Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007493.1 Hibiscus syriacus cultivar Beakdansim tig00020724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 94017
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:7356 original size:182 final size:183
Alignment explanation
Indices: 7032--7416 Score: 618
Period size: 182 Copynumber: 2.1 Consensus size: 183
7022 ATAAAATTTT
*
7032 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
7097 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAATACTTAAATAATTTATATAAATTTTT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAATAATTAAATAATTTATATAAAATTTT
*
7162 TATTTTATAATTATATATATTTAAATTAATTGTAAATTGTTTTTATGAATTACA
131 TATTTTATAATTATAT-TATTTAAATTAATTATAAATTGTTTTTATGAATTACA
*
7216 AAATATTAAATA-ATTATATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
7279 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAATT
66 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAA-TAATTAAATAA-TTTATATAAAATT
* *
7343 TTTA-TTTATAATTATATTATTTAAATTAATTATAAATTGTTTTTTTGAATTATA
129 TTTATTTTATAATTATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
* *
7397 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
7417 AATTAGAAAA
Statistics
Matches: 188, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
181 51 0.27
182 64 0.34
183 62 0.33
184 11 0.06
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAATAATTAAATAATTTATATAAAATTTT
TATTTTATAATTATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
Found at i:7819 original size:40 final size:41
Alignment explanation
Indices: 7775--7891 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 41
7765 TTTTTTATTT
7775 TTATATATTATATATTATTTAA-TTTTTAAAATAAAAAAT-A
1 TTATA-ATTATATATTATTTAACTTTTTAAAATAAAAAATAA
* ** *
7815 TTATAA-AATATATTATTTAACAGTTTAAATATAATAAATAA
1 TTATAATTATATATTATTTAACTTTTTAAA-ATAAAAAATAA
* *
7856 TTTTAATTATATTATTATTTTAATTATTTTAAAATA
1 TTATAATTATA-TATTA-TTTAACT-TTTTAAAATA
7892 TTATATTCAG
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
38 13 0.21
39 7 0.11
40 13 0.21
41 6 0.10
42 3 0.05
43 5 0.08
44 8 0.13
45 6 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (41 bp):
TTATAATTATATATTATTTAACTTTTTAAAATAAAAAATAA
Found at i:7883 original size:9 final size:9
Alignment explanation
Indices: 7855--7887 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7845 ATAATAAATA
7855 ATTTTAATT
1 ATTTTAATT
*
7864 ATATT-ATT
1 ATTTTAATT
7872 ATTTTAATT
1 ATTTTAATT
7881 ATTTTAA
1 ATTTTAA
7888 AATATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:10014 original size:24 final size:26
Alignment explanation
Indices: 9987--10060 Score: 88
Period size: 24 Copynumber: 3.1 Consensus size: 26
9977 CGGTAAACGG
9987 AGATATCAGAAATCA-AAC-GAATTC
1 AGATATCAGAAATCAGAACAGAATTC
* *
10011 AG--ATCAGATATCAGAACAGAATCC
1 AGATATCAGAAATCAGAACAGAATTC
10035 AGAT-T-AGAAATCAGAACAGAATTC
1 AGATATCAGAAATCAGAACAGAATTC
10059 AG
1 AG
10061 GTATTGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 10 0.24
23 3 0.07
24 28 0.67
25 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (26 bp):
AGATATCAGAAATCAGAACAGAATTC
Found at i:10060 original size:12 final size:12
Alignment explanation
Indices: 9993--10060 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
9983 ACGGAGATAT
*
9993 CAGAAATCA-AA
1 CAGAATTCAGAA
*
10004 C-GAATTCAGAT
1 CAGAATTCAGAA
10015 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
10027 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
10039 TAGAAATCAGAA
1 CAGAATTCAGAA
10051 CAGAATTCAG
1 CAGAATTCAG
10061 GTATTGTATC
Statistics
Matches: 42, Mismatches: 11, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
10 6 0.14
11 5 0.12
12 29 0.69
13 2 0.05
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:10071 original size:24 final size:24
Alignment explanation
Indices: 9998--10083 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
9988 GATATCAGAA
*
9998 ATCA-AAC-GAATTCAGATCAGAT
1 ATCAGAACAGAATTCAGATTAGAT
* *
10020 ATCAGAACAGAATCCAGATTAGAA
1 ATCAGAACAGAATTCAGATTAGAT
10044 ATCAGAACAGAATTCAGGTATT-G-T
1 ATCAGAACAGAATTCA-G-ATTAGAT
*
10068 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
10084 AGTCAAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.07
23 3 0.06
24 42 0.78
25 2 0.04
26 3 0.06
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATTAGAT
Found at i:12530 original size:10 final size:10
Alignment explanation
Indices: 12515--12544 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12505 CGGTCAAAGT
12515 TTTGGTCAAC
1 TTTGGTCAAC
12525 TTTGGTCAAC
1 TTTGGTCAAC
*
12535 ATTGGTCAAC
1 TTTGGTCAAC
12545 GGTCAACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (10 bp):
TTTGGTCAAC
Found at i:14630 original size:24 final size:24
Alignment explanation
Indices: 14603--14674 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
14593 AAATGGAGAT
* *
14603 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
14627 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
14651 ATCATAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
14675 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:14674 original size:12 final size:12
Alignment explanation
Indices: 14618--14674 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
14608 AAATCAAAAT
*
14618 AGAATTCAGATC
1 AGAATTCAGAAC
14630 AG-ATATCAGAAC
1 AGAAT-TCAGAAC
* *
14642 AGAATCCAGATC
1 AGAATTCAGAAC
* *
14654 ATAAATCAGAAC
1 AGAATTCAGAAC
14666 AGAATTCAG
1 AGAATTCAG
14675 GTAATGTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:14685 original size:24 final size:24
Alignment explanation
Indices: 14618--14697 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
14608 AAATCAAAAT
* *
14618 AGAATTCAGATCAGATATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* * *
14642 AGAATCCAGATCATAAATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* *
14666 AGAATTCAGGTAATGTATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
*
14690 ATAATTCA
1 AGAATTCA
14698 AGTCGAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
AGAATTCAGATAATATATCAGAAC
Found at i:16899 original size:22 final size:23
Alignment explanation
Indices: 16856--16899 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
16846 TCGGCTCGTC
* * *
16856 GATCGGAAGTTGGATGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
16879 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
16900 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.43, T:0.20
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:18670 original size:20 final size:20
Alignment explanation
Indices: 18633--18670 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18623 CTGGAATTAA
* *
18633 ATGTTAGAATGTTGATTTTG
1 ATGTTAGAAGGTTAATTTTG
18653 ATGTTAGAAGGTTAATTT
1 ATGTTAGAAGGTTAATTT
18671 GAATCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAGGTTAATTTTG
Found at i:25977 original size:55 final size:54
Alignment explanation
Indices: 25917--26179 Score: 194
Period size: 55 Copynumber: 4.8 Consensus size: 54
25907 GAGGTAAGTG
* * * *
25917 AGACTTGAAAAATCTTCAGAAAACATGTATGCTCCCTATTCTTTCAGAGAGTAT
1 AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
25971 AAGACTTGATCAATCTTC-GATCAGCGGGT-TCGCTCCCTATT-TTTCAGGGTGCAT
1 -AGACTTGAACAATCTTCAGA-AAACGTGTCT-GCTCCCTATTCTTTCAGGGAGTAT
* * * * * *
26025 GGAACTCGCACAATCTTCA-ACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGT
1 AG-ACTTGAACAATCTTCAGA-AAACGTGTCTGCTCCCTATTC-TTTCAGGGAGTAT
* *
26081 AAGACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
1 -AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
* * ** * *
26136 AGAAC-TCAAGAAATCTTTTGAAAACGGGTTTGCTCCCTATTCTT
1 AG-ACTTGAA-CAATCTTCAGAAAACGTGTCTGCTCCCTATTCTT
26180 CTGAGAAGTC
Statistics
Matches: 161, Mismatches: 36, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
53 1 0.01
54 43 0.27
55 72 0.45
56 44 0.27
57 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (54 bp):
AGACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTAT
Found at i:26088 original size:56 final size:55
Alignment explanation
Indices: 25946--26133 Score: 172
Period size: 56 Copynumber: 3.4 Consensus size: 55
25936 AAAACATGTA
* * * * * *
25946 TGCTCCCTATTCTTTCAGAGAGTATAAGACTTGATCAATCTTCGATC-AGCGGGT-TC
1 TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTC-AACAAAC--GTCTC
* * *
26002 -GCTCCCTATT-TTTCA-GG-GTGCATGGAACTCGCACAATCTTCAACAAACGTCTC
1 TGCTCCCTATTCTTTCAGGGAGTGTA-AG-ACTCGAACAATCTTCAACAAACGTCTC
* * *
26055 TGCTCTCTATTCTTTTCAGGGAGTGTAAGACTCGAACAATCTTCAGCAAACGTGTC
1 TGCTCCCTATTC-TTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
26111 TGCTCCCTATTCTTTCAGGGAGT
1 TGCTCCCTATTCTTTCAGGGAGT
26134 ATAGAACTCA
Statistics
Matches: 107, Mismatches: 16, Indels: 19
0.75 0.11 0.13
Matches are distributed among these distances:
52 5 0.05
53 6 0.06
54 28 0.26
55 21 0.20
56 40 0.37
57 3 0.03
58 4 0.04
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (55 bp):
TGCTCCCTATTCTTTCAGGGAGTGTAAGACTCGAACAATCTTCAACAAACGTCTC
Found at i:26605 original size:37 final size:37
Alignment explanation
Indices: 26555--27904 Score: 967
Period size: 37 Copynumber: 36.2 Consensus size: 37
26545 CTTGCTGATG
* * *
26555 GATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
26592 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTCAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
26629 GAATTGCTTCACTCCTT-TCCGGTGAAGGTTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* * * * ** *
26666 GCCTTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G-ATT--TG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* *
