Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003495.1 Hibiscus syriacus cultivar Beakdansim tig00007391_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: 79919
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Found at i:6719 original size:2 final size:2
Alignment explanation
Indices: 6712--6742 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6702 GGCCTCAAAA
6712 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6743 AGTTTAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7047 original size:25 final size:25
Alignment explanation
Indices: 7019--7070 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
7009 AAGAAATTTC
7019 AAGTCCATAATACGATACTAAATAG
1 AAGTCCATAATACGATACTAAATAG
7044 AAGTCCATAATACGATACTAAATAG
1 AAGTCCATAATACGATACTAAATAG
7069 AA
1 AA
7071 AACAATAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (25 bp):
AAGTCCATAATACGATACTAAATAG
Found at i:7078 original size:25 final size:25
Alignment explanation
Indices: 7025--7079 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
7015 TTTCAAGTCC
** *
7025 ATAATACGATACTAAATAGAAGTCC
1 ATAATACGATACTAAATAGAAAACA
7050 ATAATACGATACTAAATAGAAAACA
1 ATAATACGATACTAAATAGAAAACA
7075 ATAAT
1 ATAAT
7080 CGAAACATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.24
Consensus pattern (25 bp):
ATAATACGATACTAAATAGAAAACA
Found at i:7557 original size:17 final size:17
Alignment explanation
Indices: 7535--7567 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7525 AGGACTGGCC
7535 TGGCCTATTTAAAAGCT
1 TGGCCTATTTAAAAGCT
*
7552 TGGCCTGTTTAAAAGC
1 TGGCCTATTTAAAAGC
7568 ATGTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.33
Consensus pattern (17 bp):
TGGCCTATTTAAAAGCT
Found at i:7775 original size:40 final size:40
Alignment explanation
Indices: 7711--7794 Score: 116
Period size: 41 Copynumber: 2.1 Consensus size: 40
7701 CAAGCTTATA
* *
7711 AGGCTTTTTAATAGGCCTAAGTCTGGCCTGTTTAATTAAAT
1 AGGCTTTTAAAAAGGCCTAAGTCTGGCCT-TTTAATTAAAT
* *
7752 AGGCTTTTAAAAAGGCCT-GGTCTGGCCTTTTTATTAAAT
1 AGGCTTTTAAAAAGGCCTAAGTCTGGCCTTTTAATTAAAT
7791 AGGC
1 AGGC
7795 CAGGCCGTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.36
40 9 0.23
41 16 0.41
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (40 bp):
AGGCTTTTAAAAAGGCCTAAGTCTGGCCTTTTAATTAAAT
Found at i:11965 original size:21 final size:20
Alignment explanation
Indices: 11941--11979 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11931 TATAAAAAAT
11941 TATTTTTATTAATATTTTTGG
1 TATTTTTATTAA-ATTTTTGG
*
11962 TATTTTTATTTAATTTTT
1 TATTTTTATTAAATTTTT
11980 AAATAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TATTTTTATTAAATTTTTGG
Found at i:13798 original size:28 final size:31
Alignment explanation
Indices: 13735--13799 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
13725 GTTAACGACA
* *
13735 AGTGGTTTGATTGACAACAATAAAATAGTTG
1 AGTGGTTTGATTAACAACAATAAAATAATTG
*
13766 AGTGGTTTGATTAACAA-ATTAAAA-AATTG
1 AGTGGTTTGATTAACAACAATAAAATAATTG
13795 -GTGGT
1 AGTGGT
13800 AAAAGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.16
