Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 182 of 199
Found at i:52881199 original size:23 final size:24
Alignment explanation
Indices: 52881155--52881200 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
52881145 TTTCTCACAT
* **
52881155 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
52881179 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
52881201 AATTTCATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:52889018 original size:12 final size:12
Alignment explanation
Indices: 52888997--52889028 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
52888987 TGCCACACAC
52888997 GGCCGTGTGCTA
1 GGCCGTGTGCTA
*
52889009 GGCTGTGTGCTA
1 GGCCGTGTGCTA
52889021 GGCCGTGT
1 GGCCGTGT
52889029 AACTCACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.22, G:0.44, T:0.28
Consensus pattern (12 bp):
GGCCGTGTGCTA
Found at i:52894897 original size:21 final size:21
Alignment explanation
Indices: 52894871--52894913 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
52894861 TCGCAGCCAT
52894871 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
52894892 ATTACACAAAAGAGTGTTCTA
1 ATTACACAAAAGAGTGTTCTA
52894913 A
1 A
52894914 GCTTTCTCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
ATTACACAAAAGAGTGTTCTA
Found at i:52897765 original size:22 final size:22
Alignment explanation
Indices: 52897737--52897792 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
52897727 GACCTCATCC
*
52897737 AGCTTAGTACGTTAAACATGAG
1 AGCTTAGTACGTGAAACATGAG
52897759 AGCTTAGTACGTGAAACATGAG
1 AGCTTAGTACGTGAAACATGAG
52897781 AGCTTAGTACGT
1 AGCTTAGTACGT
52897793 ACTATCAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (22 bp):
AGCTTAGTACGTGAAACATGAG
Found at i:52902214 original size:33 final size:33
Alignment explanation
Indices: 52902177--52902242 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
52902167 GTAGTGTTTG
52902177 GGGTAACTTCAATAGGAAATTCGACTTCTCGAA
1 GGGTAACTTCAATAGGAAATTCGACTTCTCGAA
52902210 GGGTAACTTCAATAGGAAATTCGACTTCTCGAA
1 GGGTAACTTCAATAGGAAATTCGACTTCTCGAA
52902243 AAGGCGGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (33 bp):
GGGTAACTTCAATAGGAAATTCGACTTCTCGAA
Found at i:52904127 original size:20 final size:21
Alignment explanation
Indices: 52904081--52904127 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
52904071 TTTTTAATTA
52904081 AATA-AAATAAAACATTAAAT
1 AATATAAATAAAACATTAAAT
* * *
52904101 AAAATAAATATAAC-TTAACT
1 AATATAAATAAAACATTAAAT
52904121 AATATAA
1 AATATAA
52904128 CATAGTGGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (21 bp):
AATATAAATAAAACATTAAAT
Found at i:52905421 original size:2 final size:2
Alignment explanation
Indices: 52905414--52905442 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52905404 TTGTCCCTTG
52905414 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
52905443 GTTTGTTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52907017 original size:9 final size:9
Alignment explanation
Indices: 52907003--52907078 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
52906993 TTTGGTTAAA
52907003 AATTAACCG
1 AATTAACCG
52907012 AATTAACCG
1 AATTAACCG
* *
52907021 AATTACCCA
1 AATTAACCG
52907030 AATTAACCG
1 AATTAACCG
52907039 AATTAACCG
1 AATTAACCG
* *
52907048 GATTACCCG
1 AATTAACCG
52907057 AATTAACCG
1 AATTAACCG
*
52907066 AATTAACTG
1 AATTAACCG
52907075 AATT
1 AATT
52907079 GAATCACTAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:52907035 original size:27 final size:27
Alignment explanation
Indices: 52907002--52907078 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
52906992 TTTTGGTTAA
52907002 AAATTAACCGAATTAACCGAATTACCC
1 AAATTAACCGAATTAACCGAATTACCC
*
52907029 AAATTAACCGAATTAACCGGATTACCC
1 AAATTAACCGAATTAACCGAATTACCC
* *
52907056 GAATTAACCGAATTAACTGAATT
1 AAATTAACCGAATTAACCGAATT
52907079 GAATCACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (27 bp):
AAATTAACCGAATTAACCGAATTACCC
Found at i:52907221 original size:18 final size:18
Alignment explanation
Indices: 52907181--52907224 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
52907171 AATTTTTATG
**
52907181 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
52907199 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
52907217 CTTGGGTT
1 ATTGGGTT
52907225 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:52908893 original size:64 final size:64
Alignment explanation
Indices: 52908750--52908894 Score: 188
Period size: 64 Copynumber: 2.2 Consensus size: 64
52908740 AGTTGATGAT
* * *
52908750 GTGGTTTTGCGGAGGTTCGGATGGGCGTTAAGAGGGCTATGCGGGGTATGACTATTATGACTATA
1 GTGG-TTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
* *
52908815 -CGGTTT-CGTGGAGGTTCGGATGGACTTTAAGAGGGCTATGCGGAGTATGACTATTATGACTA-
1 GTGGTTTGC-T-GAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTAT
52908877 A
64 A
52908878 GTGGCTTTGCTGAGGTT
1 GTGG-TTTGCTGAGGTT
52908895 TGGGTTGGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.06
64 59 0.86
65 4 0.06
66 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.32
Consensus pattern (64 bp):
GTGGTTTGCTGAGGTTCGGATGGACGTTAAGAGGGCTATGCGGAGTATGACTATTATGACTATA
Found at i:52913016 original size:27 final size:27
Alignment explanation
Indices: 52912975--52913029 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
52912965 TCCTAAGATT
52912975 ACAAAAAATGAGCTAGTTAGAACTTAG
1 ACAAAAAATGAGCTAGTTAGAACTTAG
*
52913002 ACAAAAAATGGGCTAGTTAGAACTTAG
1 ACAAAAAATGAGCTAGTTAGAACTTAG
52913029 A
1 A
52913030 AATCAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (27 bp):
ACAAAAAATGAGCTAGTTAGAACTTAG
Found at i:52913827 original size:27 final size:27
Alignment explanation
Indices: 52913797--52913863 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
52913787 CTTATCTCAG
52913797 AGGCGCCAATGGTAGTGCCTAT-CTGAC
1 AGGCGCCAATGGTAGTGCC-ATGCTGAC
* * * * * *
52913824 AGGCACCATTAGTGGTGCCATGTTGAG
1 AGGCGCCAATGGTAGTGCCATGCTGAC
52913851 AGGCGCCAATGGT
1 AGGCGCCAATGGT
52913864 CTTATTTTTC
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
26 2 0.07
27 28 0.93
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (27 bp):
AGGCGCCAATGGTAGTGCCATGCTGAC
Found at i:52915142 original size:27 final size:27
Alignment explanation
Indices: 52915107--52915189 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
52915097 GAAAAATAAG
*
52915107 ACCATTGGCGCCTCTCAACAT-GGCACC
1 ACCAATGGCGCCTCTC-ACATAGGCACC
* * * *
52915134 ACTAATGGCGTCTGTCAGATAGGCACC
1 ACCAATGGCGCCTCTCACATAGGCACC
* * * *
52915161 ACCATTGGCGCCTCTGAGATAGGCGCC
1 ACCAATGGCGCCTCTCACATAGGCACC
52915188 AC
1 AC
52915190 TACTTTGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.23, C:0.34, G:0.24, T:0.19
Consensus pattern (27 bp):
ACCAATGGCGCCTCTCACATAGGCACC
Found at i:52915551 original size:3 final size:3
Alignment explanation
Indices: 52915543--52915642 Score: 137
Period size: 3 Copynumber: 33.0 Consensus size: 3
52915533 AAGGAAACTT
* * * * *
52915543 AGA AGA AGA AGA AGA ACA AGCC AGA AGA AGT TGA AGA AGA CGA AGA
1 AGA AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA
*
52915589 AGA AGT AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
52915637 AGA AGA
1 AGA AGA
52915643 TTCCATAACC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 82 0.98
4 2 0.02
ACGTcount: A:0.61, C:0.04, G:0.32, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:52922599 original size:17 final size:17
Alignment explanation
Indices: 52922573--52922606 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
52922563 ATACTTTATA
*
52922573 TTTCAAGTTTTCCATAT
1 TTTCAAGTTTTACATAT
*
52922590 TTTCATGTTTTACATAT
1 TTTCAAGTTTTACATAT
52922607 ACGTGCAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTCAAGTTTTACATAT
Found at i:52925371 original size:277 final size:277
Alignment explanation
Indices: 52924659--52925432 Score: 1167
Period size: 277 Copynumber: 2.8 Consensus size: 277
52924649 TACAGTTTCT
* * *
52924659 GCTGCTCATCAATGTGGATGATTCTGTCTAGCAAAATATTATCTAATGCTTAAACTGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGC-TAAACAGCCATTGAC
* * * * *
52924724 CATTTTACTTCCAAGTAGACTACCAGTCATTTGGATAGGAATTTCTACTGAGTAACCTTTTGCTC
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTC
* * *
52924789 AATGATCCATCTTTTCGGTCTAGCTGATTTATGGCAACCCTTTTAAAAGCAGTTCCAATGATACA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTT--AAGCAGTTCCAATGATACA
* * *
52924854 AAATGTAGTTTGACTCATACCCATTCACGTGGATAGGATTTTCTACCAAGTAACCTTATGCTCAA
193 AAAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAA
52924919 TGATCCATCTTTTTGATCTA
258 TGATCCATCTTTTTGATCTA
* ** ***
52924939 GCTGTTTGTCAATGTGGATGATTCTGTCTG-GCAAAATATTATCCAATGCTTGGCAGCCATTGAC
1 GCTGCTCATCAATGTGGATGATTCTGTC-GAGCAAAATATTATCCAATGCTAAACAGCCATTGAC
* *
52925003 CATTCTACTTCCAAGCAGACTACCATTCATGTGGATAGGATTTTCTACC-AGGTAGCCTTTTGCT
65 CATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGA-GTAACCTTTTGCT
**
52925067 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAGTCCTTTTAAGCAGTTCCAATGATACAA
129 CAATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAA
* * * * *
52925132 AAAGTAGTTTGACCCATACCCATTCATGTGAATAGGATTTTCTA-CGAGTAACCTTTTGTTTAAT
194 AAAGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAAT
52925196 GATCCATCTTTTTGATCTA
259 GATCCATCTTTTTGATCTA
*
52925215 GCTGCTCATCAGTGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
1 GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
* * *
52925280 ATTCTACTTACAAGTAGATTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTTACTC
66 ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACC-TTTTGCTC
*
52925345 AATGATCCGTCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
130 AATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAA
52925410 AAGTAGTTTGACCCATACCCATT
195 AAGTAGTTTGACCCATACCCATT
52925433 AGCTGGATCC
Statistics
Matches: 445, Mismatches: 44, Indels: 13
0.89 0.09 0.03
Matches are distributed among these distances:
275 1 0.00
276 141 0.32
277 153 0.34
278 1 0.00
279 106 0.24
280 43 0.10
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (277 bp):
GCTGCTCATCAATGTGGATGATTCTGTCGAGCAAAATATTATCCAATGCTAAACAGCCATTGACC
ATTCTACTTCCAAGTAGACTACCATTCATGTGGATAGGATTTTCTACCGAGTAACCTTTTGCTCA
ATGATCCATCTTTTTGATCTAGCTGATTTATGGTAACCCTTTTAAGCAGTTCCAATGATACAAAA