26708 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
26745 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
26782 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * * *
26819 GAATTGTTTCACTCCTT-TCCGATGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* ** * * ** *
26856 GCCCTGGGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
*
26898 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * * *
26935 AAGTTACTTCACTACTCTTCGGCGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * **
26972 GATTTGCTTCAATATTC-TCATGTGAAGTCTTTAAGACG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGC-TTAAGATT
* *
27010 GA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
27046 GA-TTGTTTCACTAATC-TCTAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
27082 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
27118 GGTTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
27155 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * * *
27197 GATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
27234 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
27271 GATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
27307 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
27344 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
27381 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
27418 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * *
27460 GATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
27497 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATA
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
27534 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
27570 GGTTTGCTTCACTTTTC-TCTAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
27606 GGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
27642 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
27678 GGTTTGCTTCACTATTCTCCAGTAAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
27714 GGTTTGCTTCACTA-CCTTCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTT-CGGTGAAGGCTTAAGATT
* * * *
27751 GA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
27787 GA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
27823 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* **
27859 GATCTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
27896 GACTTTGCT
1 GA-TTTGCT
27905 CTAATCTCAT
Statistics
Matches: 1045, Mismatches: 196, Indels: 143
0.76 0.14 0.10
Matches are distributed among these distances:
35 14 0.01
36 364 0.35
37 492 0.47
38 72 0.07
39 5 0.00
40 7 0.01
41 48 0.05
42 23 0.02
43 10 0.01
44 10 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (37 bp):
GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
Found at i:26815 original size:153 final size:149
Alignment explanation
Indices: 26545--27861 Score: 867
Period size: 153 Copynumber: 8.8 Consensus size: 149
26535 GCTCAAAAGA
* *
26545 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * * * * **
26610 CAGGTGAAGGCTTCAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGTTTAAGATTGCCTTGAG
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTGATTTG-G
* *
26674 GACTTAATCATCATGCTCGGAAGG
129 CACTTATTC-TCATGCT--GAAGG
*
26698 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* **
26763 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTT
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTG-ATT-TGG
** * *
26828 CACTCCTT-TC-CGATGAAGG
129 CACTTATTCTCATGCTGAAGG
** * *** *** * * * ** *
26847 CTT-AAGATTGCCCTG-GGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCAC
1 CTTGCTGATGGATTTGCTTCAC-TACTCTTC--GGT--GAAGGCTT-AAGATTGATTTGCTTCAC
* ** * * * *
26910 TACTCTTC-GGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTG
60 TATTC-TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG
* * *
26973 ATTT-GCTTCAATATTCTCATG-TGAAGT
123 ATTTGGC-AC-TTATTCTCATGCTGAAGG
*** * * * *
27000 CTTTAAGACGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * *
27063 CTA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-TGGTTTGCT
66 C-AGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG--
* *
27126 TCAC-TATTCTCA-GGTGAAGG
128 GCACTTATTCTCATGCTGAAGG
* ** ** *
27146 CTTAAGATTGCCCTGA-GGACTT-AATCA-T-CATGC-TC-G-GAAGGCTTGCTGATGGATTTGC
1 C------TTG--CTGATGGATTTGCTTCACTAC-T-CTTCGGTGAAGGCTT-AAGATTGATTTGC
* ** * * *
27204 TTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA
55 TTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA
* * *
27269 TGGATTTGCGTCAC-TATTCTC-CGGTGAAGG
120 TTGATTTG-G-CACTTATTCTCATGCTGAAGG
* * *
27299 CTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTC
1 CTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTC
***
27361 TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTGAG
65 TCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG-G
* *
27426 GACTTAATCATCATGCTCGGAAGG
129 CACTTATTC-TCATGCT--GAAGG
* *
27450 CTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* * * * *
27515 CAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-TGGTTTGCTT
66 CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTG--G
27579 CACTT-TTCTC-TAG-TGAAGG
129 CACTTATTCTCAT-GCTGAAGG
** * * * * *
27598 CTT-AAGATGG-TTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
* *
27660 CCA-GTGAAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTTGC
66 -CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTG-
* *
27721 TTCAC-TACCTTC-C--GGTGAAGG
128 -GCACTTA--TTCTCATGCTGAAGG
** * * * * * * * *
27742 CTT-AAGATTGA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATTGA-TTACTTCACTACTCT
1 CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-
* * *
27804 TCA-GTGAAGGGTTAAGATTGG--TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGAT
65 TCAGGTGAAGGCTTAAGA-TGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGAT
27862 CTGCTTCACT
Statistics
Matches: 938, Mismatches: 155, Indels: 150
0.75 0.12 0.12
Matches are distributed among these distances:
143 3 0.00
144 141 0.15
145 52 0.06
146 59 0.06
147 143 0.15
148 38 0.04
149 19 0.02
150 14 0.01
151 25 0.03
152 95 0.10
153 327 0.35
154 21 0.02
155 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (149 bp):
CTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT
CAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGGCA
CTTATTCTCATGCTGAAGG
Found at i:26878 original size:190 final size:188
Alignment explanation
Indices: 26555--27787 Score: 1133
Period size: 190 Copynumber: 6.6 Consensus size: 188
26545 CTTGCTGATG
* * *
26555 GATTTGCTTCACTACTCTTC-GGTAAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * *
26619 GCTTCAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGTTTAAGATTGCCTTGAGGACTTAATCA
65 GCTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-
*
26684 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
129 TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
*
26745 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * * *
26810 CTTAAGATGGAATTGTTTCACTCCTTTCCGATGAAGGCTTAAGATTGCCCTGGGGACTTAATCAT
66 CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC-T
26875 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
130 CATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* * * * * * *
26935 AAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * ** **
26999 TCTTTAAGACGG-ATTGCTTCACTACTCTT-CGGTGAAGGCTTAAGA-TGGATTGTTTCAC-TAA
65 GC-TTAAGATGGAATTGCTTCACTCCT-TTCCGGTGAAGGCTTAAGATTGCCTTG-TGGACTTAA
** * * *
27060 TCTC-TAG-T--GAAGGCTT-AAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGAT
127 TCTCAT-GCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* *** *** * *
27118 GGTTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCAC-TATTC-TCA-GGT--
** * * * ** **
27182 GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTT--GGTGAAGACTTAAAATTGATTTGCTTCA
61 GAAGGCTT-AAGATGGAATTGCTTCACT-C-CTTTCCGGTGAAGGCTTAAGATTGCCTTG-TGGA
* * ** * * * *
27245 C-TATTCTCA-GGT--GAAGGCTT-AAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGG
122 CTTAATCTCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAG
27305 AT
187 AT
*
27307 GGTTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
* * * * *
27371 GCTTAAGATGGATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATC
65 GCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* *
27435 ATCATGCTCGGAAGGCTTGCTGATGGATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATT
129 -TCATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-T
* *
27497 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATAGATTTGCTTCACTATTCTCCGGTGAAGG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
* * * * *
27562 CTTAGGATGG-TTTGCTTCACT--TTTCTCTAGTGAAGGCTTAAGA-TG-GTT-T-G-CTTCA-C
66 CTTAAGATGGAATTGCTTCACTCCTTTC-C-GGTGAAGGCTTAAGATTGCCTTGTGGACTTAATC
* * * *
27618 T-ATTCTCCGTTGAAGGCTTAG--GATGG-TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGAT
129 TCATGCT-CG--GAAGGCTT-GCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
* * *
27678 GGTTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTTGCTTCACTACCTTC-C-GGTGA
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGATTTGCTTCACTA--TTCTCAGGTGA
* * * * *
27739 AGGCTTAAGATTG-ATTACTTCACT-ATTCTCCAGTGAAAGCTTAAGATTG
63 AGGCTTAAGATGGAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATTG
27788 ATTACTTCAC
Statistics
Matches: 877, Mismatches: 122, Indels: 97
0.80 0.11 0.09
Matches are distributed among these distances:
180 52 0.06
181 43 0.05
182 42 0.05
183 44 0.05
184 90 0.10
185 22 0.03
186 4 0.00
187 16 0.02
188 42 0.05
