Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000547.1 Hibiscus syriacus cultivar Beakdansim tig00001059_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: 93152
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:2338 original size:23 final size:23
Alignment explanation
Indices: 2285--2338 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
2275 CATCGAATGC
* *
2285 ATTTCATGCATCGATGCACATAC
1 ATTTTATGCATCGATGCACATAA
**
2308 ATACTATGCATCGATGCAC-TCAA
1 ATTTTATGCATCGATGCACAT-AA
2331 ATTTTATG
1 ATTTTATG
2339 AAAACATCGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (23 bp):
ATTTTATGCATCGATGCACATAA
Found at i:2345 original size:68 final size:64
Alignment explanation
Indices: 2232--2435 Score: 191
Period size: 64 Copynumber: 3.1 Consensus size: 64
2222 TTTTCAAAGT
* * **
2232 GATGCATCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATTTCATGCA
1 GATGCACCAA-CCATGCATCGATGCACTC-T-AAATATTTTGAAACATCGAATGCATTTCATGCA
2295 TC
63 TC
* *
2297 GATGCACATACATACTATGCATCGATGCACTC-AAAT-TTTATGAAAACATCGAATGCATTTGAT
1 GATGCAC---CA-ACCATGCATCGATGCACTCTAAATATTT-TG-AAACATCGAATGCATTTCAT
*
2360 GAATC
60 GCATC
* * ***
2365 GATGCACCAGCCATGTATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTCATGCATC
1 GATGCACCAACCATGCATCGATGCACTCTAAATATTTTGAAACATCGAATGCATTTCATGCATC
2429 GATGCAC
1 GATGCAC
2436 TCTTAGTGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
64 46 0.40
65 12 0.11
66 8 0.07
68 46 0.40
69 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (64 bp):
GATGCACCAACCATGCATCGATGCACTCTAAATATTTTGAAACATCGAATGCATTTCATGCATC
Found at i:6784 original size:20 final size:19
Alignment explanation
Indices: 6751--6788 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6741 AAGAGTTTGG
*
6751 AGTAATAAATTAAAATAAC
1 AGTAATAAAATAAAATAAC
6770 AGTAACTAAAATAAAATAA
1 AGTAA-TAAAATAAAATAA
6789 ATGAAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (19 bp):
AGTAATAAAATAAAATAAC
Found at i:7775 original size:16 final size:17
Alignment explanation
Indices: 7710--7774 Score: 71
Period size: 16 Copynumber: 3.8 Consensus size: 17
7700 CATGAATAAA
7710 TAAA-CATGATATTTCAT
1 TAAAGCATG-TATTTCAT
7727 TCAAAGCATGTATTTCAT
1 T-AAAGCATGTATTTCAT
* * *
7745 T-TAGCATATATTTTAT
1 TAAAGCATGTATTTCAT
7761 TAAAGCATGTATTT
1 TAAAGCATGTATTT
7775 ACTTTAAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.32
17 11 0.28
18 12 0.30
19 4 0.10
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (17 bp):
TAAAGCATGTATTTCAT
Found at i:7783 original size:17 final size:17
Alignment explanation
Indices: 7730--7784 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
7720 ATTTCATTCA
7730 AAGCATGTATTT-CATTT
1 AAGCATGTATTTAC-TTT
* *
7747 -AGCATATATTTTA-TTA
1 AAGCATGTA-TTTACTTT
7763 AAGCATGTATTTACTTT
1 AAGCATGTATTTACTTT
7780 AAGCA
1 AAGCA
7785 AACATGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
AAGCATGTATTTACTTT
Found at i:15373 original size:20 final size:20
Alignment explanation
Indices: 15348--15401 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
15338 GAAATATGGG
15348 GTGTATCGGTACATACAGAA
1 GTGTATCGGTACATACAGAA
15368 GTGTATCGGTACATACAGAA
1 GTGTATCGGTACATACAGAA
15388 GTGTATCGGTACAT
1 GTGTATCGGTACAT
15402 CCCTTTGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (20 bp):
GTGTATCGGTACATACAGAA
Found at i:16016 original size:16 final size:17
Alignment explanation
Indices: 15982--16020 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