AGTAGTTTGACCCATACCCATTCACGTGAATAGGATTTTCTACCAAGTAACCTTATGCTCAATGA
TCCATCTTTTTGATCTA
Found at i:52928923 original size:20 final size:20
Alignment explanation
Indices: 52928895--52928934 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
52928885 CTCTAATTAG
*
52928895 AATCTCTAAAAATCAGCTAT
1 AATCCCTAAAAATCAGCTAT
* *
52928915 AATCCCTAAAGATTAGCTAT
1 AATCCCTAAAAATCAGCTAT
52928935 TCAATGCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAGCTAT
Found at i:52931483 original size:42 final size:42
Alignment explanation
Indices: 52931424--52931509 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
52931414 AATGACCAAG
52931424 AAAGAATTCAAGTTTACAATTTAAGGCTTTAGTGATAGTACT
1 AAAGAATTCAAGTTTACAATTTAAGGCTTTAGTGATAGTACT
52931466 AAAGAATTCAAGTTTACAATTTAAGGCTTTAGTGATAGTACT
1 AAAGAATTCAAGTTTACAATTTAAGGCTTTAGTGATAGTACT
52931508 AA
1 AA
52931510 CAGATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (42 bp):
AAAGAATTCAAGTTTACAATTTAAGGCTTTAGTGATAGTACT
Found at i:52935203 original size:6 final size:5
Alignment explanation
Indices: 52935177--52935206 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
52935167 TATTACAATC
52935177 GGGGT GGGGT GGGGT GGGGT GGGGGT GGGG
1 GGGGT GGGGT GGGGT GGGGT -GGGGT GGGG
52935207 ACGCACTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.00, G:0.83, T:0.17
Consensus pattern (5 bp):
GGGGT
Found at i:52935982 original size:21 final size:21
Alignment explanation
Indices: 52935958--52936053 Score: 68
Period size: 21 Copynumber: 4.3 Consensus size: 21
52935948 TTATTATTAA
52935958 ATATAATTTAATAAAAATAAT
1 ATATAATTTAATAAAAATAAT
* * * **
52935979 ATATATTTTAATAACATTCTT
1 ATATAATTTAATAAAAATAAT
52936000 AATATAATTTAATAAAAATCATAATAT
1 -ATATAATTTAAT-AAAA--AT-A-AT
*
52936027 ATATAATATT-AGAAAAATAAT
1 ATATAAT-TTAATAAAAATAAT
52936048 ATATAA
1 ATATAA
52936054 CCTACTTTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
21 24 0.42
22 12 0.21
23 5 0.09
25 5 0.09
26 8 0.14
27 3 0.05
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (21 bp):
ATATAATTTAATAAAAATAAT
Found at i:52936024 original size:22 final size:22
Alignment explanation
Indices: 52935957--52936027 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 22
52935947 ATTATTATTA
*
52935957 AATATAATTTAATAAAAATAAT
1 AATATAATTTAATAAAAATCAT
* * * *
52935979 -ATATATTTTAATAACATTCTT
1 AATATAATTTAATAAAAATCAT
52936000 AATATAATTTAATAAAAATCAT
1 AATATAATTTAATAAAAATCAT
52936022 AATATA
1 AATATA
52936028 TATAATATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 16 0.41
22 23 0.59
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATTTAATAAAAATCAT
Found at i:52938964 original size:13 final size:13
Alignment explanation
Indices: 52938948--52938981 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
52938938 AAATTTATTT
52938948 TAAAAATAAAAAA
1 TAAAAATAAAAAA
*
52938961 TAAAAATAAAAAT
1 TAAAAATAAAAAA
52938974 TAAAAATA
1 TAAAAATA
52938982 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:52938995 original size:6 final size:6
Alignment explanation
Indices: 52938948--52938981 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
52938938 AAATTTATTT
52938948 TAAAAA TAAAAAA TAAAAA TAAAAA TTAAAAA TA
1 TAAAAA T-AAAAA TAAAAA TAAAAA -TAAAAA TA
52938982 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
TAAAAA
Found at i:52939006 original size:17 final size:17
Alignment explanation
Indices: 52938968--52939006 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52938958 AAATAAAAAT
* *
52938968 AAAAATTAAAAATATTT
1 AAAAATTAAAAAAATTA
*
52938985 TAAAATTAAAAAAATTA
1 AAAAATTAAAAAAATTA
52939002 AAAAA
1 AAAAA
52939007 AATTTATTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATTAAAAAAATTA
Found at i:52948553 original size:16 final size:17
Alignment explanation
Indices: 52948517--52948553 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
52948507 AGCATACTTA
*
52948517 ATAATATTTATAGTAAT
1 ATAATATTTATAGAAAT
52948534 -TAATATTTA-AGAAAT
1 ATAATATTTATAGAAAT
52948549 ATAAT
1 ATAAT
52948554 TATATTACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (17 bp):
ATAATATTTATAGAAAT
Found at i:52948694 original size:31 final size:31
Alignment explanation
Indices: 52948658--52948755 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 31
52948648 ACGATTCTTT
52948658 GTAATTATAGAATAGTGTAATTACTAAGATA
1 GTAATTATAGAATAGTGTAATTACTAAGATA
* * ** *
52948689 GTAATTAT--ACT--T-TCATTAC-AATTCTTT
1 GTAATTATAGAATAGTGTAATTACTAA--GATA
52948716 GTAATTATAGAATAGTGTAATTACTAAGATA
1 GTAATTATAGAATAGTGTAATTACTAAGATA
52948747 GTAATTATA
1 GTAATTATA
52948756 CTTTCATTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 16
0.65 0.13 0.21
Matches are distributed among these distances:
25 2 0.04
26 6 0.12
27 10 0.20
29 4 0.08
31 19 0.39
32 6 0.12
33 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (31 bp):
GTAATTATAGAATAGTGTAATTACTAAGATA
Found at i:52948716 original size:58 final size:58
Alignment explanation
Indices: 52948645--52948776 Score: 239
Period size: 58 Copynumber: 2.3 Consensus size: 58
52948635 CGTCTAGAGA
*
52948645 ATTACGATTCTTTGTAATTATAGAATAGTGTAATTACTAAGATAGTAATTATACTTTC
1 ATTACAATTCTTTGTAATTATAGAATAGTGTAATTACTAAGATAGTAATTATACTTTC
52948703 ATTACAATTCTTTGTAATTATAGAATAGTGTAATTACTAAGATAGTAATTATACTTTC
1 ATTACAATTCTTTGTAATTATAGAATAGTGTAATTACTAAGATAGTAATTATACTTTC
52948761 ATT-CAATTACTTTGTA
1 ATTACAATT-CTTTGTA
52948777 TTGTTCAAAC
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
57 5 0.07
58 67 0.93
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (58 bp):
ATTACAATTCTTTGTAATTATAGAATAGTGTAATTACTAAGATAGTAATTATACTTTC
Found at i:52948769 original size:31 final size:31
Alignment explanation
Indices: 52948676--52948771 Score: 80
Period size: 31 Copynumber: 3.2 Consensus size: 31
52948666 AGAATAGTGT
52948676 AATTACTAAGATAGTAATTATACTTTCATTAC
1 AATTACTAAGATAGTAATTATACTTTCATT-C
* ***
52948708 AATT-CT----TTGTAATTATAGAAT-AGTGT-
1 AATTACTAAGATAGTAATTATACTTTCA-T-TC
52948734 AATTACTAAGATAGTAATTATACTTTCATTC
1 AATTACTAAGATAGTAATTATACTTTCATTC
52948765 AATTACT
1 AATTACT
52948772 TTGTATTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 19
0.64 0.11 0.26
Matches are distributed among these distances:
26 5 0.11
27 14 0.30
28 1 0.02
30 1 0.02
31 21 0.45
32 5 0.11
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (31 bp):
AATTACTAAGATAGTAATTATACTTTCATTC
Found at i:52948818 original size:16 final size:16
Alignment explanation
Indices: 52948797--52948832 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
52948787 AAAATCTTGT
52948797 AAAATTA-AATTAAATA
1 AAAATTAGAATTAAA-A
52948813 AAAATTAGAATTAAAA
1 AAAATTAGAATTAAAA
52948829 AAAA
1 AAAA
52948833 ACTTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATTAGAATTAAAA
Found at i:52948833 original size:17 final size:16
Alignment explanation
Indices: 52948797--52948833 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
52948787 AAAATCTTGT
*
52948797 AAAATTAAATTAAATA
1 AAAATTAAATTAAAAA
52948813 AAAATTAGAATTAAAAA
1 AAAATTA-AATTAAAAA
52948830 AAAA
1 AAAA
52948834 CTTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAATTAAATTAAAAA
Found at i:52952410 original size:51 final size:51
Alignment explanation
Indices: 52952344--52952444 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
52952334 ACACTTATAG
*
52952344 TTTTTTCGAATAGATTGGTTAATAAAACTATTCATGAATTACATTAATATT
1 TTTTTTCGAACAGATTGGTTAATAAAACTATTCATGAATTACATTAATATT
52952395 TTTTTTCGAACAGATTGGTTAATAAAACTATTCATGAATTACATTAATAT
1 TTTTTTCGAACAGATTGGTTAATAAAACTATTCATGAATTACATTAATAT
52952445 CTTTCGTATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (51 bp):
TTTTTTCGAACAGATTGGTTAATAAAACTATTCATGAATTACATTAATATT
Found at i:52954042 original size:20 final size:20
Alignment explanation
Indices: 52953995--52954069 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
52953985 TCAGACAAAT
*
52953995 TGCCAGTAATGTGGACAAG-
1 TGCCAGTAATGTAGACAAGC
52954014 T-CACTAGTAATGTAGACAAGC
1 TGC-C-AGTAATGTAGACAAGC
* * *
52954035 TGCCAGTATTGTGGACAAAC
1 TGCCAGTAATGTAGACAAGC
*
52954055 TACCAGTAATGTAGA
1 TGCCAGTAATGTAGA
52954070 TAAATTGCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 39 0.87
21 2 0.04
22 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (20 bp):
TGCCAGTAATGTAGACAAGC
Found at i:52955018 original size:25 final size:24
Alignment explanation
Indices: 52954956--52955019 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 24
52954946 AGAAAAAAGG
52954956 ATCAATTGAAAAAGTAAGTTACTAA
1 ATCAATT-AAAAAGTAAGTTACTAA
*
52954981 ATCAATTGAAAAAGTGAGTTACTAA
1 ATCAATT-AAAAAGTAAGTTACTAA
*
52955006 GTACAATATAAAAA
1 AT-CAAT-TAAAAA
52955020 AATAAAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 25 0.71
26 9 0.26
27 1 0.03
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (24 bp):
ATCAATTAAAAAGTAAGTTACTAA
Found at i:52955019 original size:26 final size:25
Alignment explanation
Indices: 52954956--52955005 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
52954946 AGAAAAAAGG
52954956 ATCAATTGAAAAAGTAAGTTACTAA
1 ATCAATTGAAAAAGTAAGTTACTAA
*
52954981 ATCAATTGAAAAAGTGAGTTACTAA
1 ATCAATTGAAAAAGTAAGTTACTAA
52955006 GTACAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (25 bp):
ATCAATTGAAAAAGTAAGTTACTAA
Found at i:52956656 original size:17 final size:16
Alignment explanation
Indices: 52956644--52956675 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
52956634 AGAAATTTAT
52956644 TTAATTGAAAAATTAA
1 TTAATTGAAAAATTAA
52956660 TTAATT--AAAATTAA
1 TTAATTGAAAAATTAA
52956674 TT
1 TT
52956676 TATAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TTAATTGAAAAATTAA
Found at i:52963020 original size:19 final size:20
Alignment explanation
Indices: 52962986--52963039 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 20
52962976 TAGGGGACCA
52962986 TTAACTTAAGTAAAA-TAAGG
1 TTAA-TTAAGTAAAATTAAGG
52963006 TTTAATTAA-TAAAATTAAGG
1 -TTAATTAAGTAAAATTAAGG
52963026 TTAATTAAGCTAAA
1 TTAATTAAG-TAAA
52963040 TTATAATCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.43
20 9 0.30
21 8 0.27
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (20 bp):
TTAATTAAGTAAAATTAAGG
Found at i:52963040 original size:20 final size:20
Alignment explanation
Indices: 52962986--52963042 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