189 176 0.20
190 334 0.38
191 12 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (188 bp):
GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGG
CTTAAGATGGAATTGCTTCACTCCTTTCCGGTGAAGGCTTAAGATTGCCTTGTGGACTTAATCTC
ATGCTCGGAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
Found at i:27199 original size:299 final size:298
Alignment explanation
Indices: 26704--27894 Score: 1158
Period size: 299 Copynumber: 4.0 Consensus size: 298
26694 AAGGCTTGCT
* * *
26704 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTG
1 GATGG-TTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
* * *
26769 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACT-A
* * *
26834 TT-TCCGATGAAGGCTTAAGATTGCCCTGGGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
128 TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
* * * *
26898 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTCGGCGAAGG
193 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGG
* *
26963 CTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGTCTTTAA
258 CTTAAGATTGATTTGCTTCACTATTCTC-TGTGAAGGC-TTAA
* * * * *
27006 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCTCTA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTC-AGGTG
* *
27069 AAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
27134 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
130 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGA
* * * *
27199 TTTGCTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
195 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTC-GGTGAAGGC
* * * *
27263 TTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAG
259 TTAAGATTGATTTGCTTCACTATTCT-CTGTGAAGGCTTAA
* * *
27304 GATGGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGA
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
*** *** *
27369 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAA
66 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGTTTGCTTCAC-TAT
* * * *
27433 TCATCATGCTCGGAAGGC------TTG--CTGATGGA-TT-TTCTTCACTACTCTTCGGTGAAGG
129 TC-TCA-GGT--GAAGGCTTAAGATTGCCCTGA-GGACTTAATCATCA-T--GC-TC-G-GAAGG
*** * *
27488 CTT-AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGA-TAGATTTGCTTCACTATT
183 CTTGCTGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAAGATTA-ATTTGCTTCACTATT
* * * *
27550 CTCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTAGTGAAGGCTTAA
246 CTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCT-GTGAAGGCTTAA
* * *
27603 GATGGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGG-TTTGCTTCACTATTCTCCA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTG
*
27666 AAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGATGGTTTGCTTCACTAC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGTTTGCTTCACTA-
** * * * **
27729 CTTC-C-GGTGAAGGCTTAAGA-T----TGATTACTTCA-C-T-ATTCTCCAGTGAAAGCTT-AA
128 -TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCT
* * * * ** *
27783 GATTGA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT-GGTTGCTTCACTATTCTCCGGTG
189 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTG
* * ** *
27846 AAGGCTTCAGATTGATCTGCTTCACTCCTCTTCGGTGAAGGCTTAA
254 AAGGCTTAAGATTGATTTGCTTCACTATTC-TCTGTGAAGGCTTAA
27892 GAT
1 GAT
27895 TGACTTTGCT
Statistics
Matches: 750, Mismatches: 98, Indels: 95
0.80 0.10 0.10
Matches are distributed among these distances:
288 30 0.04
289 55 0.07
290 24 0.03
292 7 0.01
293 1 0.00
294 4 0.01
295 11 0.01
296 14 0.02
297 35 0.05
298 86 0.11
299 287 0.38
300 137 0.18
301 47 0.06
302 6 0.01
304 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (298 bp):
GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC
TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGGCTT
AAGATTGATTTGCTTCACTATTCTCTGTGAAGGCTTAA
Found at i:27486 original size:263 final size:261
Alignment explanation
Indices: 26941--27894 Score: 1249
Period size: 263 Copynumber: 3.7 Consensus size: 261
26931 GATTAAGTTA
* * * * *
26941 CTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGTCTTTAA
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGC-TTAA
* * * * * *
27006 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATCTCTAGTGAA
65 GATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
*
27071 GGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
27136 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATT
195 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATT
27201 TG
260 TG
* *
27203 CTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* * *
27268 ATGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
27333 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCTTCACTATTC
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACTATTC
27398 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
194 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
*
27463 TTT
259 TTG
27466 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* * * * *
27531 ATAGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTCTCTAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
* * * *
27596 GGCTTAAGA-TGGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
* ** * * * **
27660 CCA-GTGAAGGCTTAAGA-TG--GT-TTG-CTTCA-C-T-ATTCTCCAGTAAAGGCTT-AAGATG
195 -CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATG
27715 G-TTTG
256 GATTTG
* * *
27720 CTTCACTAC-CTTCCGGTGAAGGCTTAAGATTGA-TTACTTCACTATTCTCCA-GTGAAAGCTTA
1 CTTCACTACTCTT-CGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTA
* * * * * *
27782 AGATTGATTACTTCACTACTCTTCAGTGAAGGGTTAAGATTGG-TTGCTTCACTATTCTCCGGTG
64 AGATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGA-TGGTTTGCTTCACTATTCTCCAGTG
* * **
27846 AAGGCTTCAGATTGATCTGCTTCACTCCTCTTC-GGTGAAGGCTTAAGAT
128 AAGGCTTAAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGAT
27895 TGACTTTGCT
Statistics
Matches: 624, Mismatches: 57, Indels: 31
0.88 0.08 0.04
Matches are distributed among these distances:
252 54 0.09
253 68 0.11
254 37 0.06
255 7 0.01
256 11 0.02
257 1 0.00
258 1 0.00
260 2 0.00
261 39 0.06
262 189 0.30
263 215 0.34
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (261 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
ATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAAG
GCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTC
AGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTT
G
Found at i:27858 original size:72 final size:72
Alignment explanation
Indices: 26711--27896 Score: 807
Period size: 72 Copynumber: 16.0 Consensus size: 72
26701 GCTGATGGAT
* * * * *
26711 TTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGCT
26775 TAAGA-TGG
64 TAAGATTGG
* * * *
26783 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCCT-TTCCGATGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGG-ATTGCTTCACTACTCTTCAG-TGAAGG
26847 CTTAAGATTGCCCTG
62 CTTAAGATTG----G
** * * ** *
26862 GGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTCGGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
*
26924 GGCTTAAGATTAAG
60 GGCTTAAGATT-GG
* * * * * * * *
26938 TTACTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTC-TCATGTGAAGTCT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC-
*
27002 TTAAGA-CGG
63 TTAAGATTGG
* * * *
27011 ATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATC-TCTAGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCT
*
27075 TAAGATTGAT
64 TAAGATTG-G
** * *
27085 TTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC-TCAGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCA-GTGAAGGCTT
27149 AAGATTGCCCTG
65 AAGATTG----G
** * * ** **
27161 AGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATGGATTTGCTTCACTACTCTTTGGTGAA
1 TTG-CTTCA-C-T-ATTCTCCGGTGAAGGCTT-AAGATGGA-TTGCTTCACTACTCTTCAGTGAA
* * *
27223 GACTTAAAATTGAT
60 GGCTTAAGATTG-G
* * * * *
27237 TTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTTGCGTCACTATTCTCCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCAGTGAAGGCTT
*
27302 AGGA-TGG
65 AAGATTGG
* * *
27309 TTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGGC
27373 TTAAGA-TGG
63 TTAAGATTGG
* *** *** * *
27382 ATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGA-TGGATTGCTTCAC-TACTCTTCA-G-T--G
**
27446 AAGGCTTGCTGA-TGG
58 AAGGCTT-AAGATTGG
* * * * * *
27461 ATTTTCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGG
1 --TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGA-TTGCTTCACTACTCTTCA-GTGAAGG
* *
27525 CTTAAGATAGAT
62 CTTAAGATTG-G
* * **
27537 TTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTC-TCTAGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTC-AGTGAAGGCTT
27601 AAGA-TGG
65 AAGATTGG
* * * * *
27608 TTTGCTTCACTATTCTCCGTTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAAGGCTT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTT
27673 AAGA-TGG
65 AAGATTGG
* * * *
27680 TTTGCTTCACTATTCTCCAGTAAAGGCTTAAGATGGTTTGCTTCACTAC-CTTCCGGTGAAGGCT
1 -TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTT-CAGTGAAGGCT
*
27744 TAAGATTGA
64 TAAGATTGG
* * * * * *
27753 TTACTTCACTATTCTCCAGTGAAAGCTTAAGATTGATTACTTCACTACTCTTCAGTGAAGGGTTA
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
27818 AGATTGG
66 AGATTGG
* * * *
27825 TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTGCTTCACTCCTCTTCGGTGAAGGCTT
1 TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGAT-TGCTTCACTACTCTTCAGTGAAGGCTT
27890 AAGATTG
65 AAGATTG
27897 ACTTTGCTCT
Statistics
Matches: 895, Mismatches: 157, Indels: 121
0.76 0.13 0.10
Matches are distributed among these distances:
71 2 0.00
72 233 0.26
73 224 0.25
74 219 0.24
75 47 0.05
76 4 0.00
77 14 0.02
78 33 0.04
79 103 0.12
80 12 0.01
81 4 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (72 bp):
TTGCTTCACTATTCTCCGGTGAAGGCTTAAGATGGATTGCTTCACTACTCTTCAGTGAAGGCTTA
AGATTGG
Found at i:29138 original size:2 final size:2
Alignment explanation
Indices: 29127--29167 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
29117 TTGTATACAC
29127 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29168 GGGTATTCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:31544 original size:21 final size:21
Alignment explanation
Indices: 31520--31591 Score: 101
Period size: 21 Copynumber: 3.4 Consensus size: 21
31510 CCATGCAAAG
*
31520 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
31541 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
*
31562 TGGTCTTCATGTC-CTAGGTGAA
1 TGGTCTTCATGTCTTTA--TGAA
31584 TGGTCTTC
1 TGGTCTTC
31592 TCGTCCTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 2 0.04
21 33 0.70
22 12 0.26
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:39104 original size:182 final size:183
Alignment explanation
Indices: 38780--39167 Score: 622
Period size: 182 Copynumber: 2.1 Consensus size: 183
38770 ATAAAATTTT
*
38780 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATA-T-TATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
38845 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTTT
64 TTTAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAATTTT
*
38910 TATTTTATAATTATATATT-TTTAAATTAATTGTAAATTGTTTTTATGAATTACA
129 TATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
*
38964 AAATATTAAATATATTATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATAATT
1 AAATATTAAATATATTATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATT
* *
39028 TAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAATTTT
66 TAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAA-TTTATAT-AAATTTT
* *
39092 TATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTTGAATTATA
129 TATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
* *
39147 AAATATTTAAT-TTTTATATAA
1 AAATATTAAATATATTATATAA
39168 ATTAGAAAAT
Statistics
Matches: 191, Mismatches: 10, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
180 2 0.01
181 63 0.33
182 70 0.37
183 43 0.23
184 13 0.07
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.43
Consensus pattern (183 bp):
AAATATTAAATATATTATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATT
TAAGATCCAATAACTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAATTTTTA
TTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTATGAATTACA
Found at i:39582 original size:41 final size:41
Alignment explanation
Indices: 39535--39657 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 41
39525 TTTTATTTTT
39535 ATATTATTAATATATATTATTTAATTTTTAAAAATATAA-AA
1 ATATTATTAATATATATTATTTAATTTTT-AAAATATAATAA
* **
39576 ATATTA-TAAAATATATTAATTTAACAGTTT-AAATATAATAA
1 ATATTATTAATATATATT-ATTTAA-TTTTTAAAATATAATAA
39617 ATAATT-TTAATTATATTATTATTTTAATTATTTTAAAATAT
1 AT-ATTATTAA-TATA-TATTA-TTTAA-T-TTTTAAAATAT
39658 TATTATATTC
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
40 18 0.28
41 16 0.25
42 9 0.14
43 4 0.06
44 9 0.14
45 3 0.05
46 6 0.09
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (41 bp):
ATATTATTAATATATATTATTTAATTTTTAAAATATAATAA
Found at i:39648 original size:9 final size:9
Alignment explanation
Indices: 39620--39652 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
39610 ATAATAAATA
39620 ATTTTAATT
1 ATTTTAATT
*
39629 ATATT-ATT
1 ATTTTAATT
39637 ATTTTAATT
1 ATTTTAATT
39646 ATTTTAA
1 ATTTTAA
39653 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:41809 original size:24 final size:24
Alignment explanation
Indices: 41782--41853 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
41772 AAACGGAGAT
41782 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
41806 ATCAGATATCATAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
* *
41830 ATTAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
41854 GTATTGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:41887 original size:48 final size:48
Alignment explanation
Indices: 41780--41890 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
41770 GTAAACGGAG
* *
41780 ATATCAGAAATCAAAACAGAATTCAGATCAGATATCATAACAGAATCC
1 ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
* * * *
41828 ATATTAGAAATCAGAACAGAATTCAGGTAT-TG-TATCATAACAGAATTC
1 ATATCAAAAATCAGAACAGAATTCA-G-ATCAGATATCATAACAGAATCC
41876 A-AGTCAAAAATCAGA
1 ATA-TCAAAAATCAGA
41891 TAAAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 1 0.02
48 49 0.91
49 2 0.04
50 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (48 bp):
ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
Found at i:41888 original size:24 final size:24
Alignment explanation
Indices: 41783--41888 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 24
41773 AACGGAGATA
*
41783 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCATAACAGAATTCAAG
* *
41806 ATCAGATATCATAACAGAATCCATA-
1 -TCAGAAATCATAACAGAATTCA-AG
* * *
41831 TTAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCATAACAGAATTCAAG
*
41855 T-ATTG-TATCATAACAGAATTCAAG
1 TCA--GAAATCATAACAGAATTCAAG
*
41879 TCAAAAATCA
1 TCAGAAATCA
41889 GATAAAATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
23 1 0.02
24 58 0.94
25 2 0.03
26 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAAG
Found at i:44340 original size:10 final size:10
Alignment explanation
Indices: 44327--44356 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44317 CTGTCAAAGT
44327 TTTGGTCAAC
1 TTTGGTCAAC
44337 TTTGGTCAAC
1 TTTGGTCAAC
*
44347 ATTGGTCAAC
1 TTTGGTCAAC
44357 GGTCAACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (10 bp):
TTTGGTCAAC
Found at i:44396 original size:18 final size:18
Alignment explanation
Indices: 44369--44403 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44359 TCAACGGTTC
44369 AACGGATCGGGTCGGGTA
1 AACGGATCGGGTCGGGTA
*
44387 AACGGGTCGGGTCGGGT
1 AACGGATCGGGTCGGGT
44404 TGGAACCGGT
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:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (18 bp):
AACGGATCGGGTCGGGTA
Found at i:46496 original size:24 final size:24
Alignment explanation
Indices: 46448--46515 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
46438 AAATGGAGAT
* * * *
46448 ATCAGAAATCAAAATAAAATTCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
46472 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATCCAG
*
46496 ATCATAAATCAGAACAGAAT
1 ATCAGAAATCAGAACAGAAT
46516 TCAGGTAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATCCAG
Found at i:46530 original size:24 final size:24
Alignment explanation
Indices: 46465--46542 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
46455 ATCAAAATAA
* *
46465 AATTCAGATCAGATATCAGAACAG
1 AATTCAGATAATATATCAGAACAG
* * *
46489 AATCCAGATCATAAATCAGAACAG
1 AATTCAGATAATATATCAGAACAG
* * *
46513 AATTCAGGTAATGTATCAGAACAT
1 AATTCAGATAATATATCAGAACAG
46537 AATTCA
1 AATTCA
46543 AGTCGAAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (24 bp):
AATTCAGATAATATATCAGAACAG
Found at i:49385 original size:22 final size:23
Alignment explanation
Indices: 49342--49385 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
49332 TCGGCTCGTC
* * *
49342 GATCGGAAGTTGGACGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
49365 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
49386 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.09, G:0.43, T:0.18
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:51142 original size:19 final size:19
Alignment explanation
Indices: 51118--51156 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
51108 CTGGAATTAA
* *
51118 ATGTTAGAATGTTGATTTG
1 ATGTTAGAAGGTTAATTTG
51137 ATGTTAGAAGGTTAATTTG
1 ATGTTAGAAGGTTAATTTG
51156 A
1 A
51157 ATCATTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.44
Consensus pattern (19 bp):
ATGTTAGAAGGTTAATTTG
Found at i:53807 original size:989 final size:985
Alignment explanation
Indices: 51832--53713 Score: 2321
Period size: 980 Copynumber: 1.9 Consensus size: 985
51822 AAAGGTAACC
* * *
51832 AAACATGTCATCACACCAAAACAACTAATTAACCCCCAATAGAATATCACATTGCCTCAAAATCA
1 AAACATGTCATCACACCAAAACAACTAATTAACACCCAATAGAATACCACATTACCTCAAAATCA
* * * **
51897 CACTAGAGTTCAACATACACTAGCAAACATTTCCTTGCTTAATCACCACCATAATCTCGTATCTC
66 AACCAGAGTTCAACATACACTAGCAAACATTTACTTGCTTAATCACCACCATAATCTCCCATCTC
* * * *
51962 AAGCTCCAAATTAGCATCTAATTCTCTAAAATGGCAAACAACGAGTGTGAGCTTACGAGGCTCAA
131 AAGCTCCAAATAAACATCTAATTCTCTAAAATGG-AAACAACGAGTGTCAGATTACGAGGCTCAA
* *
52027 TGAATGATTAACATTGAAAGAAGATATACACCTCAAGGCTAAGGAAAGCATCCTAAATGCCATGT
195 TGAATGATTAACATTGAAACAAGATATACACCTCAAGGCTAAAGAAAGCATCCTAAATGCCATGT
* *
52092 ACTTTACTGTTTTTACTTCAAGTGTTCATCATACAATGCTATGCCACAATGCACTTTGAATGCAC
260 ACCTCACTGTTTTTAC-TC-AGTGTTCATCATACAATGCTATGCCACAATGCACTTTGAATGCAC
* * *
52157 CTTAAATTTACCAAAAAAGAACATTGACATGATTAACATGCTTACACATTACAAATATGGCTGTC
323 CTTAAATGTACCAAAAAAGAACATTGACATCATTAACATGCTTACACATTACAAATATGGCTGCC
* * * *
52222 GATGTAACATACACATGCATCATTTACCTTTACCTTGCACATATCTACACACTCATATACACGAT
388 AATGTAACATACACATGCACCATTTACCTTTACCTTGCACATATCTACACACTCACATACACAAT
* * * * * *
52287 TCTATTAATAGTTAATTAGCACTTTGTTTGAAATGTAACTCAGTAATCGGATAAACAGACTTCAT
453 TCCATTAATAATTAACTAGCACTTTCTTTGAAATGTAACTCACTAATCGGATAAACAGACTCCAT
* *** * * *
52352 ATCTGTCTCGTTTTATTGACTCACCTTGGTCCTAAATCTAGAATATGGTGGAGCAAGCTTTAACG