15972 TTAATGAAGT
*
15982 CAAAAACATCCAAACATC
1 CAAAAACA-CCAAAAATC
16000 CAAAAACA-CAAAAATC
1 CAAAAACACCAAAAATC
16016 CAAAA
1 CAAAA
16021 GATTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08
Consensus pattern (17 bp):
CAAAAACACCAAAAATC
Found at i:16406 original size:20 final size:21
Alignment explanation
Indices: 16381--16459 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 21
16371 AAAACCTGAC
*
16381 GAGTGTATCGGTACAC-TTCA
1 GAGTGTATCGATACACATTCA
16401 GAGTGTATCGATACACATTCAA
1 GAGTGTATCGATACACATTC-A
* *
16423 GGAATGTATCAATACACATTCA
1 -GAGTGTATCGATACACATTCA
* *
16445 TAGTGTATCAATACA
1 GAGTGTATCGATACA
16460 TAGCAAGGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 15 0.29
21 16 0.31
22 2 0.04
23 18 0.35
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
GAGTGTATCGATACACATTCA
Found at i:22658 original size:24 final size:24
Alignment explanation
Indices: 22629--22675 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22619 TGTTTTCGAT
*
22629 TTTAATTATTTTATTTTTCTTGAG
1 TTTAATTATTTAATTTTTCTTGAG
22653 TTTAATTATTTAATTTTTCTTGA
1 TTTAATTATTTAATTTTTCTTGA
22676 TTTTGTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (24 bp):
TTTAATTATTTAATTTTTCTTGAG
Found at i:27196 original size:14 final size:14
Alignment explanation
Indices: 27177--27220 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
27167 ATTGTCAAGT
27177 TTTATTTTAGTTTC
1 TTTATTTTAGTTTC
*
27191 TTTATTTTTA-TTTA
1 TTTA-TTTTAGTTTC
*
27205 TTTAATTTAGTTTC
1 TTTATTTTAGTTTC
27219 TT
1 TT
27221 CACTTTCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 4 0.16
14 16 0.64
15 5 0.20
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (14 bp):
TTTATTTTAGTTTC
Found at i:38170 original size:12 final size:12
Alignment explanation
Indices: 38145--38214 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
38135 ACGAAGATAT
* *
38145 CAGAAATCAAAA
1 CAGAATTCAGAA
38157 CAGAATTCAGAA
1 CAGAATTCAGAA
38169 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
38181 CAGAATCCAGAT
1 CAGAATTCAGAA
*
38193 CAGAAATCAGAA
1 CAGAATTCAGAA
38205 CAGAATTCAG
1 CAGAATTCAG
38215 GTCATTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:38214 original size:48 final size:47
Alignment explanation
Indices: 38143--38251 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 47
38133 AAACGAAGAT
*
38143 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
** ** *
38190 GATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
*
38238 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
38252 TAAAATATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
47 1 0.02
48 52 0.98
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
Found at i:38249 original size:24 final size:25
Alignment explanation
Indices: 38143--38251 Score: 109
Period size: 24 Copynumber: 4.5 Consensus size: 25
38133 AAACGAAGAT
*
38143 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
38167 AACAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
38191 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
38215 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
38240 -TCGGAAATCAGA
1 ATCAGAAATCAGA
38252 TAAAATATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.03
24 63 0.91
25 4 0.06
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:40746 original size:7 final size:7
Alignment explanation
Indices: 40734--40765 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