29 4 0.13
30 6 0.19
31 16 0.52
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (31 bp):
AGTGGTTTGATTAACAACAATAAAATAATTG
Found at i:15435 original size:16 final size:18
Alignment explanation
Indices: 15400--15440 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
15390 ACGAAAGGAT
15400 TAATTGAAGAATTATATA
1 TAATTGAAGAATTATATA
15418 TAATTGAAGAATTATATA
1 TAATTGAAGAATTATATA
15436 TAATT
1 TAATT
15441 TTAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (18 bp):
TAATTGAAGAATTATATA
Found at i:18505 original size:46 final size:48
Alignment explanation
Indices: 18432--18553 Score: 124
Period size: 46 Copynumber: 2.6 Consensus size: 48
18422 GTGATTTCAC
* * * * * * *
18432 TGGT-GAGGAGGTGAGTGGTAGTAGTATGGGGGAGGGGGTGAGGGAGA
1 TGGTGGAGGAGGAGAATTGTAGTGGTATGGGAGAGGAGGAGAGGGAGA
* * *
18479 TGGTGGTGG-GGAG-ATTGTAGTGGTATGGGAGAGGAGGAGATGGTGA
1 TGGTGGAGGAGGAGAATTGTAGTGGTATGGGAGAGGAGGAGAGGGAGA
*
18525 TGGTGGAGGAGGGGAATTGTAGTGGTATG
1 TGGTGGAGGAGGAGAATTGTAGTGGTATG
18554 CAGGTGCTGG
Statistics
Matches: 60, Mismatches: 12, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
46 33 0.55
47 10 0.17
48 17 0.28
ACGTcount: A:0.21, C:0.00, G:0.56, T:0.23
Consensus pattern (48 bp):
TGGTGGAGGAGGAGAATTGTAGTGGTATGGGAGAGGAGGAGAGGGAGA
Found at i:18629 original size:48 final size:46
Alignment explanation
Indices: 18577--19085 Score: 157
Period size: 48 Copynumber: 10.7 Consensus size: 46
18567 CTTCACTGGA
*
18577 GGTGGGGGTGACTTGTAGTAGTATGGTGGTGGTAAAGGAGATGGTGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGT--AGGAGATGGTGGT
* * * * * ** *
18625 GGT--GGG-GACTTGTAATGGTAAGTTGGTGCT-GGA-ACTTCTACTGGA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAGA----TGGTGGT
***
18670 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGT-GGAGAATAACCGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAG-AT-GGTGGT
* * *
18717 GGTGGGGGTGATTTGTAGTAGTATGGTGGGGGTGGTGAAGGAGATGGAGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGT---GGTGGT--AGGAGATGGTGGT
* * * * * *
18768 GGT--GGG-GATTTGTAGTAATATGGTGATGG-AGGAAACCGCGATGGA
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAGA-TG-G-TGGT
* * * *
18813 GGTGGGGGTGATTTGTAGTAGTACGGTGGAGGT-GGAGAGTGGGCTGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAGA-T-GG-TGGT
* * * *
18861 GGTGGTGGAGACTTGTAATAATATGGTGGAGG-AGGAGATGACGATGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAGATG--G-TGGT
* * * * ** *** *
18909 GGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCTTGTTTTGGCGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGG-TG---GT-AGGAGATGGTGGT
*
18960 GGTGGTGGG-GACTTGTAGTAGTATGGTGGAGGT-GGAGAATGGACTGGT
1 GGTGG-GGGAGACTTGTAGTAGTATGGTGGTGGTAGGAG-ATGG--TGGT
* * * * * *
19008 GGTGGAGGTGATTTGTAATAGTATGGTGGAGG-AGGAGACAGTGATGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAG--A-TGGTGGT
* * * *
19056 GGTGGAGGTGATTTGTAGTAGTACGGTGGT
1 GGTGGGGGAGACTTGTAGTAGTATGGTGGT
19086 TGCTCTTCGT
Statistics
Matches: 347, Mismatches: 73, Indels: 82
0.69 0.15 0.16
Matches are distributed among these distances:
41 1 0.00