518 ATCTGTCTCGTTTTATGGACTCACCTCAATCCTAAATCAAGAATATGGTGGAGCAAGCTCTAACA
* ** * *
52417 CCCCAATCATACCCCATAACTTTGAGTGGAGCAAGCTCTAATACTTTCTTGCCCCGTAATTCGAT
583 CCCCAATCATACCCCATAACTTTGAGTGGAGAAAGCTCTAATACTCCCTTACCCCATAATTCGAT
** *
52482 TTCATTTCACATATGGAAAAACATAGAATACTCTTTTCTAGGCATGTCTTTCACATCCAAAGGTC
648 TTCATTTCACATATACAAAAACATAGAATACTCTTTCCTAGGCATG---TTCACATCCAAAGGTC
** * * * *
52547 CCATAATGAACTTGTCATTTAATTCACATTTATCATAATTAGTTACTGTTGATGCATAACATATA
710 CCATAAAAAAATTGCCATTTAATCCACATTTATCATAAGTAGTTA-TGTTGATGCATAACATATA
* * * * * * *
52612 TCATATACATTTCGAACATGGTTTTAAAGTCGACTTGCTTTGGTTGTCATGGTCAACCTCTTTGG
774 TCATATACATTTCAAACATAGATTTAAAGCCGACTTACGTTGGTTGCCATGGTCAACCTCTTTGG
* * * ** **
52677 ACAGCAAGATAAACTTCAATCTCCATGGATAGCGACATAAATCTCATTTATCCCACATCTTATAT
839 AAAACAAGATAAACCTCAATCTCCATGGATAGAAACATAAATCTCATCAATCCCACATCTTATAT
* * * * *
52742 ACATATAGCTTCTTAATCATTTTGTATCAAAAAGTAACATAATGCACATGCCATATATCTCATGC
904 ACATATAGCTTCTAAAACATTATGCATAAAAAAGTAACATAATGCACATGCCATATATCTCATGC
52807 TTGTAATGCTCATACCA
969 TTGTAATGCTCATACCA
* *
52824 AAACATGTCATGACACCAAAACAACTAATTAA-ACCCAATAAGAATCCCACATTACCTCAAAATC
1 AAACATGTCATCACACCAAAACAACTAATTAACACCCAAT-AGAATACCACATTACCTCAAAATC
* ** * * *
52888 AAACCAGAGTTCAACATACA-TAGTAAATGTTTACTTGCTTGATCACCACCGT-ATGCTCCCCTC
65 AAACCAGAGTTCAACATACACTAGCAAACATTTACTTGCTTAATCACCACCATAAT-CTCCCATC
* *
52951 TCAAGCTCCGAATAAACATCTAATTCTCTGAAAATGG-TA-AACGAGTGTCAGATTA-GAAGGCT
129 TCAAGCTCCAAATAAACATCTAATTCTCT-AAAATGGAAACAACGAGTGTCAGATTACG-AGGCT
* *
53013 CAGTGAATGATTAACATTGAAACAAGATATACACCTCAAGGCTAAAAGAAAGCATCCTAAATGTC
192 CAATGAATGATTAACATTGAAACAAGATATACACCTCAAGGCT-AAAGAAAGCATCCTAAATGCC
* **
53078 ATGTACCTCACTGTTTTTAC-C-TTGTTCATCATGTAATGCTATGCCACAATGCACTTTGAATGC
256 ATGTACCTCACTGTTTTTACTCAGTGTTCATCATACAATGCTATGCCACAATGCACTTTGAATGC
* * *
53141 ACCTTAAATGTA-C-AAAAA-AACA-T-A-A-CATTAACATGCTTACACATTTCTAATATGGTTG
321 ACCTTAAATGTACCAAAAAAGAACATTGACATCATTAACATGCTTACACATTACAAATATGGCTG
* * * *
53199 CCAATGTAACATACACATGCACCA-TTACCTTTACCTTGCCCTTGTCTACACATTCACATACACA
386 CCAATGTAACATACACATGCACCATTTACCTTTACCTTGCACATATCTACACACTCACATACACA
* * *
53263 ATTCCATT-ATAATTAACT-GTCA-TTCTCTTTGAAATGTAACTTACTCATTGGATAAACAGAAC
451 ATTCCATTAATAATTAACTAG-CACTT-TCTTTGAAATGTAACTCACTAATCGGATAAACAG-AC
53325 -CCATATAACTGT-T-GTTTTACTGAGGACTCACCTCAATCAC-AAATCAAGAATATGGTGGAGC
513 TCCATAT--CTGTCTCGTTTTA-T--GGACTCACCTCAATC-CTAAATCAAGAATATGGTGGAGC
* * * * *
53386 TAGCTCTAACACCCTAATCTTACCCTATAACTTTGAGTGGAGAAAGCTCTAATACTCCCTTACCT
572 AAGCTCTAACACCCCAATCATACCCCATAACTTTGAGTGGAGAAAGCTCTAATACTCCCTTACCC
* * * *
53451 CATAGTTCGATTTCATTTCATATATACAAAAACATAGAGTACTCTTTCCTAGGCATG-T-ATATC
637 CATAATTCGATTTCATTTCACATATACAAAAACATAGAATACTCTTTCCTAGGCATGTTCACATC
* * *
53514 CAAAGGTCCTATATTAAAAAATTGCCATTTAATCCACATTTGTCTTAAGTAG-T-T-TTGATGCA
702 CAAAGGTCCCATA--AAAAAATTGCCATTTAATCCACATTTATCATAAGTAGTTATGTTGATGCA
*
53576 TAACATATAT-ATATACATTTCAAACCATAGATTTGAAGCCGACTTACGTTGGTTGCCATGGTCA
765 TAACATATATCATATACATTTCAAA-CATAGATTTAAAGCCGACTTACGTTGGTTGCCATGGTCA
* * * *
53640 ATCTCTATTGGAAAACAAGATAAACCTCACTCTCCATGGATAGAAAGATACATCTCACTCAAT-C
829 ACCTCT-TTGGAAAACAAGATAAACCTCAATCTCCATGGATAGAAACATAAATCTCA-TCAATCC
53704 CACATCTTAT
892 CACATCTTAT
53714 TTTTCATATA
Statistics
Matches: 765, Mismatches: 106, Indels: 56
0.83 0.11 0.06
Matches are distributed among these distances:
972 13 0.02
973 55 0.07
974 54 0.07
975 19 0.02
976 5 0.01
977 79 0.10
978 45 0.06
979 54 0.07
980 136 0.18
981 2 0.00
982 1 0.00
983 4 0.01
984 5 0.01
985 1 0.00
986 50 0.07
988 2 0.00
989 60 0.08
990 40 0.05
991 63 0.08
992 77 0.10
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (985 bp):
AAACATGTCATCACACCAAAACAACTAATTAACACCCAATAGAATACCACATTACCTCAAAATCA
AACCAGAGTTCAACATACACTAGCAAACATTTACTTGCTTAATCACCACCATAATCTCCCATCTC
AAGCTCCAAATAAACATCTAATTCTCTAAAATGGAAACAACGAGTGTCAGATTACGAGGCTCAAT
GAATGATTAACATTGAAACAAGATATACACCTCAAGGCTAAAGAAAGCATCCTAAATGCCATGTA
CCTCACTGTTTTTACTCAGTGTTCATCATACAATGCTATGCCACAATGCACTTTGAATGCACCTT
AAATGTACCAAAAAAGAACATTGACATCATTAACATGCTTACACATTACAAATATGGCTGCCAAT
GTAACATACACATGCACCATTTACCTTTACCTTGCACATATCTACACACTCACATACACAATTCC
ATTAATAATTAACTAGCACTTTCTTTGAAATGTAACTCACTAATCGGATAAACAGACTCCATATC
TGTCTCGTTTTATGGACTCACCTCAATCCTAAATCAAGAATATGGTGGAGCAAGCTCTAACACCC
CAATCATACCCCATAACTTTGAGTGGAGAAAGCTCTAATACTCCCTTACCCCATAATTCGATTTC
ATTTCACATATACAAAAACATAGAATACTCTTTCCTAGGCATGTTCACATCCAAAGGTCCCATAA
AAAAATTGCCATTTAATCCACATTTATCATAAGTAGTTATGTTGATGCATAACATATATCATATA
CATTTCAAACATAGATTTAAAGCCGACTTACGTTGGTTGCCATGGTCAACCTCTTTGGAAAACAA
GATAAACCTCAATCTCCATGGATAGAAACATAAATCTCATCAATCCCACATCTTATATACATATA
GCTTCTAAAACATTATGCATAAAAAAGTAACATAATGCACATGCCATATATCTCATGCTTGTAAT
GCTCATACCA
Found at i:55519 original size:56 final size:54
Alignment explanation
Indices: 55459--55563 Score: 147
Period size: 56 Copynumber: 1.9 Consensus size: 54
55449 GGTGCATGGA
* * *
55459 ACTCGCACAATCTTCAACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGTAAG
1 ACTCGAACAATCTTCAACAAA-GTCTATGCTCCCTATTC-TTTCAGGGAGTGTAAG
* *
55515 ACTCGAACAATCTTCAGCAAAGTGTATGCTCCCTATTCTTTCAGGGAGT
1 ACTCGAACAATCTTCAACAAAGTCTATGCTCCCTATTCTTTCAGGGAGT
55564 ATAGAACTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 11 0.25
55 14 0.32
56 19 0.43
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (54 bp):
ACTCGAACAATCTTCAACAAAGTCTATGCTCCCTATTCTTTCAGGGAGTGTAAG
Found at i:55581 original size:54 final size:55
Alignment explanation
Indices: 55433--55608 Score: 141
Period size: 54 Copynumber: 3.2 Consensus size: 55
55423 CAGCGGGTTC
* * * * * *
55433 GCTCCCTATT-TTTCAGGGTGCATGGAACTC--GCACAATCTTCAACAAACGTCTCT
1 GCTCCCTATTCTTTCAGGGAGTATAGAACTCAAG-A-AATCTTCAGCAAACGTGTAT
* * *
55487 GCTCTCTATTCTTTTCAGGGAGTGTA-AGACTCGAA-CAATCTTCAGCAAA-GTGTAT
1 GCTCCCTATTC-TTTCAGGGAGTATAGA-ACTC-AAGAAATCTTCAGCAAACGTGTAT
* * * *
55542 GCTCCCTATTCTTTCAGGGAGTATAGAACTCAAGAAATCTT-TGAAAACGGGTTT
1 GCTCCCTATTCTTTCAGGGAGTATAGAACTCAAGAAATCTTCAGCAAACGTGTAT
55596 GCTCCCTATTCTT
1 GCTCCCTATTCTT
55609 CTGAGAAGTC
Statistics
Matches: 97, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
53 6 0.06
54 49 0.51
55 16 0.16
56 26 0.27
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (55 bp):
GCTCCCTATTCTTTCAGGGAGTATAGAACTCAAGAAATCTTCAGCAAACGTGTAT
Found at i:56033 original size:37 final size:37
Alignment explanation
Indices: 55983--57329 Score: 940
Period size: 37 Copynumber: 36.2 Consensus size: 37
55973 CTTGCTGATG
* * *
55983 GATTTGCTTCACTACTCTTCGGTAAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
56020 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTCAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
56057 GAATTGCTTCACTCCTT-TCCGGTGAAGGTTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* * * * ** *
56094 GCCTTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G-ATT--TG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* *
56136 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
56173 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
56210 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * * *
56247 GAATTGTTTCACTCCTT-TCCGATGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* ** * * ** *
56284 GCCCTGGGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
*
56326 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * * *
56363 AAGTTACTTCACTACTCTTCGGCGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * **
56400 GATTTGCTTCAATA-TC-TCATGTGAAGTCTTTAAGACG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGC-TTAAGATT
* *
56437 GA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
56473 GA-TTGTTTCACTAATC-TCTAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
56509 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
56545 G-GTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
56581 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * * *
56623 GATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
56660 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
56697 GATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
56733 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
56770 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
56807 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
56844 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* * *
56886 GATTTTCTTCACTACTCTTC-GTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
56922 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATA
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
56959 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
56995 GGTTTGCTTCACTTTTC-TCTAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
57031 GGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
57067 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
57103 GGTTTGCTTCACTATTCTCCAGTAAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
57139 GGTTTGCTTCACTA-CCTTCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTT-CGGTGAAGGCTTAAGATT
* * * *
57176 GA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
57212 GA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
57248 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* **
57284 GATCTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
57321 GACTTTGCT
1 GA-TTTGCT
57330 CTAATCTCAT
Statistics
Matches: 1042, Mismatches: 194, Indels: 147
0.75 0.14 0.11
Matches are distributed among these distances:
34 1 0.00
35 46 0.04
36 368 0.35
37 469 0.45
38 56 0.05
39 4 0.00
40 7 0.01
41 48 0.05
42 23 0.02
43 10 0.01
44 10 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (37 bp):
GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
Found at i:56576 original size:72 final size:73
Alignment explanation
Indices: 55983--57329 Score: 855
Period size: 72 Copynumber: 18.1 Consensus size: 73
55973 CTTGCTGATG
* * * *
55983 GATTTGCTTCACTACTCTTC-GGTAAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG-GTTGCTTCACTATTCTCAGGTGAAG
* *
56047 GCTTCAGATG
64 GCTTAAGATT
* * * * * *** * *
56057 GAATTGCTTCACTCCTT-TCCGGTGAAGGTTTAAGATTGCCTTG-AGGACTTAATCATCATGCTC
1 GATTTGCTTCACT-ATTCTCAGGTGAAGGCTTAAGATTG-GTTGCTTCAC-TATTC-TCA-GGT-
** *
56120 GGAAGGCTTGCTGATG
60 -GAAGGCTT-AAGATT
* * *
56136 GATTTGCTTCACTACTCTTC-GGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG-GTTGCTTCACTATTCTCAGGTGAAG
*
56200 GCTTAAGATG
64 GCTTAAGATT
* * * *
56210 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGAATTGTTTCACTCCTT-TCCGATGAA
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGG--TTGCTTCACT-ATTCTCAGGTGAA
56273 GGCTTAAGATT
63 GGCTTAAGATT
*** *** * * ** *
56284 GCCCTG-GGGACTTAATCATCATGCTCGGAAGGCTTGCTGA-TGGATTTGCTTCACTACTCTTC-
1 GATTTGCTTCAC-TATTC-TCA-GGT--GAAGGCTT-AAGATTGG--TTGCTTCACTATTC-TCA
56346 GGTGAAGGCTTAAGATT
57 GGTGAAGGCTTAAGATT
* * * * * * * *
56363 AAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGATTGATTTGCTTCAATA-TCTCATGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG-GTTGCTTCACTATTCTCAGGTGAAG
* **
56426 TCTTTAAGACG
64 GC-TTAAGATT
* * *
56437 GA-TTGCTTCACTACTCTTC-GGTGAAGGCTTAAGA-TGGATTGTTTCACTAATCTCTA-GTGAA
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTGG-TTGCTTCACTATTCTC-AGGTGAA
56498 GGCTTAAGATT
63 GGCTTAAGATT
*
56509 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-TGGTTGCTTCACTATTCTCAGGTGAAGGC
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGGTTGCTTCACTATTCTCAGGTGAAGGC
56573 TTAAGATT
66 TTAAGATT
*** *** * * ** * **
56581 GCCCTG-AGGACTTAATCATCATGCTCGGAAGGCTTGCTGA-TGGATTTGCTTCACTACTCTTTG
1 GATTTGCTTCAC-TATTC-TCA-GGT--GAAGGCTT-AAGATTGG--TTGCTTCACTATTCTCAG
* *
56644 GTGAAGACTTAAAATT
58 GTGAAGGCTTAAGATT
* *
56660 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGATTTGCGTCACTATTCTCCGGTGAAG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGG--TTGCTTCACTATTCTCAGGTGAAG
*
56724 GCTTAGGA-T
64 GCTTAAGATT
* *
56733 GGTTTGCTTCACTATTCTCCA-GTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTG-GTTGCTTCACTATTCTCAGGTGAAG
*
56797 GCTTAAGATG
64 GCTTAAGATT
** *** * *
56807 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAATCATCATGCTCG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTG-GTTGCTTCAC-TATTC-TCA-GGT--
** *
56871 GAAGGCTTGCTGATG
60 GAAGGCTT-AAGATT
* * * *
56886 GATTTTCTTCACTACTCTTC--GTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAG
1 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATTG-GTTGCTTCACTATTCTCAGGTGAAG
*
56949 GCTTAAGATA
64 GCTTAAGATT
* * *
56959 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTA-GTGAAG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGG-TTGCTTCACTATTCTC-AGGTGAAG
57022 GCTTAAGA-T
64 GCTTAAGATT
* * * *
57031 GGTTTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCTCCA-GTGAAG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGG-TTGCTTCACTATTCT-CAGGTGAAG
57094 GCTTAAGA-T
64 GCTTAAGATT
* *
57103 GGTTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGA-TGGTTTGCTTCACTACCTTC-C-GGTGA
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGG-TTGCTTCACTA--TTCTCAGGTGA
57164 AGGCTTAAGATT
62 AGGCTTAAGATT
* * * * *
57176 GA-TTACTTCACTATTCTCCA-GTGAAAGCTTAAGATTGATTACTTCACTACTCTTCA-GTGAAG
1 GATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATTGGTTGCTTCACTATTC-TCAGGTGAAG
*
57238 GGTTAAGATT
64 GCTTAAGATT
* * * * **
57248 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATTGATCTGCTTCACTCCTCTTC-GGTGAAG
1 GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGGT-TGCTTCACTATTC-TCAGGTGAAG
57311 GCTTAAGATT
64 GCTTAAGATT
57321 GACTTTGCT
1 GA-TTTGCT
57330 CTAATCTCAT
Statistics
Matches: 1019, Mismatches: 178, Indels: 151
0.76 0.13 0.11
Matches are distributed among these distances:
70 2 0.00
71 4 0.00
72 274 0.27
73 243 0.24
74 223 0.22
75 43 0.04
76 16 0.02
77 13 0.01
78 54 0.05
79 135 0.13
80 12 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (73 bp):
GATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGGTTGCTTCACTATTCTCAGGTGAAGGC
TTAAGATT
Found at i:56625 original size:297 final size:299
Alignment explanation
Indices: 56139--57176 Score: 1047
Period size: 297 Copynumber: 3.5 Consensus size: 299
56129 GCTGATGGAT
*
56139 TTGCTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTT
* * *
56204 AAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGTTTCACTCCTTTCCGA
66 AAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-ATTGCTTCACTCATTTCAGA
*
56269 TGAAGGCTTAAGATTGCCCTGGGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCT
130 TGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCT
* *
56334 TCACTACTCTTCGGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTC-GGCGAAGGCTTAAGA
195 TCACTACTCTTCGGTGAAGACTTAAAATTAAGTTACTTCACTACTC-TCAGGCGAAGGCTTAAGA
* * * *
56398 TTGATTTGCTTCAATA-TCTCATGTGAAGTCTTTAAGACGGA
259 TGGATTTGCGTCAATATTCTCAGGTGAAGGC-TTAAGACGGA
* * *
56439 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCTCTA-GTGAAGGCT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTC-AGGTGAAGGCT
* *
56502 TAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGG-TTGCTTCACT-ATTCTCAG
65 TAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTGCTTCACTCATT-TCAG
*
56565 GTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGC
129 ATGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGC
* * * * * *
56630 TTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA
194 TTCACTACTCTTCGGTGAAGACTTAAAATTAAGTTACTTCACTACTCTCAGGCGAAGGCTTAAGA
* * * * *
56695 TGGATTTGCGTCACTATTCTCCGGTGAAGGCTTAGGATGGT
259 TGGATTTGCGTCAATATTCTCAGGTGAAGGCTTAAGACGGA
* * *
56736 TTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTT
* *
56801 AAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTGA-GGACTT-AATCA--
66 AAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TG----GATTG-CTTCACTCATT
* * * *
56862 TCATGCTCGGAAGGC------TTG--CTGATGGA-TT-TTCTTCACTACTCTTCGTGAAGGCTT-
125 TCA-GAT--GAAGGCTTAAGATTGCCCTGA-GGACTTAATCATCA-T--GC-TCG-GAAGGCTTG
*** * * * * * * * *
56916 AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGA-TAGATTTGCTTCACTATTCTCC
181 CTGATGGATTTGCTTCACTACTCTTC-GGTGAAGACTTAAAATTA-AGTTACTTCACTACTCTCA
* * * * * * *
56979 GGTGAAGGCTTAGGATGG-TTTGCTTCACTTTTCTCTA-GTGAAGGCTTAAGATGGT
244 GGCGAAGGCTTAAGATGGATTTGCGTCAATATTCTC-AGGTGAAGGCTTAAGACGGA
* * * * *
57034 TTGCTTCACTATTCTCCGTTGAAGGCTTAGGA-TGGTTTGCTTCACTATTCTCCA-GTGAAGGCT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCT-CAGGTGAAGGCT
* * * *
57097 TAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGATGGTTTGCTTCACT-ACCTTCC
65 TAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGATTGCTTCACTCA-TTTCA
*
57159 GGTGAAGGCTTAAGATTG
128 GATGAAGGCTTAAGATTG
57177 ATTACTTCAC
Statistics
Matches: 632, Mismatches: 67, Indels: 81
0.81 0.09 0.10
Matches are distributed among these distances:
291 11 0.02
292 3 0.00
293 2 0.00
294 2 0.00
295 7 0.01
296 40 0.06
297 225 0.36
298 143 0.23
299 137 0.22
300 43 0.07
301 3 0.00
302 2 0.00
303 4 0.01
304 10 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (299 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTT
AAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGATTGCTTCACTCATTTCAGAT
GAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTTGCTT
CACTACTCTTCGGTGAAGACTTAAAATTAAGTTACTTCACTACTCTCAGGCGAAGGCTTAAGATG
GATTTGCGTCAATATTCTCAGGTGAAGGCTTAAGACGGA
Found at i:58558 original size:2 final size:2
Alignment explanation
Indices: 58551--58594 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
58541 TTGTATACAC
58551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58593 AT
1 AT
58595 TTGGGTATTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60972 original size:21 final size:21
Alignment explanation
Indices: 60948--61002 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
60938 CCATGCAAAG
*
60948 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
60969 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
60990 TGGTCTTCATGTC
1 TGGTCTTCATGTC
61003 CTAGGCGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Found at i:61015 original size:22 final size:21
Alignment explanation
Indices: 60948--61019 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
60938 CCATGCAAAG
* * *
60948 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTCTACGAA
* *
60969 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTCTACGAA
60990 TGGTCTTCATGTC-CTAGGCGAA
1 TGGTCTTCATGTCTCTA--CGAA
61012 TGGTCTTC
1 TGGTCTTC
61020 TCGTCCTTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.04
21 33 0.72
22 11 0.24
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (21 bp):
TGGTCTTCATGTCTCTACGAA
Found at i:68526 original size:181 final size:181
Alignment explanation
Indices: 68221--68591 Score: 611
Period size: 181 Copynumber: 2.0 Consensus size: 181
68211 TTAAATATAT
68221 TATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAA
1 TATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAA
* *
68286 CTTTTAAAACTAAATCAATATTAAATACTTAAATAATTTATATAAATTTTTTATTTTATAATTAT
66 CTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTTTTATTTTATAATTAT
*
68351 ATATATTTAAATTAATTGTAAATTGTTTTTATGAATTACAAAATATTAAATA