40724 TGGTCAACTC
40734 CGGTCAA
1 CGGTCAA
40741 CGGTCAA
1 CGGTCAA
40748 CGGGTCAA
1 C-GGTCAA
40756 CGGTCAA
1 CGGTCAA
40763 CGG
1 CGG
40766 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:40755 original size:8 final size:8
Alignment explanation
Indices: 40735--40781 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
40725 GGTCAACTCC
40735 GGTCAAC-
1 GGTCAACG
40742 GGTCAACG
1 GGTCAACG
40750 GGTCAAC-
1 GGTCAACG
40757 GGTCAACG
1 GGTCAACG
40765 GGT---CG
1 GGTCAACG
40770 GGTCAACG
1 GGTCAACG
40778 GGTC
1 GGTC
40782 GGGTCGGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:40755 original size:15 final size:15
Alignment explanation
Indices: 40735--40781 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
40725 GGTCAACTCC
40735 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
40750 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
40765 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
40778 GGTC
1 GGTC
40782 GGGTCGGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:40775 original size:13 final size:13
Alignment explanation
Indices: 40742--40786 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
40732 TCCGGTCAAC
*
40742 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
40757 GGTCAACGGGTCG
1 GGTCAACGGGTCG
40770 GGTCAACGGGTCG
1 GGTCAACGGGTCG
40783 GGTC
1 GGTC
40787 GGGTTGTGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
15 12 0.41
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:42944 original size:12 final size:12
Alignment explanation
Indices: 42919--42988 Score: 79
Period size: 12 Copynumber: 5.8 Consensus size: 12
42909 ACGAAGATAT
* *
42919 CAGAAATCAAAA
1 CAGAATTCAGAA
42931 CAGAATTCAGAA
1 CAGAATTCAGAA
42943 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
42955 CAGAATCCAGAT
1 CAGAATTCAGAA
*
42967 CAGAAATCAGAA
1 CAGAATTCAGAA
42979 CAGAATTCAG
1 CAGAATTCAG
42989 GTCATTTATC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
11 2 0.04
12 44 0.92
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:42988 original size:48 final size:47
Alignment explanation
Indices: 42917--43025 Score: 137
Period size: 48 Copynumber: 2.3 Consensus size: 47
42907 AAACGAAGAT
*
42917 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
** ** *
42964 GATCAGAAATCAGAACAGAATTCAGGTCATTTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
*
43012 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
43026 TAAAATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
47 1 0.02
48 52 0.98
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCCA
Found at i:43023 original size:24 final size:25
Alignment explanation
Indices: 42917--43025 Score: 109
Period size: 24 Copynumber: 4.5 Consensus size: 25
42907 AAACGAAGAT
*
42917 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * *
42941 AACAGATATCAGAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
42965 ATCAGAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* ***
42989 GTCATTTATCAGAACAGAATTCAAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
43014 -TCGGAAATCAGA
1 ATCAGAAATCAGA
43026 TAAAATATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.03
24 63 0.91
25 4 0.06
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:45529 original size:15 final size:15
Alignment explanation
Indices: 45509--45542 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
45499 GGTCAACTCC
45509 GGTCAACAGTCAACG
