTCAA
* *
3565156 TTTCTTTTTCTTTTGCAATTTCTT
1 TTTCTTTTTCTTTTTCATTTTC-T
*
3565180 TTTCTTTTTCATTTTCATTTTCT
1 TTTCTTTTTCTTTTTCATTTTCT
**
3565203 TCTTCACTTTCTTTTTCATTTTCAT
1 T-TTCTTTTTCTTTTTCATTTTC-T
*
3565228 TTT-TTTTTGTTTTT
1 TTTCTTTTTCTTTTT
3565242 ATTACAATGT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 10 0.20
24 39 0.76
25 2 0.04
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTCTTTTTCTTTTTCATTTTCT
Found at i:3567512 original size:19 final size:17
Alignment explanation
Indices: 3567488--3567526 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
3567478 TATTTTATTA
3567488 AATTAATTAATCTTAAGCT
1 AATTAATTAAT-TTAA-CT
*
3567507 AATTAATTTATTTAACT
1 AATTAATTAATTTAACT
3567524 AAT
1 AAT
3567527 CAGCAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 10 0.53
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.46
Consensus pattern (17 bp):
AATTAATTAATTTAACT
Found at i:3572065 original size:23 final size:22
Alignment explanation
Indices: 3572013--3572065 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
3572003 TCCACGTCTT
3572013 TTTCTTTTGCTTCTTTCTCTAA
1 TTTCTTTTGCTTCTTTCTCTAA
*
3572035 -TTCATTTTCTCTTCTTTCT-TCAA
1 TTTC-TTTT-GCTTCTTTCTCT-AA
3572058 TTTCTTTT
1 TTTCTTTT
3572066 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 15 0.58
24 3 0.12
ACGTcount: A:0.09, C:0.23, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTCTTTTGCTTCTTTCTCTAA
Found at i:3598695 original size:24 final size:23
Alignment explanation
Indices: 3598654--3598698 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
3598644 TTAGGATTTT
3598654 ATCTTTTTTTTTCTTGCTTGTCA
1 ATCTTTTTTTTTCTTGCTTGTCA
3598677 ATCTTTTTAATTTTC-TGCTTGT
1 ATCTTTTT--TTTTCTTGCTTGT
3598699 GTCGATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.11, C:0.16, G:0.09, T:0.64
Consensus pattern (23 bp):
ATCTTTTTTTTTCTTGCTTGTCA
Found at i:3603661 original size:18 final size:18
Alignment explanation
Indices: 3603638--3603673 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
3603628 AAACCCTAGA
3603638 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
3603656 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
3603674 TTTTTATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:3606710 original size:79 final size:82
Alignment explanation
Indices: 3606599--3606783 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
3606589 GCTCCTCGTT
* *
3606599 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGAT-TAAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTAAACCC
* *
3606662 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* * **
3606679 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTAAACCCG
* *
3606742 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
3606759 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3606784 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 53 0.58
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTAAACCCG
GATATAGTAACTTAGCA
Found at i:3606783 original size:40 final size:40
Alignment explanation
Indices: 3606599--3606783 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
3606589 GCTCCTCGTT
* *
3606599 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
3606639 CAAATGCCTTCGGGA-TTAAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTT-AGCCCGGATATAGTAACTCGCA
*
3606679 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
3606718 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
3606759 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3606784 CATCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 80 0.65
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:3614670 original size:79 final size:78
Alignment explanation
Indices: 3614568--3614790 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
3614558 GCTCCTCGTT
* *
3614568 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
3614633 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
3614648 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
3614712 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
3614726 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
3614789 GA
63 GA
3614791 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:3614685 original size:39 final size:40