42 8 0.02
43 1 0.00
44 1 0.00
45 36 0.10
46 8 0.02
47 39 0.11
48 193 0.56
49 6 0.02
50 10 0.03
51 32 0.09
52 5 0.01
53 4 0.01
54 3 0.01
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.29
Consensus pattern (46 bp):
GGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTAGGAGATGGTGGT
Found at i:18644 original size:93 final size:93
Alignment explanation
Indices: 18523--18702 Score: 254
Period size: 93 Copynumber: 1.9 Consensus size: 93
18513 AGGAGATGGT
* * ** *
18523 GATGGTGGAGGAGGGGAATTGTAGTGGTATGCAGGTGCTGGGGCCTTC-ACTGGAGGTGGGGGTG
1 GATGGTGGAGGAGGGGAATTGTAATGGTAAGCAGGTGCT-GGAACTTCTACTGGAGGTGGGGGAG
18587 ACTTGTAGTAGTATGGTGGTGGTAAAGGA
65 ACTTGTAGTAGTATGGTGGTGGTAAAGGA
* * * **
18616 GATGGTGGTGGTGGGGACTTGTAATGGTAAGTTGGTGCTGGAACTTCTACTGGAGGTGGGGGAGA
1 GATGGTGGAGGAGGGGAATTGTAATGGTAAGCAGGTGCTGGAACTTCTACTGGAGGTGGGGGAGA
18681 CTTGTAGTAGTATGGTGGTGGT
66 CTTGTAGTAGTATGGTGGTGGT
18703 GGAGAATAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
92 6 0.08
93 70 0.92
ACGTcount: A:0.18, C:0.07, G:0.46, T:0.28
Consensus pattern (93 bp):
GATGGTGGAGGAGGGGAATTGTAATGGTAAGCAGGTGCTGGAACTTCTACTGGAGGTGGGGGAGA
CTTGTAGTAGTATGGTGGTGGTAAAGGA
Found at i:18697 original size:45 final size:44
Alignment explanation
Indices: 18567--18702 Score: 107
Period size: 45 Copynumber: 3.0 Consensus size: 44
18557 GTGCTGGGGC
*
18567 CTTCACTGGAGGTGGGGGTGACTTGTAGTAGTATGGTGGTGGTAA
1 CTTCACTGGAGGTGGGGG-GACTTGTAGTAGTATGGTGCTGGTAA
*** * *
18612 -AGGAGATGGTGGTGGTGGGGACTTGTAATGGTAAGT-TGGTGCTGG-AA
1 CTTCA-CTGGAGGTGG-GGGGACTTGT-A--GT-AGTATGGTGCTGGTAA
*
18659 CTTCTACTGGAGGTGGGGGAGACTTGTAGTAGTATGGTGGTGGT
1 CTTC-ACTGGAGGTGGGGG-GACTTGTAGTAGTATGGTGCTGGT
18703 GGAGAATAAC
Statistics
Matches: 68, Mismatches: 12, Indels: 21
0.67 0.12 0.21
Matches are distributed among these distances:
44 4 0.06
45 25 0.37
46 4 0.06
47 6 0.09
48 25 0.37
49 4 0.06
ACGTcount: A:0.18, C:0.07, G:0.44, T:0.30
Consensus pattern (44 bp):
CTTCACTGGAGGTGGGGGGACTTGTAGTAGTATGGTGCTGGTAA
Found at i:18813 original size:143 final size:140
Alignment explanation
Indices: 18577--18850 Score: 334
Period size: 143 Copynumber: 1.9 Consensus size: 140
18567 CTTCACTGGA
* *
18577 GGTGGGGGTGACTTGTAGTAGTATGGTGGTGGTAAAGGAGATGGTGGTGGTGGGGACTTGTAATG
1 GGTGGGGGTGACTTGTAGTAGTATGGTGGTGGTAAAGGAGATGGAGGTGGTGGGGACTTGTAATA
* * * * ** * * *
18642 GTAAGTTGGTGCTGGAACTTCTACTGGAGGTGGGGGAGACTTGTAGTAGTATGGTGGTGGTGGAG
66 ATAAGGTGATGCAGGAACCGCGACTGGAGGTGGGGGAGACTTGTAGTAGTACGGTGGAGGTGGAG
18707 AATAACCGGT
131 AATAACCGGT
* * *
18717 GGTGGGGGTGATTTGTAGTAGTATGGTGGGGGTGGTGAAGGAGATGGAGGTGGTGGGGATTTGTA
1 GGTGGGGGTGACTTGTAGTAGTATGGT---GGTGGTAAAGGAGATGGAGGTGGTGGGGACTTGTA
* * * * *
18782 GTAATATGGTGATGGAGGAAACCGCGA-TGGAGGTGGGGGTGATTTGTAGTAGTACGGTGGAGGT
63 ATAATAAGGTGATGCAGG-AACCGCGACTGGAGGTGGGGGAGACTTGTAGTAGTACGGTGGAGGT
18846 GGAGA
127 GGAGA
18851 GTGGGCTGGT
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
140 26 0.23
143 80 0.72
144 5 0.05
ACGTcount: A:0.20, C:0.05, G:0.47, T:0.27
Consensus pattern (140 bp):