52962976 TAGGGGACCA
*
52962986 TTAACTTAAGTAAAATAAGGT
1 TTAA-TTAAGTAAATTAAGGT
52963007 TTAATTAA-TAAAATTAAGG-
1 TTAATTAAGT-AAATTAAGGT
52963026 TTAATTAAGCTAAATTA
1 TTAATTAAG-TAAATTA
52963043 TAATCCAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.28
20 18 0.56
21 5 0.16
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.37
Consensus pattern (20 bp):
TTAATTAAGTAAATTAAGGT
Found at i:52966198 original size:103 final size:104
Alignment explanation
Indices: 52965858--52966228 Score: 602
Period size: 105 Copynumber: 3.6 Consensus size: 104
52965848 TGTATATAAA
** * * *
52965858 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
**
52965922 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
52965962 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGGGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
52966027 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
52966067 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
52966132 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
52966170 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
52966229 ATAACGGCTA
Statistics
Matches: 251, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
103 87 0.35
104 68 0.27
105 95 0.38
106 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:52969297 original size:17 final size:17
Alignment explanation
Indices: 52969275--52969313 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
52969265 GATGTTTTGT
52969275 ACTGATGGAAATAGTGC
1 ACTGATGGAAATAGTGC
52969292 ACTGATGGAAATAGTGC
1 ACTGATGGAAATAGTGC
52969309 ACTGA
1 ACTGA
52969314 GCATTGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (17 bp):
ACTGATGGAAATAGTGC
Found at i:52974166 original size:19 final size:19
Alignment explanation
Indices: 52974142--52974180 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52974132 ATTAATTTTG
52974142 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
52974161 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
52974180 A
1 A
52974181 AATGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:52980108 original size:50 final size:50
Alignment explanation
Indices: 52980035--52980225 Score: 265
Period size: 50 Copynumber: 3.7 Consensus size: 50
52980025 CGGTGCCAGT
52980035 GCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGATGCCAAC
1 GCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGATGCCAAC
* *
52980085 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGATGCCAAC
* *
52980135 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGCCTTACATGGGACCTCTC---ATCTC---GATGCCAAC
* * *
52980191 GCCATGTCCCAGGCTTGGCCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGCCTTACATGGGACCTCT
52980226 ATACCCAAAT
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
50 84 0.66
53 5 0.04
56 38 0.30
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGATGCCAAC
Found at i:52986823 original size:50 final size:50
Alignment explanation
Indices: 52986750--52987087 Score: 370
Period size: 50 Copynumber: 6.6 Consensus size: 50
52986740 TCTTGTACCA
* * * ** * *
52986750 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * ** *
52986800 CCCATGCCATGTCCGAGACATGGTTTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * * *
52986850 CCAACGCCATGTCCTAGACATAGTCTTACATCGGACCTCTCATCTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
52986900 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * * *
52986950 CCAACGCCATGTCCTAGACATGATCTTAGATGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
52987000 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTTTCATAATCTCAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GGTG
* * *
52987056 CTAATGCCATGTCCCAGGCATGGTTTTACATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATG
52987088 AGATCTCTTT
Statistics
Matches: 241, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
50 201 0.83
52 2 0.01
53 6 0.02
56 32 0.13
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:52986969 original size:150 final size:153
Alignment explanation
Indices: 52986750--52987095 Score: 414
Period size: 150 Copynumber: 2.3 Consensus size: 153
52986740 TCTTGTACCA
* * ** * *
52986750 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCATGTCCG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCG
* * * *
52986815 AGACATGGTTTTACG-GGGGACCTCTCATCTTGGTGCCAACGCCATGTCCTAGACATAGTCTTAC
66 AGACATGATCTTA-GAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATAGTCTTAC
*
52986879 ATCG-GACC-TC-TCATCTC-GATG
130 AT-GAGACCTTCATAATCTCAGATG
* * * *
52986900 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCG
* * *
52986965 AGACATGATCTTAGATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACA
66 AGACATGATCTTAGAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATAGTCTTACA
52987030 TGAGACCTTTCATAATCTCAATGATG
131 TGAGACC-TTCATAATCTC-A-GATG
* * * *
52987056 CTAATGCCATGTCCCAGGCATGGTTTTACATGAGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
52987096 TTACCCAAAT
Statistics
Matches: 165, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
149 2 0.01
150 116 0.70
152 2 0.01
153 6 0.04
156 39 0.24
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (153 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCAACGCCATGTCCG
AGACATGATCTTAGAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATAGTCTTACA
TGAGACCTTCATAATCTCAGATG
Found at i:53007382 original size:12 final size:13
Alignment explanation
Indices: 53007367--53007395 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
53007357 AAAATTGCTT
53007367 AAAAAATCAAG-C
1 AAAAAATCAAGTC
53007379 AAAAAATCAAGTC
1 AAAAAATCAAGTC
53007392 AAAA
1 AAAA
53007396 GCCACTAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (13 bp):
AAAAAATCAAGTC
Found at i:53009468 original size:4 final size:4
Alignment explanation
Indices: 53009459--53009489 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
53009449 TAAATCAAAA
53009459 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
53009490 AAGGAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:53013500 original size:62 final size:59
Alignment explanation
Indices: 53013425--53013538 Score: 149
Period size: 62 Copynumber: 1.9 Consensus size: 59
53013415 TATTATCTTA
* * *
53013425 ATATTAAATTTAATATAATGTTTATCTTGTAGATAAACATTCTATTATTTTAATAATATTTT
1 ATATTAAATTTAATATAATATTTATC-TG--GATAAACATTATATTAATTTAATAATATTTT
*
53013487 ATATTAAGA-TTAATATAATATTTATCTGGATAAATATTATATTAATTTAATA
1 ATATTAA-ATTTAATATAATATTTATCTGGATAAACATTATATTAATTTAATA
53013539 TTGAAGTGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 21 0.45
61 2 0.04
62 23 0.49
63 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (59 bp):
ATATTAAATTTAATATAATATTTATCTGGATAAACATTATATTAATTTAATAATATTTT
Found at i:53014775 original size:18 final size:17
Alignment explanation
Indices: 53014752--53014791 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
53014742 CTAAATTGTA
53014752 AAACAAATGTAATTAAAT
1 AAACAAAT-TAATTAAAT
53014770 AAAC-AA-TAATTAAAT
1 AAACAAATTAATTAAAT
53014785 AAA-AAAT
1 AAACAAAT
53014792 AGTGGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
15 14 0.70
17 2 0.10
18 4 0.20
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.25
Consensus pattern (17 bp):
AAACAAATTAATTAAAT
Found at i:53014779 original size:15 final size:15
Alignment explanation
Indices: 53014761--53014792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53014751 AAAACAAATG
*
53014761 TAATTAAATAAACAA
1 TAATTAAATAAAAAA
53014776 TAATTAAATAAAAAA
1 TAATTAAATAAAAAA
53014791 TA
1 TA
53014793 GTGGTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATTAAATAAAAAA
Found at i:53015573 original size:12 final size:10
Alignment explanation
Indices: 53015548--53015594 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
53015538 GAACATGAAG
53015548 AATTTTAATT
1 AATTTTAATT
53015558 AATTTTATAGTT
1 AATTTTA-A-TT
*
53015570 AATTTTGATT
1 AATTTTAATT
*
53015580 AATTTTGA-T
1 AATTTTAATT
53015589 AATTTT
1 AATTTT
53015595 TGATAGATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 2 0.06
12 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:53024614 original size:44 final size:41
Alignment explanation
Indices: 53024550--53024789 Score: 181
Period size: 41 Copynumber: 5.7 Consensus size: 41
53024540 TAACTGTTAC
53024550 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCT-AT-TTCAAAGGAT
* * *
53024593 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACC-TAT-TTCAAAGGAT
* * *
53024636 ACGG-GGAATCAACACATAGCAACC-CCT-TTCACAACAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTATT-TC-A-AAGGAT
* **
53024677 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AATTAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TAT-TTCAAAGGAT
* * * *
53024719 ACGG-GGAATCAACACATAGCAACC-CCT-TTCACAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTATT-TC-A--AAGGAT
53024761 ACGGTGGAATCAGCACTTAGCAACCACCT
1 ACGGTGGAATCAGCACTTAGCAACCACCT
53024790 TATAATCAAT
Statistics
Matches: 156, Mismatches: 23, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
38 4 0.03
39 2 0.01
40 4 0.03
41 45 0.29
42 38 0.24
43 25 0.16
44 35 0.22
45 3 0.02
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTATTTCAAAGGAT
Found at i:53024696 original size:83 final size:84
Alignment explanation
Indices: 53024595--53024830 Score: 420
Period size: 83 Copynumber: 2.8 Consensus size: 84
53024585 CAAAGGATCC
53024595 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
53024660 CCTTTCACAA-CAAGGATA
66 CCTTTCACAATCAAGGATA
*
53024678 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATTATACGGGGAATCAACACATAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
*
53024743 CCTTTCACAATCAATGATA
66 CCTTTCACAATCAAGGATA
* * *
53024762 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACAGGGAATCTACACTTAGCAACC
1 CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
53024827 CCTT
66 CCTT
53024831 ACATTCAAAG
Statistics
Matches: 146, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 74 0.51
84 72 0.49
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (84 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAACACATAGCAACC
CCTTTCACAATCAAGGATA
Found at i:53026281 original size:22 final size:21