Alignment explanation
Indices: 3614568--3614790 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
3614558 GCTCCTCGTT
* *
3614568 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
3614608 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
3614648 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
3614687 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
3614726 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
3614767 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
3614791 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:3630755 original size:40 final size:39
Alignment explanation
Indices: 3630671--3630934 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 39
3630661 TTGAATGATG
* * * *
3630671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
3630711 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
* *
3630751 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
3630790 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
*
3630829 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAA-GCCCGAAGGCATTTGTGCGAGTTACTAAA
*
3630869 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
3630910 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
3630935 AACGAGTAGC
Statistics
Matches: 204, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 74 0.36
40 121 0.59
41 9 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:3630941 original size:80 final size:77
Alignment explanation
Indices: 3630672--3630967 Score: 312
Period size: 79 Copynumber: 3.7 Consensus size: 77
3630662 TGAATGATGT
* * * **
3630672 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGT-ACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* *
3630735 TGTGCGAGATACTAATT
62 TGTGCGAGTTACTAA-A
* *
3630752 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
3630816 GCGAGTTACTAAA
65 GCGAGTTACTAAA
*
3630829 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAA-GCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTT
3630894 GTGCGAGTTACTATAA
63 GTGCGAGTTACTA-AA
* ** * * *
3630910 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGG
3630968 TACGTGATTT
Statistics
Matches: 189, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
78 33 0.17
79 78 0.41
80 76 0.40
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAGTTACTAAA
Found at i:3638722 original size:29 final size:28
Alignment explanation
Indices: 3638686--3638763 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
3638676 TCATGAGATT
3638686 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
3638716 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
3638743 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
3638764 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:3638981 original size:174 final size:174
Alignment explanation
Indices: 3638716--3639043 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
3638706 AAATTGTACA
3638716 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
3638781 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
3638846 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
3638890 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
3638955 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
3639020 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
3639044 ACCTTGAGTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:3641314 original size:42 final size:42
Alignment explanation
Indices: 3641255--3641343 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
3641245 GAAAAAATTC
*
3641255 AAAATTTAAATGGCCCAAAGGTGAGTGAATCTGCAAGTGGTA
1 AAAATTTAAATGGCCCAAACGTGAGTGAATCTGCAAGTGGTA
*
3641297 AAAATTTCAATGGCCCAAACGTGAGTGAATCTGCAAGTGGTA
1 AAAATTTAAATGGCCCAAACGTGAGTGAATCTGCAAGTGGTA
3641339 AAAAT
1 AAAAT
3641344 CTAGAGTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (42 bp):
AAAATTTAAATGGCCCAAACGTGAGTGAATCTGCAAGTGGTA
Found at i:3660873 original size:13 final size:13
Alignment explanation
Indices: 3660855--3660879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3660845 CAGGTATTTC
3660855 AAAAAAAAGAGAA
1 AAAAAAAAGAGAA
3660868 AAAAAAAAGAGA
1 AAAAAAAAGAGA