1 GGTCAACAGTCAACG
*
45524 GGTCAACGGTCAACG
1 GGTCAACAGTCAACG
45539 GGTC
1 GGTC
45543 GGGTCAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.15
Consensus pattern (15 bp):
GGTCAACAGTCAACG
Found at i:45530 original size:8 final size:8
Alignment explanation
Indices: 45517--45555 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
45507 CCGGTCAACA
45517 GTCAACGG
1 GTCAACGG
45525 GTCAAC-G
1 GTCAACGG
45532 GTCAACGG
1 GTCAACGG
45540 GT---CGG
1 GTCAACGG
45545 GTCAACGG
1 GTCAACGG
45553 GTC
1 GTC
45556 GGGTAAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.19
7 7 0.26
8 15 0.56
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:45549 original size:13 final size:13
Alignment explanation
Indices: 45517--45586 Score: 95
Period size: 13 Copynumber: 5.2 Consensus size: 13
45507 CCGGTCAACA
*
45517 GTCAACGGGTCAACG
1 GTCAACGGGTC--GG
45532 GTCAACGGGTCGG
1 GTCAACGGGTCGG
45545 GTCAACGGGTCGG
1 GTCAACGGGTCGG
*
45558 GTAAACGGGTCGG
1 GTCAACGGGTCGG
*
45571 GTCACCGGGTCGG
1 GTCAACGGGTCGG
45584 GTC
1 GTC
45587 GGGTTTATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
13 40 0.78
15 11 0.22
ACGTcount: A:0.17, C:0.24, G:0.43, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGG
Found at i:47375 original size:65 final size:64
Alignment explanation
Indices: 47242--47401 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 64
47232 TGCACTAAGA
* * *
47242 GTGCAACGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCATAGTGCATTGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCATAGTGCATCGATGCATGGCTG
* *
47306 GTGCATCGATGCATCAAATGCATTCGATATTTTCATAAA-ATCC-TCAGTGCATCGATGCATGG-
1 GTGCATCGATGCATCAAATGCATTCGAT-GTTTCA-AAATAGCCAT-AGTGCATCGATGCATGGC
*
47368 TAT
63 T-G
* *
47371 GTGCATCGATGCATGAAATGCATTCTATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
47402 CAATTTAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
64 30 0.36
65 50 0.60
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCATAGTGCATCGATGCATGGCTG
Found at i:48081 original size:14 final size:15
Alignment explanation
Indices: 48062--48090 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48052 TCAAGCATTT
48062 AACAATCCA-AAACA
1 AACAATCCAGAAACA
48076 AACAATCCAGAAACA
1 AACAATCCAGAAACA
48091 TAAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:48809 original size:23 final size:23
Alignment explanation
Indices: 48779--48859 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
48769 TACATTGCCT
48779 TGTGCATCGATGCACATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
* *
48802 TGTGCATCGGTGCACCTTCAAGG
1 TGTGCATCGATGCACATTCAAGG
48825 TGT--ATCGATGCACATTCAAGG
1 TGTGCATCGATGCACATTCAAGG
*
48846 -ATGCATCGATGCAC
1 TGTGCATCGATGCAC
48860 TGTTAGGTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.02
21 16 0.31
22 10 0.20
23 24 0.47
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (23 bp):
TGTGCATCGATGCACATTCAAGG
Found at i:48834 original size:44 final size:42
Alignment explanation
Indices: 48784--48878 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
48774 TGCCTTGTGC
* *
48784 ATCGATGCACATTCAAGGTGTGCATCGGTGCACCT-TCAAGGTGT
1 ATCGATGCACATTCAAGG-ATGCATCGATGCA-CTGT-AAGGTGT
*
48828 ATCGATGCACATTCAAGGATGCATCGATGCACTGTTAGGTGT
1 ATCGATGCACATTCAAGGATGCATCGATGCACTGTAAGGTGT
48870 ATCGATGCA
1 ATCGATGCA
48879 TGAAGCACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 17 0.36
43 12 0.26
44 18 0.38
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (42 bp):