Alignment explanation
Indices: 53026256--53026299 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
53026246 TGATAAACTT
53026256 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
53026278 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
53026299 T
1 T
53026300 CAACTGAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:53027867 original size:12 final size:10
Alignment explanation
Indices: 53027842--53027881 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
53027832 GAAAGTGATG
53027842 AATTTTAATT
1 AATTTTAATT
53027852 AATTTTATAGTT
1 AATTTTA-A-TT
*
53027864 AATTTTGATT
1 AATTTTAATT
53027874 AATTTTAA
1 AATTTTAA
53027882 CTATTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 16 0.62
11 2 0.08
12 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:53029145 original size:26 final size:26
Alignment explanation
Indices: 53029116--53029169 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
53029106 GATTGATTAA
53029116 TCGCTTGGATTGACATTGGAAATTGT
1 TCGCTTGGATTGACATTGGAAATTGT
53029142 TCGCTTGGATTGACATTGGAAATTGT
1 TCGCTTGGATTGACATTGGAAATTGT
53029168 TC
1 TC
53029170 AAGAGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (26 bp):
TCGCTTGGATTGACATTGGAAATTGT
Found at i:53035392 original size:21 final size:21
Alignment explanation
Indices: 53035366--53035423 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
53035356 TAAGGGTCTT
*
53035366 ATATATTTAATTGAGTTTCTC
1 ATATATTTAATTGAGTTTCTA
*
53035387 ATATATATAATTGAGTTTCTA
1 ATATATTTAATTGAGTTTCTA
*
53035408 ATGTATTTAATTGAGT
1 ATATATTTAATTGAGT
53035424 ACTTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (21 bp):
ATATATTTAATTGAGTTTCTA
Found at i:53042022 original size:8 final size:8
Alignment explanation
Indices: 53042009--53042036 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
53041999 AAAAGTCATT
53042009 ATTTGTGA
1 ATTTGTGA
53042017 ATTTGTGA
1 ATTTGTGA
53042025 ATTTGTGA
1 ATTTGTGA
53042033 ATTT
1 ATTT
53042037 TGCATTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (8 bp):
ATTTGTGA
Found at i:53047432 original size:30 final size:29
Alignment explanation
Indices: 53047367--53047484 Score: 123
Period size: 30 Copynumber: 3.9 Consensus size: 29
53047357 AGAACCAGTC
* *
53047367 TGGGCCTGAGCCCTATACAGTATCAGTAAGTG
1 TGGGCCTTAGCCC-ATACAGTAACAGT--GTG
53047399 TGGGCCTTAGCCCAGTACAGTAACAGTGTG
1 TGGGCCTTAGCCCA-TACAGTAACAGTGTG
* *
53047429 TGGGCCTTAGCCCAATACAGTAATA--GAG
1 TGGGCCTTAGCCC-ATACAGTAACAGTGTG
53047457 TGGGCCTTAGCCCATTACAGTAATCAGT
1 TGGGCCTTAGCCCA-TACAGTAA-CAGT
53047485 ACAATGCAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
27 1 0.01
28 23 0.31
29 1 0.01
30 25 0.33
31 2 0.03
32 23 0.31
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (29 bp):
TGGGCCTTAGCCCATACAGTAACAGTGTG
Found at i:53047621 original size:26 final size:26
Alignment explanation
Indices: 53047592--53047663 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
53047582 ACCAATATCC
* *
53047592 CAGCAAAGCTGCTAGCAATAATAACG
1 CAGCAAAGCTGCCAGCAACAATAACG
* *
53047618 CAGCAAGGCTGCCAGTAACAATAACG
1 CAGCAAAGCTGCCAGCAACAATAACG
* *
53047644 CAGCAAAGCTTCCAGTAACA
1 CAGCAAAGCTGCCAGCAACA
53047664 GTATATGTGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGCAACAATAACG
Found at i:53047721 original size:27 final size:27
Alignment explanation
Indices: 53047691--53047836 Score: 152
Period size: 27 Copynumber: 5.4 Consensus size: 27
53047681 ACTAGTATAT
*
53047691 ATCATTTTACCCTTCGAGGGTATTTCA
1 ATCATTTTACCCTTCGAGGGTATTTCG
* **
53047718 ATCATATTA-CCTTTTAGGGGTATTTCG
1 ATCATTTTACCCTTCGA-GGGTATTTCG
* * *
53047745 GTCATCTTACCCTTCGGGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * *
53047772 GTTATTTTACTCTTCGAGGGTATTTCG
1 ATCATTTTACCCTTCGAGGGTATTTCG
* * *
53047799 GTCATTTTACCCTTTGAGGGTATTTCA
1 ATCATTTTACCCTTCGAGGGTATTTCG
53047826 ATCA-TTTACCC
1 ATCATTTTACCC
53047837 AAGAATCACA
Statistics
Matches: 99, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
26 12 0.12
27 83 0.84
28 4 0.04
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.42
Consensus pattern (27 bp):
ATCATTTTACCCTTCGAGGGTATTTCG
Found at i:53048511 original size:5 final size:5
Alignment explanation
Indices: 53048499--53048550 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
53048489 AACACTAAAT
* *
53048499 GAAGA GGAGA GGAAGA GAAGA GAAGA GAAGA GAAGA GAAGA G-AGG GAAGA
1 GAAGA GAAGA -GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAAGA
53048549 GA
1 GA
53048551 GAAAAGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 3 0.07
5 34 0.83
6 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:53055923 original size:21 final size:21
Alignment explanation
Indices: 53055899--53055939 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53055889 ATAATATAAA
53055899 TTATAACTTGTAATTATTTTT
1 TTATAACTTGTAATTATTTTT
* *
53055920 TTATAATTTTTAATTATTTT
1 TTATAACTTGTAATTATTTT
53055940 CCAAAGCCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATAACTTGTAATTATTTTT
Found at i:53056473 original size:84 final size:84
Alignment explanation
Indices: 53056367--53056724 Score: 503
Period size: 84 Copynumber: 4.3 Consensus size: 84
53056357 GGATCCCAAC
* * *
53056367 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGTAGATAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGAACATAGCAACCCCTT
*
53056432 CCACAATCAAGGATACGGT
66 TCACAATCAAGGATACGGT
* * *
53056451 GGAATCAGTACTTAGCAACCACCTTATAATCAATGATACAGAGAATCA-ACACATAGCAACCCCT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGA-ACATAGCAACCCCT
*
53056515 TTCACAATCAAGGATATGGT
65 TTCACAATCAAGGATACGGT
*
53056535 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATTAGAACATAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGAACATAGCAACCCCTT
53056600 TCACAATCAAGGATACGGT
66 TCACAATCAAGGATACGGT
* *
53056619 GGAATCAGCACTTAGAAACCACCTTATAATCAAAGATACGGGGAATCA-ACACAT-GCAACCCCT
1 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGA-ACATAGCAACCCCT
** * *
53056682 TTC-TGATCAATGATTCGG-
65 TTCACAATCAAGGATACGGT
* *
53056700 GGAATCTGCACTTAGTAACC-CCTTA
1 GGAATCAGCACTTAGCAACCACCTTA
53056725 CATTCAAAGA
Statistics
Matches: 249, Mismatches: 22, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
80 5 0.02
81 18 0.07
82 11 0.04
83 13 0.05
84 201 0.81
85 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (84 bp):
GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGAACATAGCAACCCCTT
TCACAATCAAGGATACGGT
Found at i:53056482 original size:42 final size:41
Alignment explanation
Indices: 53056367--53056724 Score: 323
Period size: 42 Copynumber: 8.6 Consensus size: 41
53056357 GGATCCCAAC
* *
53056367 GGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* ** *
53056408 GGAATCAGTAGATAGCAACC-CCTTCCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACCTT--ATAATCAAGGATACGG
* * *
53056450 TGGAATCAGTACTTAGCAACCACCTTATAATCAATGATACAG
1 -GGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* * * * *
53056492 AGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATATGG
1 GGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGATACGG
*
53056534 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* * * *
53056576 GGAATTAGAACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCACC-TT-ATAATCAAGGATACGG
* *
53056618 TGGAATCAGCACTTAGAAACCACCTTATAATCAAAGATACGG
1 -GGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
* * * * * *
53056660 GGAATCAACACAT-GCAACC-CCTTTCTGATCAATGATTCGG
1 GGAATCAGCACTTAGCAACCACC-TTATAATCAAGGATACGG
* *
53056700 GGAATCTGCACTTAGTAACC-CCTTA
1 GGAATCAGCACTTAGCAACCACCTTA
53056725 CATTCAAAGA
Statistics
Matches: 255, Mismatches: 48, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.01
40 39 0.15
41 71 0.28
42 80 0.31
43 55 0.22
44 8 0.03
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.22
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACGG
Found at i:53057730 original size:13 final size:13
Alignment explanation
Indices: 53057712--53057746 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
53057702 GCCCAAACGT
53057712 CGAAATTTTTGAA
1 CGAAATTTTTGAA
*
53057725 CGAAATTTCTGAA
1 CGAAATTTTTGAA
*
53057738 CAAAATTTT
1 CGAAATTTT
53057747 CACGAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (13 bp):
CGAAATTTTTGAA
Found at i:53058422 original size:30 final size:29
Alignment explanation
Indices: 53058373--53058487 Score: 137
Period size: 30 Copynumber: 4.0 Consensus size: 29
53058363 GAGCCCTATG
53058373 CAATATCAGT-ACA-GTGTGGGCCTTAGCC
1 CAATA-CAGTAACAGGTGTGGGCCTTAGCC
*
53058401 CAGTACAGTAACAGCGTGTGGGCCTTAGCC
1 CAATACAGTAACAG-GTGTGGGCCTTAGCC
* *
53058431 CAATACGGTAACAGTGTGTGTGCCTTAGCC
1 CAATACAGTAACAG-GTGTGGGCCTTAGCC
* *
53058461 CAATACAGTAATA-ATGTGGGCCTTAGC
1 CAATACAGTAACAGGTGTGGGCCTTAGC
53058488 ATATTACAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.05
28 19 0.25
30 52 0.69
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.24
Consensus pattern (29 bp):
CAATACAGTAACAGGTGTGGGCCTTAGCC
Found at i:53061120 original size:33 final size:33
Alignment explanation
Indices: 53061070--53061164 Score: 90
Period size: 33 Copynumber: 3.0 Consensus size: 33
53061060 CACGCAGAAT
* *
53061070 CAGTCTGGGCCTGAGCCCTATATAGTATTAGTA
1 CAGTCTGGGCCTGAGCCCAATATAGTAATAGTA
* * *
53061103 CAGTGTGGGCCTTAGCCCAATATGGTAATAGT-
1 CAGTCTGGGCCTGAGCCCAATATAGTAATAGTA
* *
53061135 --GTGTGGGTCCT-AGCCCAATACAGTAATAGT
1 CAGTCTGGG-CCTGAGCCCAATATAGTAATAGT
53061165 TTGGGCCTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
30 24 0.44
31 3 0.06
33 27 0.50
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (33 bp):
CAGTCTGGGCCTGAGCCCAATATAGTAATAGTA
Found at i:53061179 original size:28 final size:30
Alignment explanation
Indices: 53061105--53061189 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
53061095 TATTAGTACA
**
53061105 GTGTGGGCCTTAGCCCAATATGGTAATAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATAGT
53061135 GTGTGGGTCC-TAGCCCAATACAGTAATAGT
1 GTGTGGG-CCTTAGCCCAATACAGTAATAGT
* *
53061165 -T-TGGGCCTTTGCCCATTACAGTAAT
1 GTGTGGGCCTTAGCCCAATACAGTAAT
53061190 CAGTACAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.04
28 19 0.39
29 1 0.02
30 25 0.51
31 2 0.04
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAATAGT
Found at i:53061371 original size:26 final size:26