3660880 TGTCTTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAA
Found at i:3661468 original size:42 final size:42
Alignment explanation
Indices: 3661409--3661497 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
3661399 CAAAAAAGTC
3661409 AAAATTTAAATGGCCCAAAGGTGAGTGAATCCGCAAGTGGTA
1 AAAATTTAAATGGCCCAAAGGTGAGTGAATCCGCAAGTGGTA
* *
3661451 AAAATTTCAATGGCCCAAAGGTGAGTGAATCTGCAAGTGGTA
1 AAAATTTAAATGGCCCAAAGGTGAGTGAATCCGCAAGTGGTA
3661493 AAAAT
1 AAAAT
3661498 AGAGTGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (42 bp):
AAAATTTAAATGGCCCAAAGGTGAGTGAATCCGCAAGTGGTA
Found at i:3676183 original size:42 final size:42
Alignment explanation
Indices: 3676124--3676212 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
3676114 GAAAAAAGTC
*
3676124 AAAATTTAAATGGCCCAAAGGTGAGTGAATCCGCAAGTGGTA
1 AAAATTTAAATGGCCCAAACGTGAGTGAATCCGCAAGTGGTA
*
3676166 AAAATTTAAATGGCCCAAACGTGAGTGAATCTGCAAGTGGTA
1 AAAATTTAAATGGCCCAAACGTGAGTGAATCCGCAAGTGGTA
3676208 AAAAT
1 AAAAT
3676213 AGAGTGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (42 bp):
AAAATTTAAATGGCCCAAACGTGAGTGAATCCGCAAGTGGTA
Found at i:3689946 original size:28 final size:28
Alignment explanation
Indices: 3689878--3690114 Score: 361
Period size: 28 Copynumber: 8.5 Consensus size: 28
3689868 CATGAGATTG
* * * *
3689878 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
* *
3689907 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
3689935 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
3689963 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
3689991 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
3690019 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
3690047 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
3690075 GCAC-AACTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
3690101 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
3690115 GACTTAATAA
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
26 15 0.08
27 17 0.09
28 143 0.74
29 17 0.09
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:3702943 original size:28 final size:28
Alignment explanation
Indices: 3702878--3702976 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
3702868 CATGAGATTG
* * *
3702878 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
3702907 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
3702935 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
3702963 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
3702977 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:3706663 original size:22 final size:22
Alignment explanation
Indices: 3706638--3706714 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
3706628 ATTTTGACCA
*
3706638 AAACCATACCATTATCGTACCT
1 AAACCAAACCATTATCGTACCT
*
3706660 AAACCAAAAACCATT-TCGTACTT
1 AAACC--AAACCATTATCGTACCT
* *
3706683 AAACTTAAACCATTA-CGTGCCT
1 AAAC-CAAACCATTATCGTACCT
3706705 AAACCTAAAC
1 AAACC-AAAC
3706715 TATCTTCGAC
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 26 0.59
23 11 0.25
24 7 0.16
ACGTcount: A:0.42, C:0.29, G:0.05, T:0.25
Consensus pattern (22 bp):
AAACCAAACCATTATCGTACCT
Found at i:3706680 original size:23 final size:23
Alignment explanation
Indices: 3706645--3706709 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
3706635 CCAAAACCAT
3706645 ACCATTATCGTACCTAAACCAAAA
1 ACCATT-TCGTACCTAAACCAAAA
* **
3706669 ACCATTTCGTACTTAAA-CTTAA
1 ACCATTTCGTACCTAAACCAAAA
* *
3706691 ACCATTACGTGCCTAAACC
1 ACCATTTCGTACCTAAACC
3706710 TAAACTATCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.50
23 11 0.32
24 6 0.18
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (23 bp):
ACCATTTCGTACCTAAACCAAAA
Found at i:3709965 original size:24 final size:24
Alignment explanation
Indices: 3709938--3709992 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
3709928 CCTTTTTGAT
3709938 CCATTTCATACCAAAAATCCCATA
1 CCATTTCATACCAAAAATCCCATA
* * *
3709962 CCATTTCGTACCACAAATCTCATA
1 CCATTTCATACCAAAAATCCCATA
3709986 CCATTTC
1 CCATTTC
3709993 TGTGACAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (24 bp):
CCATTTCATACCAAAAATCCCATA
Found at i:3715362 original size:73 final size:73
Alignment explanation