131 AT-TATTTAAATTAATTATAAATTGTTTTTATGAATTACAAAATATTAAATA
*
68403 TATATATAACATATGGTCTCAGCCCAAACCATTTAAAA-CCAATTAATAATTTAAGATCCAATAA
1 TATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAA
* *
68467 CTTTTAAACCTAAATCAATATTAATTAATTAAA-AATTTTATATAAAATTTTTATTTTATAATTA
66 CTTTTAAAACTAAATCAATATTAAATAATTAAATAA-TTTATATAAAATTTTTATTTTATAATTA
* * * *
68531 TATTATTTAAATTAATTATAAATTGTTTTTTTGAATTATAAAATATTTAATT
130 TATTATTTAAATTAATTATAAATTGTTTTTATGAATTACAAAATATTAAATA
*
68583 TTTATATAA
1 TATATATAA
68592 ATTAGAAAAT
Statistics
Matches: 177, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
180 54 0.31
181 86 0.49
182 37 0.21
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (181 bp):
TATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAATAA
CTTTTAAAACTAAATCAATATTAAATAATTAAATAATTTATATAAAATTTTTATTTTATAATTAT
ATTATTTAAATTAATTATAAATTGTTTTTATGAATTACAAAATATTAAATA
Found at i:69068 original size:9 final size:9
Alignment explanation
Indices: 69040--69072 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
69030 ATAATAAATA
69040 ATTTTAATT
1 ATTTTAATT
*
69049 ATATT-ATT
1 ATTTTAATT
69057 ATTTTAATT
1 ATTTTAATT
69066 ATTTTAA
1 ATTTTAA
69073 AATATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTAATT
Found at i:71216 original size:24 final size:24
Alignment explanation
Indices: 71189--71260 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
71179 AAACGGAGAT
71189 ATCAGAAATCAAAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * *
71213 ATCAGATATCATAACAGAATCCAT
1 ATCAGAAATCAAAACAGAATTCAG
* *
71237 ATTAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
71261 GTATTGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:71294 original size:48 final size:48
Alignment explanation
Indices: 71187--71297 Score: 120
Period size: 48 Copynumber: 2.3 Consensus size: 48
71177 GTAAACGGAG
* *
71187 ATATCAGAAATCAAAACAGAATTCAGATCAGATATCATAACAGAATCC
1 ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
* * * *
71235 ATATTAGAAATCAGAACAGAATTCAGGTAT-TG-TATCATAACAGAATTC
1 ATATCAAAAATCAGAACAGAATTCA-G-ATCAGATATCATAACAGAATCC
71283 A-AGTCAAAAATCAGA
1 ATA-TCAAAAATCAGA
71298 TAAAATATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 1 0.02
48 49 0.91
49 2 0.04
50 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (48 bp):
ATATCAAAAATCAGAACAGAATTCAGATCAGATATCATAACAGAATCC
Found at i:71295 original size:24 final size:24
Alignment explanation
Indices: 71190--71295 Score: 76
Period size: 24 Copynumber: 4.4 Consensus size: 24
71180 AACGGAGATA
*
71190 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCATAACAGAATTCAAG
* *
71213 ATCAGATATCATAACAGAATCCATA-
1 -TCAGAAATCATAACAGAATTCA-AG
* * *
71238 TTAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCATAACAGAATTCAAG
*
71262 T-ATTG-TATCATAACAGAATTCAAG
1 TCA--GAAATCATAACAGAATTCAAG
*
71286 TCAAAAATCA
1 TCAGAAATCA
71296 GATAAAATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
23 1 0.02
24 58 0.94
25 2 0.03
26 1 0.02
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAAG
Found at i:73740 original size:10 final size:10
Alignment explanation
Indices: 73725--73754 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
73715 CGGTCAAAGT
73725 TTTGGTCAAC
1 TTTGGTCAAC
73735 TTTGGTCAAC
1 TTTGGTCAAC
*
73745 ATTGGTCAAC
1 TTTGGTCAAC
73755 GGTCAACGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (10 bp):
TTTGGTCAAC
Found at i:75848 original size:24 final size:24
Alignment explanation
Indices: 75821--75892 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
75811 AAATGGAGAT
* *
75821 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
75845 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
75869 ATCATAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
75893 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:75892 original size:12 final size:12
Alignment explanation
Indices: 75836--75892 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
75826 AAATCAAAAT
*
75836 AGAATTCAGATC
1 AGAATTCAGAAC
75848 AG-ATATCAGAAC
1 AGAAT-TCAGAAC
* *
75860 AGAATCCAGATC
1 AGAATTCAGAAC
* *
75872 ATAAATCAGAAC
1 AGAATTCAGAAC
75884 AGAATTCAG
1 AGAATTCAG
75893 GTAATGTATC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 30 0.88
13 2 0.06
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.19
Consensus pattern (12 bp):
AGAATTCAGAAC
Found at i:75903 original size:24 final size:24
Alignment explanation
Indices: 75836--75915 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
75826 AAATCAAAAT
* *
75836 AGAATTCAGATCAGATATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* * *
75860 AGAATCCAGATCATAAATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
* *
75884 AGAATTCAGGTAATGTATCAGAAC
1 AGAATTCAGATAATATATCAGAAC
*
75908 ATAATTCA
1 AGAATTCA
75916 AGTCGAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.46, C:0.16, G:0.15, T:0.23
Consensus pattern (24 bp):
AGAATTCAGATAATATATCAGAAC
Found at i:78118 original size:22 final size:23
Alignment explanation
Indices: 78075--78118 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
78065 TCGGCTCGTC
* * *
78075 GATCGGAAGTTGGATGGCGAGTA
1 GATCGGAAGTTGAAAGGAGAGTA
78098 GATCGG-AGTTGAAAGGAGAGT
1 GATCGGAAGTTGAAAGGAGAGT
78119 TGTTGGAGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.43, T:0.20
Consensus pattern (23 bp):
GATCGGAAGTTGAAAGGAGAGTA
Found at i:79892 original size:20 final size:20
Alignment explanation
Indices: 79855--79892 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
79845 CTGGAATTAA
* *
79855 ATGTTAGAATGTTGATTTTG
1 ATGTTAGAAGGTTAATTTTG
79875 ATGTTAGAAGGTTAATTT
1 ATGTTAGAAGGTTAATTT
79893 GAATCGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
ATGTTAGAAGGTTAATTTTG
Found at i:87173 original size:55 final size:55
Alignment explanation
Indices: 87113--87374 Score: 171
Period size: 55 Copynumber: 4.8 Consensus size: 55
87103 GGGTAAGTGA
* * *
87113 GACTTGAAAAATCTTCAGAAAACATGTATGCTCCCTATTCTTTCAGAGAGTATAG
1 GACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGAGAGTATAG
* ** * *
87168 GACTTGATCAATCTTCCA-TCAGCGGGT-TCGCTCCCTATT-TTTCA-AG-GTGCAT-G
1 GACTTGAACAATCTT-CAGAAAACGTGTCT-GCTCCCTATTCTTTCAGAGAGT--ATAG
* * * * * * *
87221 GAACTCGCACAATCTTCA-ACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGTAA
1 G-ACTTGAACAATCTTCAGA-AAACGTGTCTGCTCCCTATTC-TTTCAGAGAGTATAG
* * *
87278 GACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAG
1 GACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGAGAGTATAG
* * * ** * *
87333 AAC-TCAAGAAATCTTTTGAAAACGGGTTTGCTCCCTATTCTT
1 GACTTGAA-CAATCTTCAGAAAACGTGTCTGCTCCCTATTCTT
87375 CTGAGAAGTC
Statistics
Matches: 159, Mismatches: 34, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
52 2 0.01
53 6 0.04
54 34 0.21
55 71 0.45
56 42 0.26
57 2 0.01
58 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (55 bp):
GACTTGAACAATCTTCAGAAAACGTGTCTGCTCCCTATTCTTTCAGAGAGTATAG
Found at i:87289 original size:56 final size:55
Alignment explanation
Indices: 87223--87328 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 55
87213 GGTGCATGGA
* *
87223 ACTCGCACAATCTTCAACAAACGTCTCTGCTCTCTATTCTTTTCAGGGAGTGTAAG
1 ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTC-TTTCAGGGAGTGTAAG
* *
87279 ACTCGAACAATCTTCAGCAAACGTGTCTGCTCCCTATTCTTTCAGGGAGT
1 ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTCTTTCAGGGAGT
87329 ATAGAACTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
55 11 0.24
56 35 0.76
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAAACGTCTCTGCTCCCTATTCTTTCAGGGAGTGTAAG
Found at i:87799 original size:37 final size:37
Alignment explanation
Indices: 87749--89095 Score: 963
Period size: 37 Copynumber: 36.2 Consensus size: 37
87739 CTTGCTGATG
* *
87749 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
87786 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTCAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
87823 GAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* * * * ** *
87860 GCCTTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G-ATT--TG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
* *
87902 GATTTGCTTCACTACTCTTCGGT-AAGGCTTAA-AAT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
87937 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
87974 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * *
88011 GAATTGCTTCACTCCTT-TCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACT-ATTCTTCGGTGAAGGCTTAAGATT
* ** * * ** *
88048 GCCCTGGGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
*
88090 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * * *
88127 AAGTTACTTCACTACTCTTCGGCGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * **
88164 GATTTGCTTCAATATTC-TCATGTGAAGGCTTTAAGACG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGC-TTAAGATT
* *
88202 GA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
88238 GA-TTGTTTCACTAATC-TCTAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
88274 GATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
88310 GGTTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*** *** * * ** *
88347 GCCCTG-AGGACTTAATCATCGTGCTCGGAAGGCTTGCTGATG
1 GATTTGCTTCAC-TATTCTTCG-G-T--GAAGGCTT-AAGATT
* * * *
88389 GATTTGCTTCACTACTCTTTGGTGAAGACTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
88426 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
88463 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
88499 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
88536 GATTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATG
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