ATCGATGCACATTCAAGGATGCATCGATGCACTGTAAGGTGT
Found at i:48875 original size:20 final size:21
Alignment explanation
Indices: 48784--48878 Score: 104
Period size: 21 Copynumber: 4.4 Consensus size: 21
48774 TGCCTTGTGC
48784 ATCGATGCACATTCAAGGTGT
1 ATCGATGCACATTCAAGGTGT
* *
48805 GCATCGGTGCACCTTCAAGGTGT
1 --ATCGATGCACATTCAAGGTGT
*
48828 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
48850 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
48870 ATCGATGCA
1 ATCGATGCA
48879 TGAAGCACAA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
20 11 0.17
21 20 0.32
22 13 0.21
23 19 0.30
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:53048 original size:42 final size:44
Alignment explanation
Indices: 52954--53048 Score: 115
Period size: 42 Copynumber: 2.2 Consensus size: 44
52944 GACCCTGTGC
* *
52954 ATCGATGTACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGT
* * *
52998 ATCAATGCACATTCAA-GTGTGCATCGATGCA-CTGTTA-GGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGATGCACCT-TCATGGTGT
53040 ATCGATGCA
1 ATCGATGCA
53049 TGAAGCACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 15 0.34
43 15 0.34
44 14 0.32
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGATGCACCTTCATGGTGT
Found at i:58798 original size:18 final size:17
Alignment explanation
Indices: 58744--58792 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
58734 TTGGACCCTT
* *
58744 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
58762 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
58780 AGTGCATTCGATG
1 AGTGCA-TCGATG
58793 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:58897 original size:65 final size:64
Alignment explanation
Indices: 58764--58923 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 64
58754 TGCACTAAGA
* * *
58764 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
* * * *
58828 GTGCATCGATGCATTAAATGCATTCGATATTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-T
1 GTGCATCGATGCATAAAATGCATTCGAT-GTTTCA-AAATAGCCACAGTGCATCGATGCATGGCT
*
58891 AT
64 -G
58893 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
58924 CAGTTTAATT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTG
Found at i:58962 original size:65 final size:63
Alignment explanation
Indices: 58764--58971 Score: 185
Period size: 65 Copynumber: 3.2 Consensus size: 63
58754 TGCACTAAGA
* * * *
58764 GTGCATCGATGCATCAAGTGCATTCG-ATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGGC
1 GTGCATCGATGCATAAAATGCATTCGAATG-TTCATAAA-ATCTC--AGTGCATCGATGCATGGT
58826 TG
62 TG
* *
58828 GTGCATCGATGCATTAAATGCATTCGATATTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATAAAATGCATTCGA-ATGTTCATAAAAT-CTCAGTGCATCGATGCATGGT-T
58893 -
63 G
** *
58893 GTGCATCGATGCATAAAATGCATTCG-ATGTTCAGTTTAAT-TCATGGTGTATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGAATGTTCA-TAAAATCTCA--GTGCATCGATGCATGG-T
58956 TG
62 TG
*
58958 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
58972 CACTTTGATA
Statistics
Matches: 122, Mismatches: 11, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
62 3 0.02
63 6 0.05
64 44 0.36
65 61 0.50
66 7 0.06
67 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATAAAATGCATTCGAATGTTCATAAAATCTCAGTGCATCGATGCATGGTTG
Found at i:59288 original size:14 final size:14
Alignment explanation
Indices: 59269--59327 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
59259 GTAATTTGTT
*