Indices: 3715281--3715424 Score: 270
Period size: 73 Copynumber: 2.0 Consensus size: 73
3715271 CTCTTGAGTG
* *
3715281 TTCTTTAGATGTAGTTTTAACAATCTTTTTTATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCA
1 TTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCA
3715346 TTGTTCGT
66 TTGTTCGT
3715354 TTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCA
1 TTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCA
3715419 TTGTTC
66 TTGTTC
3715425 TTCATTGGAG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (73 bp):
TTCTTTAGAAGTAGTTTTAACAATCTTTTTGATTGTGGGAGCCATCTTCAGCCTTCTTCTTGCCA
TTGTTCGT
Found at i:3738588 original size:33 final size:34
Alignment explanation
Indices: 3738551--3738622 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
3738541 GAGTTAGTTT
3738551 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
3738584 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
3738618 ATTAA
1 ATTAA
3738623 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:3739325 original size:89 final size:89
Alignment explanation
Indices: 3739211--3739405 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
3739201 TCAAGAAAAT
3739211 CAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGGGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGGGCGATTTCAAGAATCAAGAAAATCAAGA
3739276 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
3739300 CAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGGGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGGGCGATTTCAAGAATCAAGAAAATCAAGA
3739365 TTTCAAATCTTGGAAATCTTGGTC
66 TTTCAAATCTTGGAAATCTTGGTC
3739389 CAAGAAACCGAATCTTG
1 CAAGAAACCGAATCTTG
3739406 CAGCTAAGAC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.31
Consensus pattern (89 bp):
CAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGGGCGATTTCAAGAATCAAGAAAATCAAGA
TTTCAAATCTTGGAAATCTTGGTC
Found at i:3739595 original size:18 final size:18
Alignment explanation
Indices: 3739574--3739608 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
3739564 TCAAAGTGGT
3739574 CCAATTTGTAAAATTTTC
1 CCAATTTGTAAAATTTTC
3739592 CCAATTTGTAAAATTTT
1 CCAATTTGTAAAATTTT
3739609 AAATACCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
CCAATTTGTAAAATTTTC
Found at i:3745818 original size:15 final size:17
Alignment explanation
Indices: 3745798--3745829 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
3745788 AAAGAAAGAC
3745798 AAAAAGA-AAT-AAAAA
1 AAAAAGAGAATGAAAAA
3745813 AAAAAGAGAATGAAAAA
1 AAAAAGAGAATGAAAAA
3745830 GAGAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAAAGAGAATGAAAAA
Found at i:3760484 original size:75 final size:75
Alignment explanation
Indices: 3760361--3760509 Score: 271
Period size: 75 Copynumber: 2.0 Consensus size: 75
3760351 TTAAACTTAA
3760361 ATATTTAAACAAATAAAATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTA
1 ATATTTAAACAAATAAAATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTA
3760426 AGTATGGTTG
66 AGTATGGTTG
* * *
3760436 ATATTTAAACAATTAAAATTTTTACAAATTGGGCCACTTTAACAATTTGGCCTGATTTTCAACTA
1 ATATTTAAACAAATAAAATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTA
3760501 AGTATGGTT
66 AGTATGGTT
3760510 TGACTTCTTG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (75 bp):
ATATTTAAACAAATAAAATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTA
AGTATGGTTG
Found at i:3761895 original size:50 final size:51
Alignment explanation
Indices: 3761837--3761995 Score: 159
Period size: 52 Copynumber: 3.2 Consensus size: 51
3761827 TTAATAAAGT
*
3761837 CATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCATTAAATTAAGA
** * * *
3761887 CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTACATCATTAAATTAAGT
1 CATGCATTATGTAACTCTTATGTTAG-TTAAGTTTGCATCATTAAATTAAGA
* * *
3761939 CATGCAATAAGTAACTCATT-TGTTCA-TTTAGTTTGCATC-TT-AATTAA-A
1 CATGCATTATGTAACTC-TTATGTT-AGTTAAGTTTGCATCATTAAATTAAGA
3761987 TCATGCATT
1 -CATGCATT
3761996 TAAGCATCAT
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
49 13 0.15
50 26 0.29
51 22 0.25
52 27 0.30
53 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (51 bp):
CATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCATTAAATTAAGA
Found at i:3761953 original size:52 final size:51