*
88573 GAGTTGCTTCACTATTC-TCAGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* ** * * ** *
88610 GCCCTGAGGACTTAATCATCATGC-TC-G-GAAGGCTTGCTGATG
1 G--AT-TTG-CTTCA-C-T-ATTCTTCGGTGAAGGCTT-AAGATT
** * * *
88652 GATTTTATTCACTACTCTTCGGTGAATGCTTAAAATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
*
88689 GATTTGCTTCACTATTC-TCAGGTGAAGG-TTAAGATA
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* *
88725 GATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
88761 GGTTTGCTTCACTTTTC-TCTAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTC-GGTGAAGGCTTAAGATT
* * * *
88797 GGTTTGCTCCACTATTCTCCGGTGAAGGCTTAGGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
88833 GGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
88869 GGTTTGCTTCACTATTCTCCAGTAAAGGCTTAAGA-T
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* *
88905 GGTTTGCTTCACTA-CCTTCCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTT-CGGTGAAGGCTTAAGATT
* * * *
88942 GA-TTACTTCACTATTCTCCAGTGAAAGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * * *
88978 GA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* * *
89014 G-GTTGCTTCACTATTCTCCGGTGAAGGCTTCAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
* ** *
89050 GATCTGCTTCACTCCTCTGCGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
89087 GACTTTGCT
1 GA-TTTGCT
89096 CTAATCTCAT
Statistics
Matches: 1043, Mismatches: 195, Indels: 143
0.76 0.14 0.10
Matches are distributed among these distances:
34 2 0.00
35 32 0.03
36 403 0.39
37 444 0.43
38 60 0.06
39 3 0.00
40 6 0.01
41 47 0.05
42 30 0.03
43 11 0.01
44 5 0.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (37 bp):
GATTTGCTTCACTATTCTTCGGTGAAGGCTTAAGATT
Found at i:88377 original size:299 final size:297
Alignment explanation
Indices: 87898--89085 Score: 1156
Period size: 299 Copynumber: 4.0 Consensus size: 297
87888 AAGGCTTGCT
* *
87898 GATGGATTTGCTTCACTACTCTTCGGT-AAGGCTTAAAAT-GATTTGCTTCACTATTCTCAGGTG
1 GATGG-TTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTG
* *
87961 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAATTGCTTCACTCC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACT-A
* *
88026 TT-TCCGGTGAAGGCTTAAGATTGCCCTGGGGACTTAATCATCATGCTCGGAAGGCTTGCTGATG
128 TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATC-TGCTCGGAAGGCTTGCTGATG
* * * *
88090 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAAGTTACTTCACTACTCTTCGGCGAAGG
192 GATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGG
*
88155 CTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGGCTTTAA
257 CTTAAGATTGATTTGCTTCACTATTCTC-TGTGAAGGC-TTAA
* * * * *
88198 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA-TTGTTTCACTAATCTCTA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTC-AGGTG
* *
88261 AAGGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
65 AAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATT
88326 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCGTGCTCGGAAGGCTTGCTGATGGA
130 CTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATC-TGCTCGGAAGGCTTGCTGATGGA
* * * *
88391 TTTGCTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTC-TCAGGTGAAGGC
194 TTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTC-GGTGAAGGC
* * *
88455 TTAAGATGGATTTGCTTCACTATTCTCCGGTGAAGGCTTAG
258 TTAAGATTGATTTGCTTCACTATTCT-CTGTGAAGGCTTAA
* * *
88496 GATGGTTTGCTTCACTATTCTCCAGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGA
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
* *** *** *
88561 AGGCTTAAGATGGAGTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATTGCCCTG-AGGACTTAA
66 AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGA-TGGTTTGCTTCAC-TAT
* * * *
88625 TCATCATGCTCGGAAGGC------TTG--CTGATGGATTTTATTCACTACT-CTTCGGTGAATGC
129 TC-TCA-GGT--GAAGGCTTAAGATTGCCCTGA-GGA-CTTAATCA-T-CTGC-TC-G-GAAGGC
*** * *
88681 TT-AAAATTGATTTGCTTCACTATTC-TCAGGTGAAGG-TTAAGA-TAGATTTGCTTCACTATTC
183 TTGCTGATGGATTTGCTTCACTACTCTTC-GGTGAAGGCTTAAGATTA-ATTTGCTTCACTATTC
* * * *
88742 TCCGGTGAAGGCTTAGGA-TGGTTTGCTTCACTTTTCTCTAGTGAAGGCTTAA
246 TTCGGTGAAGGCTTAAGATTGATTTGCTTCACTATTCTCT-GTGAAGGCTTAA
* * *
88794 GATGGTTTGCTCCACTATTCTCCGGTGAAGGCTTAGGATGG-TTTGCTTCACTATTCTCCA-GTG
1 GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTG
*
88857 AAGGCTTAAGATGG-TTTGCTTCACTATTCTCCA-GTAAAGGCTTAAGATGGTTTGCTTCACTAC
65 AAGGCTTAAGATGGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGATGGTTTGCTTCACTA-
** * * **
88920 CTTC-C-GGTGAAGGCTTAAGA-T----TGATTACTTCA-CTAT-T-CTCCAGTGAAAGCTT-AA
128 -TTCTCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATC-ATCTGCT-C-G-GAAGGCTTGCT
* * * * ** *
88974 GATTGA-TTACTTCACTACTCTTCAGTGAAGGGTTAAGATT-GGTTGCTTCACTATTCTCCGGTG
188 GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTG
* * ** *
89037 AAGGCTTCAGATTGATCTGCTTCACTCCTCTGCGGTGAAGGCTTAA
253 AAGGCTTAAGATTGATTTGCTTCACTATTCT-CTGTGAAGGCTTAA
89083 GAT
1 GAT
89086 TGACTTTGCT
Statistics
Matches: 749, Mismatches: 96, Indels: 97
0.80 0.10 0.10
Matches are distributed among these distances:
288 50 0.07
289 57 0.08
290 2 0.00
291 8 0.01
292 3 0.00
293 3 0.00
294 3 0.00
295 7 0.01
296 35 0.05
297 41 0.05
298 121 0.16
299 280 0.37
300 118 0.16
301 13 0.02
302 2 0.00
304 6 0.01
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (297 bp):
GATGGTTTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGA
AGGCTTAAGATGGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTC
TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCTGCTCGGAAGGCTTGCTGATGGATT
TGCTTCACTACTCTTCGGTGAAGGCTTAAGATTAATTTGCTTCACTATTCTTCGGTGAAGGCTTA
AGATTGATTTGCTTCACTATTCTCTGTGAAGGCTTAA
Found at i:88472 original size:262 final size:261
Alignment explanation
Indices: 88133--89085 Score: 1222
Period size: 262 Copynumber: 3.7 Consensus size: 261
88123 GATTAAGTTA
* * * *
88133 CTTCACTACTCTTCGGCGAAGGCTTAAGATTGATTTGCTTCAATATTCTCATGTGAAGGCTTTAA
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGC-TTAA
* * * * * *
88198 GACGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGATTGTTTCACTAATCTCTAGTGAA
65 GATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
*
88263 GGCTTAAGATTGATTTGCTTCACTATTCTTAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
*
88328 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCGTGCTCGGAAGGCTTGCTGATGGATT
195 CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATT
88393 TG
260 TG
* *
88395 CTTCACTACTCTTTGGTGAAGACTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* *
88460 ATGGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCTCCAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
*
88525 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGAGTTGCTTCACTATTC
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGG-TTTGCTTCACTATTC
88590 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
194 TCAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGAT
*
88655 TTT
259 TTG
* *
88658 ATTCACTACTCTTCGGTGAATGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGG-TTAAG
1 CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
* * * * *
88722 ATAGATTTGCTTCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTTTTCTCTAGTGAA
66 ATGGA-TTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAA
* * * *
88787 GGCTTAAGA-TGGTTTGCTCCACTATTCTCCGGTGAAGGCTTAGGATGGTTTGCTTCACTATTCT
130 GGCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCT
* ** * * * **
88851 CCA-GTGAAGGCTTAAGA-TG--GT-TTG-CTTCA-C-T-ATTCTCCAGTAAAGGCTT-AAGATG
195 -CAGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCT-C-G-GAAGGCTTGCTGATG
88906 G-TTTG
256 GATTTG
* * *
88911 CTTCACTAC-CTTCCGGTGAAGGCTTAAGATTGA-TTACTTCACTATTCTCCA-GTGAAAGCTTA
1 CTTCACTACTCTT-CGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTA
* * * * * *
88973 AGATTGATTACTTCACTACTCTTCAGTGAAGGGTTAAGATTGG-TTGCTTCACTATTCTCCGGTG
64 AGATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGA-TGGTTTGCTTCACTATTCTCCAGTG
* * **
89037 AAGGCTTCAGATTGATCTGCTTCACTCCTCTGC-GGTGAAGGCTTAAGAT
128 AAGGCTTAAGATTGATTTGCTTCACTATTCT-CAGGTGAAGGCTTAAGAT
89086 TGACTTTGCT
Statistics
Matches: 618, Mismatches: 61, Indels: 33
0.87 0.09 0.05
Matches are distributed among these distances:
252 81 0.13
253 74 0.12
254 8 0.01
255 11 0.02
256 1 0.00
257 1 0.00
259 2 0.00
260 29 0.05
261 46 0.07
262 230 0.37
263 135 0.22
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (261 bp):
CTTCACTACTCTTCGGTGAAGGCTTAAAATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAG
ATGGATTGCTTCACTACTCTCCGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCCAGTGAAG
GCTTAAGATTGATTTGCTTCACTATTCTCAGGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTC
AGGTGAAGGCTTAAGATTGCCCTGAGGACTTAATCATCATGCTCGGAAGGCTTGCTGATGGATTT
G
Found at i:91156 original size:2 final size:2
Alignment explanation
Indices: 91145--91200 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
91135 TTGTATACAC
91145 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
91185 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
91201 TTGGGTATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93551 original size:21 final size:21
Alignment explanation
Indices: 93527--93572 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
93517 CCCATGCAAG
*
93527 TGGTCTTTATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
93548 TGGTCTTCATGTCTTTATGAA
1 TGGTCTTCATGTCTTTATGAA
93569 TGGT
1 TGGT
93573 ATTCTCGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.11, G:0.22, T:0.50
Consensus pattern (21 bp):
TGGTCTTCATGTCTTTATGAA
Done.