59269 TTCTGGAAATTAAA
1 TTCTGGAAATTGAA
*
59283 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
* *
59297 TTATTGGAATTTGAA
1 TT-CTGGAAATTGAA
*
59312 TTCTGGAAAATGAA
1 TTCTGGAAATTGAA
59326 TT
1 TT
59328 ACATTTTTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (14 bp):
TTCTGGAAATTGAA
Found at i:59314 original size:29 final size:29
Alignment explanation
Indices: 59272--59328 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
59262 ATTTGTTTTC
59272 TGGAAATTAAATTCTGGAAAATGAATTAT
1 TGGAAATTAAATTCTGGAAAATGAATTAT
* *
59301 TGGAATTTGAATTCTGGAAAATGAATTA
1 TGGAAATTAAATTCTGGAAAATGAATTA
59329 CATTTTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (29 bp):
TGGAAATTAAATTCTGGAAAATGAATTAT
Found at i:59478 original size:23 final size:23
Alignment explanation
Indices: 59429--59479 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
59419 GTGTTATATT
**
59429 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
59452 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
59475 ATATT
1 ATATT
59480 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:59491 original size:19 final size:19
Alignment explanation
Indices: 59467--59549 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
59457 TTAAATATCT
*
59467 TTATTAAAATATTATTAGA
1 TTATTAAAATATTATTAAA
* *
59486 TTATTAAATTAATATTAAA
1 TTATTAAAATATTATTAAA
* *
59505 TATATAAATAATATTATT-CA
1 T-TATTAA-AATATTATTAAA
*
59525 TTATTAATAAT-TTAATAATA
1 TTATTAA-AATATTATTAA-A
59545 TTATT
1 TTATT
59550 TCTATGAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
18 4 0.08
19 26 0.52
20 13 0.26
21 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAAAATATTATTAAA
Found at i:59609 original size:23 final size:23
Alignment explanation
Indices: 59583--59655 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
59573 AAATTTTATT
59583 AATAATTTATTATATATTATTAA
1 AATAATTTATTATATATTATTAA
**
59606 AATAAAATATCT-TATATTATTATA
1 AATAATTTAT-TATATATTATTA-A
* *
59630 ATATAATTGATTAT-T-TTATTAT
1 A-ATAATTTATTATATATTATTAA
59652 AATA
1 AATA
59656 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 24 0.60
24 5 0.12
25 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
AATAATTTATTATATATTATTAA
Found at i:59685 original size:22 final size:21
Alignment explanation
Indices: 59646--59708 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
59636 TTGATTATTT
*
59646 TATTATAATATTAAAAATATAA
1 TATTAT-ATATTTAAAATATAA
*
59668 TATTATATTATTTGAAATATTAA
1 TATTATA-TATTTAAAATA-TAA
* *
59691 TA-AATATATTTTAAATAT
1 TATTATATATTTAAAATAT
59709 TTAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 18 0.51
23 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTATATATTTAAAATATAA
Found at i:59715 original size:19 final size:20
Alignment explanation
Indices: 59676--59716 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
59666 AATATTATAT
59676 TATTTGAAATATTAATAAATA
1 TATTTGAAATATT-ATAAATA
*
59697 TATTTTAAATATT-TAAATA
1 TATTTGAAATATTATAAATA
59716 T
1 T
59717 TTAATATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TATTTGAAATATTATAAATA
Found at i:59731 original size:19 final size:20
Alignment explanation
Indices: 59709--59763 Score: 53
Period size: 24 Copynumber: 2.7 Consensus size: 20
59699 TTTTAAATAT
59709 TTAAATATTT-AATATTTGA
1 TTAAATATTTAAATATTTGA
59728 TTAAAATGATATTAAAATATTTGA
1 TT-AAAT-AT-TT-AAATATTTGA
59752 TT-AATA-TTAAAT
1 TTAAATATTTAAAT
59764 TCATAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 4 0.13