Alignment explanation
Indices: 3761824--3761955 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
3761814 ATGTGTTCTG
* * ** * *
3761824 CATTTAATAAAGTCATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTACAT
* *
3761875 CA-TAAATTATGACATGCATTATGTAACTCCCATGTTAGTTTAAGTCTACAT
1 CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAG-TTAAGTCTACAT
* *
3761926 CATTAAATTAAGTCATGCAATAAGTAACTC
1 CATTAAATTAAGTCATGCATTATGTAACTC
3761956 ATTTGTTCAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
50 30 0.45
51 14 0.21
52 23 0.34
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (51 bp):
CATTAAATTAAGTCATGCATTATGTAACTCCCATGTTAGTTAAGTCTACAT
Found at i:3772166 original size:192 final size:192
Alignment explanation
Indices: 3771820--3772202 Score: 730
Period size: 192 Copynumber: 2.0 Consensus size: 192
3771810 TCAAAACAGC
3771820 AAAATTAGACCAAGATTCAGTTTCTTAATTTTCTTGAAAACAAGAAAGTGAATCTTGATATTCTT
1 AAAATTAGACCAAGATTCAGTTTCTTAATTTTCTTGAAAACAAGAAAGTGAATCTTGATATTCTT
3771885 TTTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTC
66 TTTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTC
3771950 GTCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGG
131 GTCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGG
* * * *
3772012 AAAATTGGACCAATATTCGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATATTCTT
1 AAAATTAGACCAAGATTCAGTTTCTTAATTTTCTTGAAAACAAGAAAGTGAATCTTGATATTCTT
3772077 TTTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTC
66 TTTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTC
3772142 GTCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAG
131 GTCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAG
3772203 TCCAAACATA
Statistics
Matches: 187, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 187 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (192 bp):
AAAATTAGACCAAGATTCAGTTTCTTAATTTTCTTGAAAACAAGAAAGTGAATCTTGATATTCTT
TTTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTC
GTCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGG
Found at i:3772590 original size:286 final size:286
Alignment explanation
Indices: 3772078--3772650 Score: 1101
Period size: 286 Copynumber: 2.0 Consensus size: 286
3772068 GATATTCTTT
3772078 TTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTCG
1 TTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTCG
3772143 TCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGTCCAA
66 TCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGTCCAA
3772208 ACATAAGCATAACAAAACAAGTATAACGCATGCGAATGGACAGATTCAGATTACCATGCAAACAA
131 ACATAAGCATAACAAAACAAGTATAACGCATGCGAATGGACAGATTCAGATTACCATGCAAACAA
* * *
3772273 GCTAATTTACTCGCCAATGCCTCGTCAAATATTTAAAAAAAAGATGGACATGTTTTAAGGTATTC
196 GCTAATTTACTCGCCAATGCCTCATCAAATATTCAAAAAAAAGATGGACATGTTTTAAGGCATTC
3772338 AATCATCTCAAATTGTTTCCACAAAC
261 AATCATCTCAAATTGTTTCCACAAAC
3772364 TTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTCG
1 TTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTCG
3772429 TCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGTCCAA
66 TCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGTCCAA
3772494 ACATAAGCATAACAAAACAAGTATAACGCATGCGAATGGACAGATTCAGATTACCATGCAAACAA
131 ACATAAGCATAACAAAACAAGTATAACGCATGCGAATGGACAGATTCAGATTACCATGCAAACAA
* *
3772559 GCTAATTTACTCGCCAATGCCTCATCAAATATTCGAAACAAAGATGGACATGTTTTAAGGCATTC
196 GCTAATTTACTCGCCAATGCCTCATCAAATATTCAAAAAAAAGATGGACATGTTTTAAGGCATTC
3772624 AATCATCTCAAATTGTTTCCACAAAC
261 AATCATCTCAAATTGTTTCCACAAAC
3772650 T
1 T
3772651 ATGAATAAAT
Statistics
Matches: 282, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 282 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (286 bp):
TTCCTTCGTATACGAATCTAAGTCCTTTGTGACTCTTATCATTCCCCCTTCCTCAAAAAGATTCG
TCCTCGAAACTAAAAAATCATACGGAGATAAGTCAACCATATTGACAGTAGAACTTGTAGTCCAA
ACATAAGCATAACAAAACAAGTATAACGCATGCGAATGGACAGATTCAGATTACCATGCAAACAA
GCTAATTTACTCGCCAATGCCTCATCAAATATTCAAAAAAAAGATGGACATGTTTTAAGGCATTC
AATCATCTCAAATTGTTTCCACAAAC
Found at i:3774601 original size:77 final size:78
Alignment explanation
Indices: 3774503--3774656 Score: 242
Period size: 78 Copynumber: 2.0 Consensus size: 78
3774493 TACCAAAGAA
*