Alignment explanation
Indices: 53061301--53061372 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
53061291 ACCATTATTG
* * *
53061301 CAGCAAAGCTGCCAGTAATATTAACG
1 CAGCAAAGCTGCCAGTAACAATAACA
*
53061327 CAGCAAGGCTGCCAGTAACAATAACA
1 CAGCAAAGCTGCCAGTAACAATAACA
*
53061353 CAGCAAAGCTGCCAATAACA
1 CAGCAAAGCTGCCAGTAACA
53061373 TATATGCGGC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATAACA
Found at i:53061615 original size:54 final size:53
Alignment explanation
Indices: 53061542--53061683 Score: 155
Period size: 54 Copynumber: 2.6 Consensus size: 53
53061532 TGGTATAACA
* * *
53061542 ATCATTTTACCTTATGGGGGTATTTCGA-TCATTTTACTCTTCGGGGGTATTTC
1 ATCATTTTACCTTATGGGGGTATTT-GAGTCATTTCACCCTTCGAGGGTATTTC
* *
53061595 GATCATTTTAGCTT-TCGGGGGTATTTTAGTCATTTCACCCTTCGAGGGTATTTC
1 -ATCATTTTACCTTAT-GGGGGTATTTGAGTCATTTCACCCTTCGAGGGTATTTC
* *
53061649 AGTCATTTTACCCTT-TGAGGGTATTTTAGTCATTT
1 A-TCATTTTA-CCTTATGGGGGTATTTGAGTCATTT
53061684 GCCCACGAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
53 3 0.04
54 70 0.91
55 4 0.05
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (53 bp):
ATCATTTTACCTTATGGGGGTATTTGAGTCATTTCACCCTTCGAGGGTATTTC
Found at i:53061679 original size:27 final size:27
Alignment explanation
Indices: 53061543--53061683 Score: 128
Period size: 27 Copynumber: 5.2 Consensus size: 27
53061533 GGTATAACAA
*
53061543 TCATTTTA-CCTTATGGGGGTA-TTTCG
1 TCATTTTACCCTT-TGGGGGTATTTTAG
* * *
53061569 ATCATTTTACTCTTCGGGGGTA-TTTCG
1 -TCATTTTACCCTTTGGGGGTATTTTAG
*
53061596 ATCATTTTA-GCTTTCGGGGGTATTTTAG
1 -TCATTTTACCCTTT-GGGGGTATTTTAG
* * * *
53061624 TCATTTCACCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTTGGGGGTATTTTAG
*
53061651 TCATTTTACCCTTTGAGGGTATTTTAG
1 TCATTTTACCCTTTGGGGGTATTTTAG
53061678 TCATTT
1 TCATTT
53061684 GCCCACGAAT
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.03
27 84 0.87
28 10 0.10
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTTAG
Found at i:53065018 original size:17 final size:19
Alignment explanation
Indices: 53064979--53065019 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
53064969 TTTCACCTAA
*
53064979 ATTTTAATTTTATTTAACT
1 ATTTTAATTTTATTGAACT
53064998 -TTTTAA-TTTATTGAA-T
1 ATTTTAATTTTATTGAACT
53065014 ATTTTA
1 ATTTTA
53065020 TACTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.05
17 13 0.65
18 6 0.30
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTAATTTTATTGAACT
Found at i:53111039 original size:25 final size:25
Alignment explanation
Indices: 53111005--53111132 Score: 168
Period size: 25 Copynumber: 5.1 Consensus size: 25
53110995 CGTATAAGCT
* *
53111005 TACCGGTTTACAGCTTGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
* * *
53111030 TACTGATTTACAACTTGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
*
53111055 TACCGAATTACAGCTCGTGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
*
53111080 TACCGATTTACAGCTCGAGAGAGCA
1 TACCGATTTACAGCTCGTGAGAGCA
*
53111105 TACCGATTCACAGCTCGT-ATGAGCA
1 TACCGATTTACAGCTCGTGA-GAGCA
53111130 TAC
1 TAC
53111133 ATGTACAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
24 1 0.01
25 90 0.99
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (25 bp):
TACCGATTTACAGCTCGTGAGAGCA
Found at i:53124711 original size:24 final size:24
Alignment explanation
Indices: 53124684--53124732 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
53124674 AAATCATCAC
* *
53124684 ATTATAAAGTTGTTAATCCAGTAA
1 ATTATAAAATTGATAATCCAGTAA
*
53124708 ATTATAAAATTGATAATCTAGTAA
1 ATTATAAAATTGATAATCCAGTAA
53124732 A
1 A
53124733 ATAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (24 bp):
ATTATAAAATTGATAATCCAGTAA
Found at i:53125812 original size:28 final size:28
Alignment explanation
Indices: 53125765--53125831 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
53125755 TAAACAATAC
*
53125765 TTTTTTTTT-TCAAAATTGATACCTAAT
1 TTTTTTTTTGTCAAAAGTGATACCTAAT
* *
53125792 TTTTTTTTTGTCATAAGTGATACTTAAT
1 TTTTTTTTTGTCAAAAGTGATACCTAAT
*
53125820 TTATTCTTTTGT
1 TT-TTTTTTTGT
53125832 AACTAATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 9 0.26
28 17 0.50
29 8 0.24
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (28 bp):
TTTTTTTTTGTCAAAAGTGATACCTAAT
Found at i:53129761 original size:4 final size:4
Alignment explanation
Indices: 53129752--53129778 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53129742 AACTAAGTAA
53129752 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
53129779 AATAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:53132978 original size:22 final size:22
Alignment explanation
Indices: 53132921--53133009 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
53132911 TTTACCATGC
**
53132921 GAACCCTACATGTTCTAATATAC
1 GAACCCTACATGTT-TAATATGT
* * *
53132944 GAAGCCTATATG-TTATTTATGT
1 GAACCCTACATGTTTA-ATATGT
53132966 GAACCCTACATGTGTTAATATGT
1 GAACCCTACATGT-TTAATATGT
*
53132989 GAACCCTA-ATTGTTTATTATG
1 GAACCCTACA-TGTTTAATATG
53133010 AGAATTCTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
21 2 0.04
22 22 0.42
23 26 0.49
24 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
GAACCCTACATGTTTAATATGT
Found at i:53141181 original size:25 final size:25
Alignment explanation
Indices: 53141144--53141198 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
53141134 ATACTCCACC
* *
53141144 GCTCATGAAAGCATACTGATTTATA
1 GCTCATGAAAGCATACCGATCTATA
* *
53141169 GCTCGTGAGAGCATACCGATCTATA
1 GCTCATGAAAGCATACCGATCTATA
53141194 GCTCA
1 GCTCA
53141199 AATGAGCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GCTCATGAAAGCATACCGATCTATA
Found at i:53141205 original size:25 final size:25
Alignment explanation
Indices: 53141177--53141234 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
53141167 TAGCTCGTGA
*
53141177 GAGCATACCGA-TCTATAGCTCAAAT
1 GAGCATACCGATTC-ACAGCTCAAAT
* *
53141202 GAGCATATCGATTCACAGCTCATAT
1 GAGCATACCGATTCACAGCTCAAAT
53141227 GAGCATAC
1 GAGCATAC
53141235 ATGTACATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 26 0.93
26 2 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCAAAT
Found at i:53145266 original size:31 final size:31
Alignment explanation
Indices: 53145228--53145289 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
53145218 TGCCTAAGGT
53145228 TTTTTTATCCTCTTTTGAAAAGTTTTTCCAC
1 TTTTTTATCCTCTTTTGAAAAGTTTTTCCAC
53145259 TTTTTTATCCTCTTTTGAAAAGTTTTTCCAC
1 TTTTTTATCCTCTTTTGAAAAGTTTTTCCAC
53145290 GTAAAATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (31 bp):
TTTTTTATCCTCTTTTGAAAAGTTTTTCCAC
Found at i:53147246 original size:8 final size:8
Alignment explanation
Indices: 53147218--53147263 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
53147208 ATCATGATCT
53147218 TTACTTTC
1 TTACTTTC
53147226 TT-CTTTGC
1 TTACTTT-C
53147234 TTACTTTC
1 TTACTTTC
53147242 TTACTTGT-
1 TTACTT-TC
*
53147250 TTACTTAC
1 TTACTTTC
53147258 TTACTT
1 TTACTT
53147264 ACTCAAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 4 0.12
8 24 0.73
9 5 0.15
ACGTcount: A:0.13, C:0.22, G:0.04, T:0.61
Consensus pattern (8 bp):
TTACTTTC
Found at i:53147253 original size:16 final size:16
Alignment explanation
Indices: 53147217--53147263 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
53147207 TATCATGATC
53147217 TTTACTTTCTT-CTTTG
1 TTTACTTTCTTAC-TTG
*
53147233 CTTACTTTCTTACTTG
1 TTTACTTTCTTACTTG
*
53147249 TTTACTTACTTACTT
1 TTTACTTTCTTACTT
53147264 ACTCAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.13, C:0.21, G:0.04, T:0.62
Consensus pattern (16 bp):
TTTACTTTCTTACTTG
Found at i:53147621 original size:50 final size:50
Alignment explanation
Indices: 53147472--53147706 Score: 168
Period size: 50 Copynumber: 4.6 Consensus size: 50
53147462 TAATAACATA
* ** * * * *
53147472 CCAAAGCCATGTCCCAGACATGGTCTTACATGG-GATGTTTCCTGT-ACTG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-GGAGACCTCTCATCTCAGTG
* * ** * * ** * *
53147521 CCAATTCCATATTTCAGATATGGTCTTACATGAGAGTTCTCATATTAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCAGTG
* * * *
53147571 CCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCAGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCAGTG
* * * *
53147621 CCAACGCCATGTCCCAGGCATGGTCTTACATGAGACCTCTCATAACCTCAAAAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCAT---CTC---AGTG
53147677 CCAATGCCATGTCCCAGACATGGTCTTACA
1 CCAATGCCATGTCCCAGACATGGTCTTACA
53147707 TGGGATCTCA
Statistics
Matches: 141, Mismatches: 37, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
48 1 0.01
49 31 0.22
50 75 0.53
53 3 0.02
56 31 0.22
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACAGGAGACCTCTCATCTCAGTG
Found at i:53151081 original size:13 final size:13
Alignment explanation
Indices: 53151063--53151096 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
53151053 ATTCATTTAA
53151063 CATTTCACA-TATT
1 CATTTCA-AGTATT
53151076 CATTTCAAGTATT
1 CATTTCAAGTATT
53151089 CATTTCAA
1 CATTTCAA
53151097 ATGTCCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 19 0.95
ACGTcount: A:0.32, C:0.21, G:0.03, T:0.44
Consensus pattern (13 bp):
CATTTCAAGTATT
Found at i:53151140 original size:13 final size:13
Alignment explanation
Indices: 53151122--53151161 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
53151112 TATCTATATC
53151122 CATATAAACATTT
1 CATATAAACATTT
*
53151135 CATATAAACACTT
1 CATATAAACATTT
*
53151148 CATATAACCATTT
1 CATATAAACATTT
53151161 C
1 C
53151162 CATTTACTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:53152397 original size:20 final size:20
Alignment explanation
Indices: 53152360--53152397 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
53152350 TTGTTTTGGT
*
53152360 TTTAATTATAATTAACATTA
1 TTTAATTATAAATAACATTA
53152380 TTTAA-TATAAATATACAT
1 TTTAATTATAAATA-ACAT
53152398 ATAATCTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAATTATAAATAACATTA
Found at i:53163262 original size:32 final size:32
Alignment explanation
Indices: 53163225--53163286 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
53163215 CCTATTTAGA
53163225 CAATACTTCATACATATCATTATTGCATATGC
1 CAATACTTCATACATATCATTATTGCATATGC
53163257 CAATACTTCATACATATCATTATTGCATAT
1 CAATACTTCATACATATCATTATTGCATAT
53163287 AAAAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (32 bp):