21 3 0.10
22 5 0.16
24 11 0.35
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TTAAATATTTAAATATTTGA
Found at i:59983 original size:42 final size:42
Alignment explanation
Indices: 59922--60016 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
59912 TTCTTGCAAC
*
59922 CAAACACTG-GAAAATATTTTCC-AGAAAACGAATTACGTGAAA
1 CAAACA-TGAGAAAACATTTTCCGA-AAAACGAATTACGTGAAA
59964 CAAACATGAGAAAACATTTTCCGAAAAACGAATTACGTGAAA
1 CAAACATGAGAAAACATTTTCCGAAAAACGAATTACGTGAAA
*
60006 CAAACACGAGA
1 CAAACATGAGA
60017 TTTCAGGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 2 0.04
42 46 0.94
43 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (42 bp):
CAAACATGAGAAAACATTTTCCGAAAAACGAATTACGTGAAA
Found at i:60927 original size:2 final size:2
Alignment explanation
Indices: 60920--60967 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
60910 ATAATATGAA
60920 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
60962 AT AT AT
1 AT AT AT
60968 TATGATTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74633 original size:3 final size:3
Alignment explanation
Indices: 74625--74657 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
74615 ATAAATTATT
74625 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
74658 TTTTTGACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:75128 original size:129 final size:128
Alignment explanation
Indices: 74890--75305 Score: 349
Period size: 129 Copynumber: 3.2 Consensus size: 128
74880 CTAGTCAATG
* * *
74890 GATGACACTG-CTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTCGGTT
1 GATGACAC-GACTCATACATGATGAAGAGTTC-TGGCCATC--TA--AA-GGTGATAACACGATT
* * * * * * *
74954 CCTACGCGATGAGGACGTCTGGTTATCAAAGGTTGGCATAGCTCCTACGTGATGAGAATATCAGG
59 CCTACGTGATGAGGATGGCTGGTTATCAAAGGTTGACACAACTCCTACGTGATGAGAA-ATCTGG
75019 TCGGGT
123 TCGGGT
* * *
75025 GATGACGCGACTCATATATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACAT
1 GATGACACGACTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGT
* * * * *
75090 GATGAGGATGGCTGGTTATCAAAGGTTGACACAACTCCTACATAATGAGGAGATCTGATCAGGT
66 GATGAGGATGGCTGGTTATCAAAGGTTGACACAACTCCTACGTGATGA-GAAATCTGGTCGGGT
* ** * * * * *
75154 AATGACACGGTTCCTACACGAT-AAGGACG-GCAGGCCATCTAAAGGTGATAAAAC-AGTTCCTA
1 GATGACACGACTCATACATGATGAA-GA-GTTCTGGCCATCTAAAGGTGATAACACGA-TTCCTA
* ** * *
75216 CGTGATG-GAGATGGCTGATTATCTGA-GTTGACACAACTTCTATGTGATGAGGAAATCTGGTCG
63 CGTGATGAG-GATGGCTGGTTATCAAAGGTTGACACAACTCCTACGTGATGA-GAAATCTGGTCG
*
75279 AGT
126 GGT
* * *
75282 GATGACACGATTCCTACGTGATGA
1 GATGACACGACTCATACATGATGA
75306 GGACGATTGA
Statistics
Matches: 230, Mismatches: 44, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
128 54 0.23
129 134 0.58
130 5 0.02
132 2 0.01
134 9 0.04
135 26 0.11
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (128 bp):
GATGACACGACTCATACATGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGT
GATGAGGATGGCTGGTTATCAAAGGTTGACACAACTCCTACGTGATGAGAAATCTGGTCGGGT
Found at i:75310 original size:128 final size:129
Alignment explanation
Indices: 75057--75298 Score: 312
Period size: 128 Copynumber: 1.9 Consensus size: 129
75047 GAAGAGTTCT
* *
75057 GGCCATCTAAAGGTGATAACACGATTCCTACATGATGAGGATGGCTGGTTATCAAAGGTTGACAC
1 GGCCATCTAAAGGTGATAAAACGATTCCTACATGATGAGGATGGCTGATTATCAAAGGTTGACAC
* *
75122 AACTCCTACATAATGAGGAGATCTGATCAGGTAATGACACGGTTCCTACACGATAAGGACGGCA
66 AACTCCTACATAATGAGGAAATCTGATCAGGTAATGACACGATTCCTACACGATAAGGACGGCA