3774503 TCCTAATTTGCACTAGGATGCC-AAAACTGATGAGACACCAATT-GATTTGTGTCGCACCAAGGA
1 TCCTAATTTGCACTAGGATGCCAAAAACTGACGAGACACCAATTAG-TTTGTGTCGCACCAAGGA
3774566 AGAATTGTGCACAG
65 AGAATTGTGCACAG
* *
3774580 TCCTAATTTGCACT-GAGATGCCAAAAACTGACGAGACACCAATTAGTTTGTGTTGCACCGAGGA
1 TCCTAATTTGCACTAG-GATGCCAAAAACTGACGAGACACCAATTAGTTTGTGTCGCACCAAGGA
3774644 AGAATTGTGCACA
65 AGAATTGTGCACA
3774657 CCTTAAAATC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
76 1 0.01
77 20 0.28
78 49 0.69
79 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (78 bp):
TCCTAATTTGCACTAGGATGCCAAAAACTGACGAGACACCAATTAGTTTGTGTCGCACCAAGGAA
GAATTGTGCACAG
Found at i:3778727 original size:20 final size:20
Alignment explanation
Indices: 3778680--3778718 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3778670 TTTACTTAGT
3778680 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCGAGCTCAAG
*
3778700 TCAGCTCATTCGAGCTCAA
1 TCAGCTCACTCGAGCTCAA
3778719 TTTAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (20 bp):
TCAGCTCACTCGAGCTCAAG
Found at i:3785209 original size:67 final size:67
Alignment explanation
Indices: 3785101--3785234 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
3785091 AACAAATAAA
3785101 ATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTAAGTATGGTTTGACTTCT
1 ATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTAAGTATGGTTTGACTTCT
3785166 TG
66 TG
* * *
3785168 ATTTTTACAAATTGGGCTACTTTAACAATTTGGCCTGATTTTCAACTAAGTATGGTTTGACTTCT
1 ATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTAAGTATGGTTTGACTTCT
3785233 TG
66 TG
3785235 GTTGGGCTTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (67 bp):
ATTTTTACAAATTGAGCCACTGTAACAATTTGGCCTGATTTTCAACTAAGTATGGTTTGACTTCT
TG
Found at i:3786515 original size:90 final size:90
Alignment explanation
Indices: 3786410--3786604 Score: 390
Period size: 90 Copynumber: 2.2 Consensus size: 90
3786400 CAAGATTTGA
3786410 AATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAATAGAAAAATTGGACCAAGATTCAGTTTCT
1 AATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAATAGAAAAATTGGACCAAGATTCAGTTTCT
3786475 TAATTTTCTTGAAAACAAGAAAGTG
66 TAATTTTCTTGAAAACAAGAAAGTG
3786500 AATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAATAGAAAAATTGGACCAAGATTCAGTTTCT
1 AATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAATAGAAAAATTGGACCAAGATTCAGTTTCT
3786565 TAATTTTCTTGAAAACAAGAAAGTG
66 TAATTTTCTTGAAAACAAGAAAGTG
3786590 AATCTTGATTTTCTT
1 AATCTTGATTTTCTT
3786605 TTTCCTTCGT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (90 bp):
AATCTTGATTTTCTTGATTCTTGAAATCGCTCAAAATAGAAAAATTGGACCAAGATTCAGTTTCT
TAATTTTCTTGAAAACAAGAAAGTG
Found at i:3789089 original size:119 final size:120
Alignment explanation
Indices: 3788913--3789135 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
3788903 TACTCGTTCA
* *
3788913 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
3788978 ATAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCAACTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
3789033 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* ** *
3789095 ATATGGTCAGTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTCAACTAGCACAAAGCCTTCGGGACTTAACCCGGA
3789136 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.72
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTCAACTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:3789135 original size:40 final size:40
Alignment explanation
Indices: 3788892--3789135 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
3788882 CGGAATTTAA
** *
3788892 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
3788932 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3788972 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3789012 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
3789051 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* ** *
3789091 CCGGATATGGTCAGTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AACTCGCACAAATGCCTTCGGGACTTAGC
3789131 CCGGA
1 CCGGA
3789136 CATCATTCAA
Statistics
Matches: 179, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 132 0.74
41 13 0.07
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:3790886 original size:24 final size:24