CAATACTTCATACATATCATTATTGCATATGC
Found at i:53173619 original size:47 final size:47
Alignment explanation
Indices: 53173536--53173737 Score: 260
Period size: 47 Copynumber: 4.3 Consensus size: 47
53173526 AAGGAGGAAG
* * *
53173536 AAGTAGCAATTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATA
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* *
53173583 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTAGTCCACAATTTTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* * * *
53173630 AAGTGGCATTTTATTTGCAAAAGTGGTGGCTTGTCCACAATTTTATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
* * * * *
53173677 AAGTGGTAGTTTATCTGCAACAGTGGTGACTTGTCCACAATATCATT
1 AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
**
53173724 AAGTGATAGTTTAT
1 AAGTGGCAGTTTAT
53173738 ATGCATTACA
Statistics
Matches: 138, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 138 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (47 bp):
AAGTGGCAGTTTATCTACAAAAGTGGTGGCTTGTCCACAATATTATT
Found at i:53178482 original size:26 final size:27
Alignment explanation
Indices: 53178453--53178514 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
53178443 AGGGTTAAAA
53178453 TGGTCATTTTACCCGT-AG-GGGTATTT
1 TGGTCATTTTACCC-TAAGAGGGTATTT
53178479 TGGTCATTTTACCCTAAGAGGGTATTT
1 TGGTCATTTTACCCTAAGAGGGTATTT
* *
53178506 CGATCATTT
1 TGGTCATTT
53178515 AATAATCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 16 0.50
27 15 0.47
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (27 bp):
TGGTCATTTTACCCTAAGAGGGTATTT
Found at i:53178512 original size:27 final size:26
Alignment explanation
Indices: 53178456--53178514 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
53178446 GTTAAAATGG
* *
53178456 TCATTTTACCCGTAGGGGTATTTTGG
1 TCATTTTACCCGTAGGGGTATTTCGA
53178482 TCATTTTACCC-TAAGAGGGTATTTCGA
1 TCATTTTACCCGT-AG-GGGTATTTCGA
53178509 TCATTT
1 TCATTT
53178515 AATAATCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 13 0.45
27 15 0.52
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCGTAGGGGTATTTCGA
Found at i:53188351 original size:100 final size:101
Alignment explanation
Indices: 53188263--53189290 Score: 1268
Period size: 100 Copynumber: 10.3 Consensus size: 101
53188253 CGTTGCTGTA
* * * * *
53188263 GCTTCAATCGGTTCCACTACACT-GCTTGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* * *
53188327 AACTGCAACT-TTGGGGAAGCAAGATTCACCGTTTTG
66 AACTGCAA-TGTCGGGGAAGCAAGATTCACCGATGTG
* * *
53188363 GCATTAATCTGTTCCACTGCAC-CGCTTGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* **
53188427 AACTGCAATGTCGGGGAAGCAAGGTTTGCC-ATTGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTG
* * * * * * * * *
53188463 GCTTTAATCTGTTCCATTGCA-TTGCCAGGGAAATAAGATTTGCTATTTTAGGTTTAAT-GTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* * * *
53188526 AACTACAAAGTTGGGGAAGCAAGATTCACCGATATG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* ** *
53188562 GCTTTAATCTGTTCCACTGC-GTCGCCTGGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
*
53188626 AACTGCAATGTCGGGGAAGAAAGATTCACCGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
53188662 GCTTTAATCTATTCCACTGCA-TCGCCTGGGGAGT---ATTTGCTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* *
53188723 AACTGTAATGTCGGGGAAGCCAGATTCACCGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * * * * *
53188759 ACTTTAATCTGTTCCACTACAC-CGCCAGGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* * *
53188823 AATTGCAAAGTCAGGGAAGCAAGATTCACCGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
53188859 GCTTTAATCT-CTCCACTGCA-TCGCCTGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* *
53188922 AACTGCAATGTCGGGGAAGAAAGATTCACTGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * * *
53188958 GCTTTAATCTATTCCACTGCA-TCGCCTGGGGAGTAGGATTTGCTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
* *
53189022 AACTGTAATGTCGGGGAAGCCAGATTCACCGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * * * * *
53189058 ACTGTAATCTGTTCCACTGCAC-CGCCAGGGAAATAAGATTTC-CTGTTGTTGCTATAATCTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGA-TTCGCTGTTGTAGCTTTAATCTTTT
* *
53189121 TAACTGCAAAGTCGGGGAAGCAAGATTCACTGATGTG
65 TAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
* * *
53189158 GCTTTAATCT-CTCCACTGC-GTCGCCTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
*
53189221 AACTGCAATGTCGGGGAAGCAAGATTCACTGATGTG
66 AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
53189257 GCTTTAATCTGTTCCACTGCA-TCGCCTGGGAAGT
1 GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGT
53189291 TAAATTGGTA
Statistics
Matches: 792, Mismatches: 116, Indels: 40
0.84 0.12 0.04
Matches are distributed among these distances:
97 85 0.11
98 3 0.00
99 249 0.31
100 453 0.57
101 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (101 bp):
GCTTTAATCTGTTCCACTGCACTCGCCTGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTT
AACTGCAATGTCGGGGAAGCAAGATTCACCGATGTG
Found at i:53188664 original size:199 final size:200
Alignment explanation
Indices: 53188263--53189290 Score: 1307
Period size: 199 Copynumber: 5.2 Consensus size: 200
53188253 CGTTGCTGTA
* * * * * *
53188263 GCTTCAATCGGTTCCACTACA-CTGCTTGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTTTT
1 GCTTTAATCTGTTCCACTGCATC-GCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTT
** * * * * * * *
53188327 AACTGCAACTTTGGGGAAGCAAGATTCACCGTTTTGGCATTAATCTGTTCCACTGCACCGCTTGA
65 AACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGG
* **
53188392 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTTGCC
130 GAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
53188457 -ATTGTG
195 GA-TGTG
* * * * * * * *
53188463 GCTTTAATCTGTTCCATTGCATTGCCAGGGAAATAAGATTTGCTATTTTAGGTTTAAT-GTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
* * * * *
53188527 ACTACAAAGTTGGGGAAGCAAGATTCACCGATATGGCTTTAATCTGTTCCACTGCGTCGCCTGGT
66 ACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
53188592 TAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTCACCG
131 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
53188657 ATGTG
196 ATGTG
* *
53188662 GCTTTAATCTATTCCACTGCATCGCCTGGGGAGT---ATTTGCTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
* * * * * * *
53188724 ACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTACACCGCCAGGG
66 ACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * * *
53188789 AAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAATTGCAAAGTCAGGGAAGCAAGATTCACCG
131 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
53188854 ATGTG
196 ATGTG
* * **
53188859 GCTTTAATCT-CTCCACTGCATCGCCTGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
* * * *
53188923 ACTGCAATGTCGGGGAAGAAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGG
66 ACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * *
53188988 GAGTAGGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCG
131 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
53189053 ATGTG
196 ATGTG
* * * * * * * *
53189058 ACTGTAATCTGTTCCACTGCACCGCCAGGGAAATAAGATTTCCTGTTGTTGCTATAATCTTTTTA
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
* * *
53189123 ACTGCAAAGTCGGGGAAGCAAGATTCACTGATGTGGCTTTAATCT-CTCCACTGCGTCGCCTGGG
66 ACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* *
53189187 GAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTG
131 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
53189252 ATGTG
196 ATGTG
53189257 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGT
1 GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGT
53189291 TAAATTGGTA
Statistics
Matches: 715, Mismatches: 106, Indels: 15
0.86 0.13 0.02
Matches are distributed among these distances:
196 40 0.06
197 129 0.18
199 411 0.57
200 135 0.19
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (200 bp):
GCTTTAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTA
ACTGCAAAGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTG
Found at i:53189118 original size:299 final size:298
Alignment explanation
Indices: 53188289--53189286 Score: 1495
Period size: 299 Copynumber: 3.3 Consensus size: 298
53188279 CTACACTGCT
* * * * *
53188289 TGGGAAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAACT-TTGGGGAAGCAAGATT
1 TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAA-TGTCGGGGAAGAAAGATT
* * * * * * * * *
53188353 CACCGTTTTGGCATTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTCGCTGTTGTAGCTTT
65 CACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGT-AGATTTGCTGTTGTAGCTTT
* * * ** * *
53188418 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGGTTTGCC-ATTGTGGCTTTAATCTGTTCCATTG
129 AATCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGA-TGTGACTTTAATCTGTTCCACTG
** * * * * *
53188482 CATTGCCAGGGAAATAAGATTTGCTATT-TTAGGTTTAAT-GTTTTAACTACAAAGTTGGGGAAG
193 CACCGCCAGGGAAATAAGATTTGCTGTTGTT-GCTTTAATCTTTTTAACTGCAAAGTCGGGGAAG
* *
53188545 CAAGATTCACCGATATGGCTTTAATCTGTTCCACTGCGTCGCC
257 CAAGATTCACCGATGTGGCTTTAATCT-CTCCACTGCGTCGCC
**
53188588 TGGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
1 TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
53188653 ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGT--ATTTGCTGTTGTAGCTTTAA
66 ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGTAGATTTGCTGTTGTAGCTTTAA
*
53188716 TCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTACAC
131 TCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTGCAC
* *
53188781 CGCCAGGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAATTGCAAAGTCAGGGAAGCAAG
196 CGCCAGGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAACTGCAAAGTCGGGGAAGCAAG
*
53188846 ATTCACCGATGTGGCTTTAATCTCTCCACTGCATCGCC
261 ATTCACCGATGTGGCTTTAATCTCTCCACTGCGTCGCC
53188884 TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
1 TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
*
53188949 ACTGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGTAGGATTTGCTGTTGTAGCTTTA
66 ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGTA-GATTTGCTGTTGTAGCTTTA
*
53189014 ATCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTGTAATCTGTTCCACTGCA
130 ATCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTGCA
* *
53189079 CCGCCAGGGAAATAAGATTTCCTGTTGTTGCTATAATCTTTTTAACTGCAAAGTCGGGGAAGCAA