* **
75186 GGCCATCTAAAGGTGATAAAAC-AGTTCCTACGTGATG-GAGATGGCTGATTATCTGA-GTTGAC
1 GGCCATCTAAAGGTGATAAAACGA-TTCCTACATGATGAG-GATGGCTGATTATCAAAGGTTGAC
* ** * * *
75248 ACAACTTCTATGTGATGAGGAAATCTGGTC-GAGTGATGACACGATTCCTAC
64 ACAACTCCTACATAATGAGGAAATCTGATCAG-GTAATGACACGATTCCTAC
75299 GTGATGAGGA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
127 1 0.01
128 49 0.51
129 47 0.48
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (129 bp):
GGCCATCTAAAGGTGATAAAACGATTCCTACATGATGAGGATGGCTGATTATCAAAGGTTGACAC
AACTCCTACATAATGAGGAAATCTGATCAGGTAATGACACGATTCCTACACGATAAGGACGGCA
Found at i:75468 original size:63 final size:67
Alignment explanation
Indices: 75394--75522 Score: 194
Period size: 68 Copynumber: 2.0 Consensus size: 67
75384 AAAGAGACAA
*
75394 AATTCATTTCAAGGG-AATGA-CTCAAAG-A-TGGTTTTGTTTCAAGAGAAACAGACTCAAAGAT
1 AATTCATTTCAAGGGAAACGATCTCAAAGAATTGGTTTTGTTTCAAGAGAAACAGACTCAAAGAT
75455 TT
66 TT
* *
75457 AATTCATTTCAAGGGAAACGATCTCAAAGATATTTGTTTTGTTTCAAGGGAAACAGACTCAAAGA
1 AATTCATTTCAAGGGAAACGATCTCAAAGA-ATTGGTTTTGTTTCAAGAGAAACAGACTCAAAGA
75522 T
65 T
75523 AGGTATTTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
63 15 0.26
64 4 0.07
65 7 0.12
67 1 0.02
68 31 0.53
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (67 bp):
AATTCATTTCAAGGGAAACGATCTCAAAGAATTGGTTTTGTTTCAAGAGAAACAGACTCAAAGAT
TT
Found at i:75508 original size:35 final size:35
Alignment explanation
Indices: 75424--75523 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
75414 CTCAAAGATG
*
75424 GTTTTGTTTCAAGAGAAACAGACTCAAAG--ATTT
1 GTTTTGTTTCAAGGGAAACAGACTCAAAGATATTT
** **
75457 AATTCATTTCAAGGGAAAC-GATCTCAAAGATATTT
1 GTTTTGTTTCAAGGGAAACAGA-CTCAAAGATATTT
75492 GTTTTGTTTCAAGGGAAACAGACTCAAAGATA
1 GTTTTGTTTCAAGGGAAACAGACTCAAAGATA
75524 GGTATTTCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
32 2 0.04
33 21 0.39
35 29 0.54
36 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (35 bp):
GTTTTGTTTCAAGGGAAACAGACTCAAAGATATTT
Found at i:75615 original size:69 final size:68
Alignment explanation
Indices: 75542--75687 Score: 152
Period size: 69 Copynumber: 2.1 Consensus size: 68
75532 ACAAGAAATT
*
75542 ATCTCAAAAGAAACAAAAATCATTTAAAG-GAAAATGATTTCAAAGATGGTTATTATTT-CATGA
1 ATCTCAAAA-AAACAAAAATCATTTAAAGAG-AAATGATCTCAAAGATGGTTATTATTTCCA-GA
75605 GAAACA
63 GAAACA
* * * ** * * *
75611 ATCTCAAGAAAAATAAGATTTGTTTCAAGAGAAATGATCTCAAAGATGGTTGTTATTTCCAGTGA
1 ATCTCAA-AAAAACAAAAATCATTTAAAGAGAAATGATCTCAAAGATGGTTATTATTTCCAGAGA
75676 AACA
65 AACA
*
75680 AACTCAAA
1 ATCTCAAA
75688 GATGATTTTT
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
68 1 0.02
69 58 0.91
70 5 0.08
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (68 bp):
ATCTCAAAAAAACAAAAATCATTTAAAGAGAAATGATCTCAAAGATGGTTATTATTTCCAGAGAA
ACA
Found at i:79516 original size:14 final size:15
Alignment explanation
Indices: 79490--79518 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79480 TAAATGAATG
79490 TTATGCAAAATGCAA
1 TTATGCAAAATGCAA
79505 TTATGC-AAATGCAA
1 TTATGCAAAATGCAA
79519 ATACAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (15 bp):
TTATGCAAAATGCAA
Found at i:84527 original size:2 final size:2
Alignment explanation
Indices: 84522--84558 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
84512 AAAAACTTAT
84522 TA TA TA TA 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 TA TA TA TA T
84559 TATGTAATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.