Alignment explanation
Indices: 3790854--3790908 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
3790844 GGCTGTCACA
3790854 GAAATGGTATGAGATTTGTGGTAC
1 GAAATGGTATGAGATTTGTGGTAC
* * *
3790878 GAAATGGTATGGGATTTTTGGTAT
1 GAAATGGTATGAGATTTGTGGTAC
3790902 GAAATGG
1 GAAATGG
3790909 ATCAAAAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.35
Consensus pattern (24 bp):
GAAATGGTATGAGATTTGTGGTAC
Found at i:3794192 original size:23 final size:23
Alignment explanation
Indices: 3794133--3794201 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
3794123 TCGAAGATAG
* *
3794133 TTTAGGTTTAGGCACGTAATGG-
1 TTTAGGTTTAGGTACGAAATGGT
* *
3794155 TTTAAGTTTAAGTACGAAATGGT
1 TTTAGGTTTAGGTACGAAATGGT
*
3794178 TTTTGGTTTAGGTACGATAATGGT
1 TTTAGGTTTAGGTACGA-AATGGT
3794202 ATGGTTTTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 18 0.47
23 14 0.37
24 6 0.16
ACGTcount: A:0.26, C:0.06, G:0.28, T:0.41
Consensus pattern (23 bp):
TTTAGGTTTAGGTACGAAATGGT
Found at i:3811934 original size:63 final size:63
Alignment explanation
Indices: 3811815--3811937 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 63
3811805 AAAAGAAAAA
* * * * *
3811815 TTAGGAAACCTCACTCTTAGTCACTCAAAAAGAAAAATCAAATTCTCCATGTGGTAGAATTCT
1 TTAGCAAACCTCACTCTTAGTCACACAAAAAGAAAAATCAAATTCTCAACGAGGTAGAATTCT
3811878 TTAGCAAACCTCAC-CGTTAGTCACACAAAAAGAAAAATCAAATTCTCAACGAGGTAGAAT
1 TTAGCAAACCTCACTC-TTAGTCACACAAAAAGAAAAATCAAATTCTCAACGAGGTAGAAT
3811938 CCAGTCTTGT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 1 0.02
63 53 0.98
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (63 bp):
TTAGCAAACCTCACTCTTAGTCACACAAAAAGAAAAATCAAATTCTCAACGAGGTAGAATTCT
Found at i:3814040 original size:124 final size:124
Alignment explanation
Indices: 3813820--3814067 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
3813810 AACAAAATTG
3813820 CACCAAGATTCAGTTTCTTGATTTTCTTGAAAATAAGAAACTGAATCTTGATTTTCTTTTTCCTT
1 CACCAAGATTCAGTTTCTTGATTTTCTTGAAAATAAGAAACTGAATCTTGATTTTCTTTTTCCTT
3813885 CGTATACGCATCTAAGGCCTGTGTGACTCGTATCAGGTCGTGAGGCATTACCTTAGATT
66 CGTATACGCATCTAAGGCCTGTGTGACTCGTATCAGGTCGTGAGGCATTACCTTAGATT
3813944 CACCAAGATTCAGTTTCTTGATTTTCTTGAAAATAAGAAACTGAATCTTGATTTTCTTTTTCCTT
1 CACCAAGATTCAGTTTCTTGATTTTCTTGAAAATAAGAAACTGAATCTTGATTTTCTTTTTCCTT
3814009 CGTATACGCATCTAAGGCCTGTGTGACTCGTATCAGGTCGTGAGGCATTACCTTAGATT
66 CGTATACGCATCTAAGGCCTGTGTGACTCGTATCAGGTCGTGAGGCATTACCTTAGATT
3814068 TTTCTTGTTT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (124 bp):
CACCAAGATTCAGTTTCTTGATTTTCTTGAAAATAAGAAACTGAATCTTGATTTTCTTTTTCCTT
CGTATACGCATCTAAGGCCTGTGTGACTCGTATCAGGTCGTGAGGCATTACCTTAGATT
Found at i:3814464 original size:93 final size:93
Alignment explanation
Indices: 3814351--3814534 Score: 350
Period size: 93 Copynumber: 2.0 Consensus size: 93
3814341 TTTTCACTCT
3814351 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAAATTTTGAATTTTTTCACTACTAG
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAAATTTTGAATTTTTTCACTACTAG
3814416 CCTCTTTTCTCTCTGTCTTTTTTATTAA
66 CCTCTTTTCTCTCTGTCTTTTTTATTAA
* *
3814444 ATTTTTACCACTTGCGGATTCACTCACCTTTGGGCCATTTAAATTTTGACTTTTTTCACTACTAG
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAAATTTTGAATTTTTTCACTACTAG
3814509 CCTCTTTTCTCTCTGTCTTTTTTATT
66 CCTCTTTTCTCTCTGTCTTTTTTATT
3814535 TGTCCTTTCT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 89 1.00
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.49
Consensus pattern (93 bp):
ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAAATTTTGAATTTTTTCACTACTAG
CCTCTTTTCTCTCTGTCTTTTTTATTAA
Found at i:3817512 original size:42 final size:42
Alignment explanation
Indices: 3817453--3817541 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
3817443 TTTTCACTCT
*
3817453 ATTTTTACCACTTGCAGATTCACTCACGTTTGGGCCATTGAA
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
*
3817495 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAA
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
3817537 ATTTT
1 ATTTT
3817542 GAATTTTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (42 bp):
ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
Found at i:3819456 original size:39 final size:39
Alignment explanation