195 CCGCCAGGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAACTGCAAAGTCGGGGAAGCAA
*
53189144 GATTCACTGATGTGGCTTTAATCTCTCCACTGCGTCGCC
260 GATTCACCGATGTGGCTTTAATCTCTCCACTGCGTCGCC
* *
53189183 TGGGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTC
1 TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
* *
53189248 ACTGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
66 ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGG
53189287 AAGTTAAATT
Statistics
Matches: 643, Mismatches: 49, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
296 221 0.34
297 48 0.07
298 1 0.00
299 373 0.58
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (298 bp):
TGGGGAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGAAAGATTC
ACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTGGGGAGTAGATTTGCTGTTGTAGCTTTAA
TCTTTTTAACTGTAATGTCGGGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTGCAC
CGCCAGGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAACTGCAAAGTCGGGGAAGCAAG
ATTCACCGATGTGGCTTTAATCTCTCCACTGCGTCGCC
Found at i:53189288 original size:50 final size:50
Alignment explanation
Indices: 53188290--53189289 Score: 476
Period size: 50 Copynumber: 20.1 Consensus size: 50
53188280 TACACTGCTT
* * * ** * ***
53188290 GGGAAGTAAGATTCGCT-ATTGTAGCTTTAATCTTTTTAACTGCAACTTTG
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTTTTCCACTGCATCGCCG
* * * * * * **
53188340 GGGAAGCAAGATTCACCGTTTTGGCATTAATCTGTTCCACTGCACCGCTT
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
* * * * * ** *
53188390 GAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGC-ATCGCCG
* ** * * * * *
53188440 GGGAAGCAAGGTTTGC-CATTGTGGCTTTAATCTGTTCCATTGCATTGCCA
1 GGGAAGCAAGATTCACTGA-TGTGGCTTTAATCTTTTCCACTGCATCGCCG
** ** * * * * ** **
53188490 GGGAAATAAGATTTGCT-ATTTTAGG-TTTAATGTTTT-AACTACAAAGTTG
1 GGGAAGCAAGATTCACTGA-TGT-GGCTTTAATCTTTTCCACTGCATCGCCG
* * * * *
53188539 GGGAAGCAAGATTCACCGATATGGCTTTAATCTGTTCCACTGCGTCGCCT
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
** * * * ** *
53188589 GGTTAGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGC-ATCGCCG
* * *
53188639 GGGAAGAAAGATTCACCGATGTGGCTTTAATCTATTCCACTGCATCGCCTG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCC-G
* ** * * ** * *
53188690 GGG-AG---TATTTGCTGTTGTAGCTTTAATCTTTTTAACTGTAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTG-CATCGCCG
* * * * * * *
53188736 GGGAAGCCAGATTCACCGATGTGACTTTAATCTGTTCCACTACACCGCCA
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
** ** * * ** * ** * *
53188786 GGGAAATAAGATTTGCTGTTGTTGCTTTAATCTTTTTAATTGCAAAGTCA
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
* *
53188836 GGGAAGCAAGATTCACCGATGTGGCTTTAATC-TCTCCACTGCATCGCCTG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCC-G
* * * ** *
53188886 GGG-AGTAAGATTCACTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGC-ATCGCCG
* *
53188935 GGGAAGAAAGATTCACTGATGTGGCTTTAATCTATTCCACTGCATCGCCTG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCC-G
* * ** * * ** * *
53188986 GGG-AGTAGGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGTAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTG-CATCGCCG
* * * * * * *
53189035 GGGAAGCCAGATTCACCGATGTGACTGTAATCTGTTCCACTGCACCGCCA
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
** * * * ** ** *
53189085 GGGAAATAAGATTTC-CTGTTGTTGCTATAATCTTTTTAACTGCAAAGTCG
1 GGGAAGCAAGA-TTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
* *
53189135 GGGAAGCAAGATTCACTGATGTGGCTTTAATC-TCTCCACTGCGTCGCCTG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCC-G
* * * * ** *
53189185 GGG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAAT-GTCG
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGC-ATCGCCG
* *
53189234 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTGTTCCACTGCATCGCCT
1 GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
53189284 GGGAAG
1 GGGAAG
53189290 TTAAATTGGT
Statistics
Matches: 676, Mismatches: 240, Indels: 68
0.69 0.24 0.07
Matches are distributed among these distances:
46 4 0.01
47 28 0.04
48 4 0.01
49 119 0.18
50 501 0.74
51 20 0.03
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (50 bp):
GGGAAGCAAGATTCACTGATGTGGCTTTAATCTTTTCCACTGCATCGCCG
Found at i:53196113 original size:14 final size:15
Alignment explanation
Indices: 53196081--53196114 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
53196071 TTGTATGTTT
53196081 GATTAACATGGATTTA
1 GATTAACATGGA-TTA
53196097 GATTAACATGG-TTA
1 GATTAACATGGATTA
53196111 GATT
1 GATT
53196115 TTAAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (15 bp):
GATTAACATGGATTA
Found at i:53202025 original size:25 final size:26
Alignment explanation
Indices: 53201978--53202073 Score: 85
Period size: 25 Copynumber: 3.8 Consensus size: 26
53201968 ACTGTCTTTG
* *
53201978 ATAGTATATCCTGAA-ACTGCTATAA
1 ATAGTATATACTGAAGACTACTATAA
*
53202003 ATAGTATATACT-AAGACTACTATAG
1 ATAGTATATACTGAAGACTACTATAA
*
53202028 ATAGACTATATACTGAAAAC-ACT-TAAA
1 ATAG--TATATACTGAAGACTACTAT-AA
*
53202055 ATAGTGTATACTG-AGACTA
1 ATAGTATATACTGAAGACTA
53202074 TAGTAAAACT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
24 5 0.09
25 32 0.55
26 1 0.02
27 16 0.28
28 4 0.07
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (26 bp):
ATAGTATATACTGAAGACTACTATAA
Found at i:53205257 original size:50 final size:50
Alignment explanation
Indices: 53205143--53205375 Score: 217
Period size: 50 Copynumber: 4.7 Consensus size: 50
53205133 TGCCAAAGAG
* * * * *
53205143 ATATCCCAGACATGGTCTTACATGGGA-TGTTTCTTGTAC--TGCCAATGCC
1 ATATCCCAGACATGATCTTACATGGGACT-TCTCATCT-CGGTGCCAACGCC
* * * * *
53205192 ATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGGTGCCCATGCC
1 ATATCCCAGACATGATCTTACATGGGACTTCTCATCTCGGTGCCAACGCC
* * * *
53205242 ATGTCCTAGACATGATCTTAC-GGGGAACCTCTCATCTCGGTGCCAACGCC
1 ATATCCCAGACATGATCTTACATGGG-ACTTCTCATCTCGGTGCCAACGCC
* *
53205292 ATGTCCCAGACAT-AGTCTTACATGGGATCTT-TCACCTCGGTGCCAACGCC
1 ATATCCCAGACATGA-TCTTACATGGGA-CTTCTCATCTCGGTGCCAACGCC
* *
53205342 CTATCCCAGACATGGTCTTACATGGGACTTCTCA
1 ATATCCCAGACATGATCTTACATGGGACTTCTCA
53205376 AAATCTCCAT
Statistics
Matches: 153, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
48 1 0.01
49 37 0.24
50 110 0.72
51 5 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
ATATCCCAGACATGATCTTACATGGGACTTCTCATCTCGGTGCCAACGCC
Found at i:53206169 original size:50 final size:50
Alignment explanation
Indices: 53206084--53206271 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 50
53206074 ACTGCCAATT
* * ** * * **
53206084 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
* * * * *
53206134 CCATGTCCCACAAATAGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATCGGTGCCAACG
*
53206184 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
53206234 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
53206272 ATCTTAATGA
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 2 0.02
50 115 0.97
51 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACG
Found at i:53206317 original size:56 final size:50
Alignment explanation
Indices: 53206037--53206270 Score: 215
Period size: 50 Copynumber: 4.7 Consensus size: 50
53206027 TGCCAAATCT
* * * * **
53206037 ATGTCCCAGACATAGTCTTACATGGGA--TGT-TTCTTGTACTGCCAATTCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG-A-TGCCAACGCC
* * ** * * * * **
53206086 ATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATACC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCC
* * * * *
53206136 ATGTCCCACAAATAGTCTTAC-GGGAGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGATGCCAACGCC
*
53206186 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCC
53206236 ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
53206271 AATCTTAATG
Statistics
Matches: 154, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 26 0.17
50 121 0.79
51 4 0.03
52 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCC
Found at i:53208448 original size:50 final size:50
Alignment explanation
Indices: 53208333--53208616 Score: 266
Period size: 50 Copynumber: 5.6 Consensus size: 50
53208323 AAGCCATATA
** * * * * *
53208333 TCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--TGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAACGCCATG
* ** * * *
53208382 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* **
53208432 TCGCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * *
53208482 TCCCAGACATAGTCTTACGTGGGACCTCTCACCTCGGTGCCAACGCCCTG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
* * *
53208532 TCCCAGACATGGTCTTACATGGGACCTCTCAAAAGCTCAATGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGTGCCAACGCCATG
* *
53208588 TCCCAGACATGGTCTTACATAGGATCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
53208617 TTACCCAAAT
Statistics
Matches: 197, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 28 0.14
50 125 0.63
53 4 0.02
56 39 0.20
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:53209337 original size:50 final size:50
Alignment explanation
Indices: 53209270--53209457 Score: 243
Period size: 50 Copynumber: 3.8 Consensus size: 50
53209260 ACTGCCAATT
* * ** * *
53209270 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACG
* * *
53209320 CCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATATAGGTGCCAACG
* * *
53209370 CCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACG
*
53209420 CCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATA
53209458 ATCTTAATGA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 2 0.02
50 117 0.97
51 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTGCCAACG
Found at i:53215858 original size:56 final size:50
Alignment explanation
Indices: 53215574--53215871 Score: 269
Period size: 50 Copynumber: 5.9 Consensus size: 50
53215564 TTATAATAAC
* * * * *
53215574 ATGCCAAAGCCATATCCCAGACATGGTCTTACATGGGA--TGT-TTCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
** * * * ** * *
53215621 TACTGCCAATTCCATATCCCAGATATAGTCTTACATGGGAGTTCTCATATAG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * **
53215673 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
53215723 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
* * * *