Indices: 3819411--3819488 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
3819401 ACATCTTATT
*
3819411 GGGCCGTGTCTTCAAGAACTTGGGCCTGTAACTCGTTCC
1 GGGCCGTGTCTTCAAGAACTTGGGCCTGTAACCCGTTCC
*
3819450 GGGCCGTGTCTTCAAGAACTTGGGCTTGTAACCCGTTCC
1 GGGCCGTGTCTTCAAGAACTTGGGCCTGTAACCCGTTCC
3819489 CTCCCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.28
Consensus pattern (39 bp):
GGGCCGTGTCTTCAAGAACTTGGGCCTGTAACCCGTTCC
Found at i:3820191 original size:42 final size:42
Alignment explanation
Indices: 3820132--3820220 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
3820122 TTTTCACTCT
*
3820132 ATTTTTACCACTTGCAGATTCACTCACGTTTGGGCCATTGAA
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
*
3820174 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTTAA
1 ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
3820216 ATTTT
1 ATTTT
3820221 GAATTTTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (42 bp):
ATTTTTACCACTTGCAGATTCACTCACCTTTGGGCCATTGAA
Found at i:3823549 original size:49 final size:49
Alignment explanation
Indices: 3823477--3823574 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
3823467 GGGTAGATTT
*
3823477 TGATACGAGTCATAAAGGCCCAACCCAAGCTCAAGAAGATGATGGGCTC
1 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGATGATGGGCTC
3823526 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGATGATGGGCTC
1 TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGATGATGGGCTC
3823575 AAATCAAGAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (49 bp):
TGATACGAGTCACAAAGGCCCAACCCAAGCTCAAGAAGATGATGGGCTC
Found at i:3823784 original size:90 final size:90
Alignment explanation
Indices: 3823576--3823774 Score: 389
Period size: 90 Copynumber: 2.2 Consensus size: 90
3823566 GATGGGCTCA
*
3823576 AATCAAGAAAATCAAGATCCACTTTCTTGTTTTCAAGAAAATCAAGAAACTGAATCTTGGCCCAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACTGAATCTTGGCCCAA
3823641 TTATGCTGTTCGAAGAGATTTCAAG
66 TTATGCTGTTCGAAGAGATTTCAAG
3823666 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACTGAATCTTGGCCCAA
1 AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACTGAATCTTGGCCCAA
3823731 TTATGCTGTTCGAAGAGATTTCAAG
66 TTATGCTGTTCGAAGAGATTTCAAG
3823756 AATCAAGAAAATCAAGATT
1 AATCAAGAAAATCAAGATT
3823775 TCAAATCTTG
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 108 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.29
Consensus pattern (90 bp):
AATCAAGAAAATCAAGATTCACTTTCTTGTTTTCAAGAAAATCAAGAAACTGAATCTTGGCCCAA
TTATGCTGTTCGAAGAGATTTCAAG
Found at i:3823919 original size:77 final size:77
Alignment explanation
Indices: 3823787--3823938 Score: 295
Period size: 77 Copynumber: 2.0 Consensus size: 77
3823777 AAATCTTGGA
*
3823787 AATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACACGCATTGGATCTCCGTTACGAGCATCAAC
1 AATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACACGCATTGGATCTCCCTTACGAGCATCAAC
3823852 GACCCAATTTCG
66 GACCCAATTTCG
3823864 AATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACACGCATTGGATCTCCCTTACGAGCATCAAC
1 AATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACACGCATTGGATCTCCCTTACGAGCATCAAC
3823929 GACCCAATTT
66 GACCCAATTT
3823939 TGGAAGGAGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (77 bp):
AATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACACGCATTGGATCTCCCTTACGAGCATCAAC
GACCCAATTTCG
Found at i:3824067 original size:104 final size:104
Alignment explanation
Indices: 3823946--3824152 Score: 405
Period size: 104 Copynumber: 2.0 Consensus size: 104
3823936 TTTTGGAAGG
3823946 AGATGGATCACGAGCCCAAATTCTTGAAGGCAAGGCCCAATAACCAAATTTCAGCCCAATCAAGA
1 AGATGGATCACGAGCCCAAATTCTTGAAGGCAAGGCCCAATAACCAAATTTCAGCCCAATCAAGA
3824011 AATTCCTTCATACTTAGTTGAAAATCAGGCCAAAATGTT
66 AATTCCTTCATACTTAGTTGAAAATCAGGCCAAAATGTT
*
3824050 AGATGGATCACGAGCCCAAATTCTTGAAGGCGAGGCCCAATAACCAAATTTCAGCCCAATCAAGA
1 AGATGGATCACGAGCCCAAATTCTTGAAGGCAAGGCCCAATAACCAAATTTCAGCCCAATCAAGA
3824115 AATTCCTTCATACTTAGTTGAAAATCAGGCCAAAATGT
66 AATTCCTTCATACTTAGTTGAAAATCAGGCCAAAATGT
3824153 CAAAGGGCCC
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (104 bp):
AGATGGATCACGAGCCCAAATTCTTGAAGGCAAGGCCCAATAACCAAATTTCAGCCCAATCAAGA
AATTCCTTCATACTTAGTTGAAAATCAGGCCAAAATGTT
Done.