53215773 ATGCCAACACCATGTCCCAGACATGGTCTTACGTGGGACCTTTCATAATGTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---G
* *
53215829 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
53215872 TTACCCAAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 33 0.16
50 121 0.58
51 2 0.01
52 5 0.02
53 6 0.03
54 2 0.01
56 37 0.18
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:53227607 original size:57 final size:57
Alignment explanation
Indices: 53227516--53227713 Score: 188
Period size: 57 Copynumber: 3.5 Consensus size: 57
53227506 TCGCCAGAAA
* * * * * *
53227516 GCTTTCCTTT-TAGAGTCTCACCATAAAGGC-GTCCTTTAAATGGTTCGCCACAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAATGGTTCACCACAAAG
* *
53227571 GGTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTT-AATAGGTTCACCATAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAAT-GGTTCACCACAAAG
* * * * * * * *
53227628 GCTTATCATTCCAGACTTTTTCCACAAAGACTATCCTTTTACA-GGTTCACCACAAAA
1 GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCC-TTTAAATGGTTCACCACAAAG
* *
53227685 GCTTACCTTCCTAGAGTTTTGCCACAAAG
1 GCTTACCTTTCTAGAGTTTTACCACAAAG
53227714 GTTGTTATTT
Statistics
Matches: 114, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
55 8 0.07
56 19 0.17
57 83 0.73
58 3 0.03
59 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (57 bp):
GCTTACCTTTCTAGAGTTTTACCACAAAGACTGTCCTTTAAATGGTTCACCACAAAG
Found at i:53227918 original size:52 final size:53
Alignment explanation
Indices: 53227838--53227945 Score: 155
Period size: 52 Copynumber: 2.1 Consensus size: 53
53227828 TTAGTCCTTC
* * * * *
53227838 CCATATGATGTCATAACCCACCAGTTATGGTCTTATACGATATGGT-TTTTTT
1 CCATATGATGCCACAACCCACCAATTATGGTCTTACACGATATGGTCTTCTTT
*
53227890 CCATATGATGCCACAACCCCCCAATTATGGTCTTACACGATATGGTCTTCTTT
1 CCATATGATGCCACAACCCACCAATTATGGTCTTACACGATATGGTCTTCTTT
53227943 CCA
1 CCA
53227946 AAAGATGCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
52 41 0.84
53 8 0.16
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (53 bp):
CCATATGATGCCACAACCCACCAATTATGGTCTTACACGATATGGTCTTCTTT
Found at i:53234596 original size:50 final size:50
Alignment explanation
Indices: 53234541--53234733 Score: 206
Period size: 50 Copynumber: 3.9 Consensus size: 50
53234531 CATTGAGATT
* * * *
53234541 ATGAGAGGTCTCATGTAAAACTATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* *
53234591 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGAGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
** * * * *
53234641 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
* ** * * * * *
53234691 ATAAGAACTTCCATGTAAGACCATATTTGGGATATGGCATTGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG
53234734 TAGTACAAGA
Statistics
Matches: 119, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 119 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
Found at i:53241728 original size:30 final size:29
Alignment explanation
Indices: 53241684--53241749 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
53241674 GTTTAATTTC
53241684 AAAGCTTTGGGGCAAAAGT-ATAATTATGTA
1 AAAG-TTTGGGGCAAAA-TCATAATTATGTA
* *
53241714 AAAGTTTAGGGGCAAAATCATAATTTTGTC
1 AAAGTTT-GGGGCAAAATCATAATTATGTA
53241744 AAAGTT
1 AAAGTT
53241750 AGAGTCGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (29 bp):
AAAGTTTGGGGCAAAATCATAATTATGTA
Found at i:53247360 original size:21 final size:20
Alignment explanation
Indices: 53247336--53247377 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
53247326 TACAACATTT
*
53247336 TGATGCAAAACTTAATTTTAA
1 TGATGCAAAA-TAAATTTTAA
*
53247357 TGATGCCAAATAAATTTTAA
1 TGATGCAAAATAAATTTTAA
53247377 T
1 T
53247378 ACTAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
TGATGCAAAATAAATTTTAA
Found at i:53254158 original size:24 final size:24
Alignment explanation
Indices: 53254101--53254158 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
53254091 ATAGTTACAG
* *
53254101 TTCAAATACAGAATCAAAAGCAAT
1 TTCAGATACAGAAGCAAAAGCAAT
*
53254125 TTC-GAGTACAGAAGCAAACGCAAT
1 TTCAGA-TACAGAAGCAAAAGCAAT
53254149 TTCAGATACA
1 TTCAGATACA
53254159 TATTCAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (24 bp):
TTCAGATACAGAAGCAAAAGCAAT
Found at i:53254166 original size:18 final size:18
Alignment explanation
Indices: 53254145--53254179 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
53254135 GAAGCAAACG
*
53254145 CAATTTCAGATACATATT
1 CAATTTCAGAAACATATT
53254163 CAATTTCAGAAACATAT
1 CAATTTCAGAAACATAT
53254180 ATAGATCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
CAATTTCAGAAACATATT
Found at i:53255315 original size:22 final size:21
Alignment explanation
Indices: 53255290--53255333 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
53255280 AAATGAAATC
53255290 CAAAGCACGGGAAATTGGCTTA
1 CAAAGCA-GGGAAATTGGCTTA
** *
53255312 CAAATTAGGGAAATTGTCTTA
1 CAAAGCAGGGAAATTGGCTTA
53255333 C
1 C
53255334 GCTTCTAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (21 bp):
CAAAGCAGGGAAATTGGCTTA
Found at i:53257664 original size:29 final size:29
Alignment explanation
Indices: 53257631--53257693 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
53257621 AACTGTATAG
*
53257631 TTCTTGTTGTCCTAGCCTCTACCTCAGCA
1 TTCTTGCTGTCCTAGCCTCTACCTCAGCA
53257660 TTCTTGCTGTCCTAGCCTCTACCTCAGCA
1 TTCTTGCTGTCCTAGCCTCTACCTCAGCA
53257689 TTCTT
1 TTCTT
53257694 ACTCCTGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.40
Consensus pattern (29 bp):
TTCTTGCTGTCCTAGCCTCTACCTCAGCA
Found at i:53257857 original size:16 final size:15
Alignment explanation
Indices: 53257832--53257863 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
53257822 GTGCTTGATT
53257832 TATGATTTGGTATAA
1 TATGATTTGGTATAA
53257847 TATGCATTTGGTATAA
1 TATG-ATTTGGTATAA
53257863 T
1 T
53257864 TTGTTTACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (15 bp):
TATGATTTGGTATAA
Found at i:53258299 original size:47 final size:46
Alignment explanation
Indices: 53258247--53258442 Score: 260
Period size: 47 Copynumber: 4.3 Consensus size: 46
53258237 CTTGAATCAA
**
53258247 GTTTTTGCAATAAACAACAATACTTAAATAATCAAATTTATAATAAT
1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACATA-AATAAT
** **
53258294 GTTTTTGCAATACTCAACAATACTTAAATAATCAAATTTATAATAAT
1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACATA-AATAAT
*
53258341 GTTTTTGCAATAAACAAC-A-A--T--ATAATCAAACACAAATAAT
1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACATAAATAAT
*
53258381 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACAGAAATAAT
1 GTTTTTGCAATAAACAACAATACTTAAATAATCAAACATAAATAAT
53258427 GTTTTTGCAATAAACA
1 GTTTTTGCAATAAACA
53258443 TTAAAGTATT
Statistics
Matches: 135, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
40 24 0.18
41 11 0.08
42 1 0.01
43 1 0.01
44 1 0.01
45 1 0.01
46 35 0.26
47 61 0.45
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (46 bp):
GTTTTTGCAATAAACAACAATACTTAAATAATCAAACATAAATAAT
Found at i:53261565 original size:14 final size:14
Alignment explanation
Indices: 53261542--53261581 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
53261532 ACAGAAAAGT
*
53261542 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
53261556 AAATCATTTTACGG
1 AAAACATTTTACAG
53261570 AAAACATTTTAC
1 AAAACATTTTAC
53261582 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:53261566 original size:34 final size:35
Alignment explanation
Indices: 53261507--53261573 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
53261497 CAAACACCAG
* * *
53261507 AAAATATTTTCCATTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCATGAAATCATTTTACAGAAAAGT
*
53261542 AAAACATTTTCCA-GAAATCATTTTACGGAAAA
1 AAAACATTTTCCATGAAATCATTTTACAGAAAA
53261574 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCATGAAATCATTTTACAGAAAAGT
Found at i:53263595 original size:17 final size:18
Alignment explanation
Indices: 53263570--53263603 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53263560 TTAACTGAGT
53263570 TCATCTTAG-TTAATAAC
1 TCATCTTAGATTAATAAC
*
53263587 TCATTTTAGATTAATAA
1 TCATCTTAGATTAATAA
53263604 ATGAGTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (18 bp):
TCATCTTAGATTAATAAC
Found at i:53264432 original size:23 final size:23
Alignment explanation
Indices: 53264402--53264449 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
53264392 GTGAGTTTAC
*
53264402 CTCCTCTCCTATTTCGTACAAGT
1 CTCCTCTCCTATTTCATACAAGT
53264425 CTCCTCTCCTATTTCATACAAGT
1 CTCCTCTCCTATTTCATACAAGT
53264448 CT
1 CT
53264450 TGTTCGACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.40
Consensus pattern (23 bp):
CTCCTCTCCTATTTCATACAAGT
Found at i:53268181 original size:33 final size:34
Alignment explanation
Indices: 53268130--53268204 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
53268120 AGATTTAAAC
53268130 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
53268164 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
53268197 AATTTAAT
1 AAATTAAT
53268205 AAACTAACTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:53269992 original size:18 final size:18
Alignment explanation
Indices: 53269910--53270007 Score: 67
Period size: 18 Copynumber: 5.3 Consensus size: 18
53269900 CTTTCTTCAA
53269910 TTTCTTTTTCAATTT-TCT
1 TTTCTTTTTCAATTTCT-T
* *
53269928 TGTCTGTTTCACATTTC-T
1 TTTCTTTTTCA-ATTTCTT
** * *
53269946 TTTCACTCTCAATCTCTTT
1 TTTCTTTTTCAATTTC-TT
53269965 TTGCTCTTTTTC-ATTCTCTT
1 TT--TCTTTTTCAATT-TCTT
53269985 TTTCTTTTTCAATTTCTT
1 TTTCTTTTTCAATTTCTT
53270003 TTTCT
1 TTTCT
53270008 GTCTTCCTTT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
17 4 0.07
18 34 0.56
19 10 0.16
20 6 0.10
21 7 0.11
ACGTcount: A:0.10, C:0.22, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTCTTTTTCAATTTCTT
Found at i:53273483 original size:19 final size:18
Alignment explanation
Indices: 53273453--53273509 Score: 73
Period size: 17 Copynumber: 3.2 Consensus size: 18
53273443 TGCTTGAATA
53273453 AATT-ACTCATCTTAGTT
1 AATTAACTCATCTTAGTT
*
53273470 AATTAAGTTCATCTTAGTT
1 AATTAA-CTCATCTTAGTT
53273489 AA-TAACTCATCTTAGATT
1 AATTAACTCATCTTAG-TT
53273507 AAT
1 AAT
53273510 AAATGAGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 13 0.38
18 8 0.24
19 13 0.38
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (18 bp):
AATTAACTCATCTTAGTT
Done.