GGTGGGGGTGACTTGTAGTAGTATGGTGGTGGTAAAGGAGATGGAGGTGGTGGGGACTTGTAATA
ATAAGGTGATGCAGGAACCGCGACTGGAGGTGGGGGAGACTTGTAGTAGTACGGTGGAGGTGGAG
AATAACCGGT
Found at i:18841 original size:96 final size:96
Alignment explanation
Indices: 18717--18931 Score: 256
Period size: 96 Copynumber: 2.2 Consensus size: 96
18707 AATAACCGGT
* * * * *
18717 GGTGGGGGTGATTTGTAGTAGTATGGTGGGGGTGGTGAAG-GAGATGGAGGTGGTGGGGATTTGT
1 GGTGGGGGTGATTTGTAGTAGTACGGTGGAGGTGGAG-AGTGAGATGGAGGTGGTGGAGACTTGT
*
18781 AGTAATATGGT-GATGGAGGAAACCG-CGATGGA
65 AATAATATGGTGGA-GGAGGAAA-CGACGATGGA
* * *
18813 GGTGGGGGTGATTTGTAGTAGTACGGTGGAGGTGGAGAGTGGGCTGGTGGTGGTGGAGACTTGTA
1 GGTGGGGGTGATTTGTAGTAGTACGGTGGAGGTGGAGAGTGAGATGGAGGTGGTGGAGACTTGTA
* * *
18878 ATAATATGGTGGAGGAGGAGATGACGATGGT
66 ATAATATGGTGGAGGAGGAAACGACGATGGA
* *
18909 GGTGGAGGAGATTTGTAGTAGTA
1 GGTGGGGGTGATTTGTAGTAGTA
18932 TGGGGGTTGC
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
95 3 0.03
96 97 0.95
97 2 0.02
ACGTcount: A:0.22, C:0.03, G:0.48, T:0.27
Consensus pattern (96 bp):
GGTGGGGGTGATTTGTAGTAGTACGGTGGAGGTGGAGAGTGAGATGGAGGTGGTGGAGACTTGTA
ATAATATGGTGGAGGAGGAAACGACGATGGA
Found at i:19033 original size:147 final size:146
Alignment explanation
Indices: 18825--19508 Score: 735
Period size: 147 Copynumber: 4.5 Consensus size: 146
18815 TGGGGGTGAT
* * * * *
18825 TTGTAGTAGTACGGTGGAGGTGGAGAGTGGGCTGGTGGTGGTGGAGACTTGTAATAATATGGTGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
* *
18890 AGGAGGAGATGACGATGGTGGTGGAGGAGATTTGTAGTAGTATGGGGGTTGCTCTTCTTGTTTTG
66 AGGAGGAGATGACGATGGTGGTGGAGGAGATTTGTAGTAGTATGGTGGTTGCTCTTCGTGTTTTG
18955 GCGGTGGTGGTGGGGAC
131 G-GGTGGTGGTGGGGAC
* * * *
18972 TTGTAGTAGTATGGTGGAGGTGGAGAATGGACTGGTGGTGGAGGTGATTTGTAATAGTATGGTGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
* * * *
19037 AGGAGGAGA-CAGTGATGGTGGTGGAGGTGATTTGTAGTAGTACGGTGGTTGCTCTTCGTGTTTT
66 AGGAGGAGATGA-CGATGGTGGTGGAGGAGATTTGTAGTAGTATGGTGGTTGCTCTTCGTGTTTT
*
19101 GGTGGTGATGGCGGTGGGGAC
130 -G-GG-G-TGGTGGTGGGGAC
* * * * * *
19122 TTGTAGTAGTATGGTGAAGGTGGAGAGTGTACTGGTGGTGGCGGGGATTTGTAGTAATATGGTGT
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
* * * * *
19187 AGGAGGAGATGGCGATGGTGGGGGAGGAGATTTGTAGTAATATGGAGGTTGTTCTTCGTGTTTTG
66 AGGAGGAGATGACGATGGTGGTGGAGGAGATTTGTAGTAGTATGGTGGTTGCTCTTCGTGTTTTG
*
19252 GTGGTGGAGGTGGGGAC
131 G-GGTGGTGGTGGGGAC
* * * *
19269 TTGTAATAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTACGGAGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
* * * *
19334 AGGAGGTGGTGACTTGTAAACATAGGTGGGGCTTGGTGGTGGTGGAGACTTGTAGTAGTATGGTG
66 AGGA---GGAGA--TG---AC---------G-ATGGTGGTGGAGGAGATTTGTAGTAGTATGGTG
* **
19399 GTTGTTCGACGTGTTTT--GGTGGTGGTGGGGAC
113 GTTGCTCTTCGTGTTTTGGGGTGGTGGTGGGGAC
* * *
19431 TTGTAGTAGTATGGTGGCGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGG
1 TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
*
19496 AGGAGGAGGTGAC
66 AGGAGGAGATGAC
19509 TTGTAAACAT
Statistics
Matches: 453, Mismatches: 59, Indels: 43
0.82 0.11 0.08
Matches are distributed among these distances:
146 1 0.00
147 185 0.41
148 4 0.01
149 4 0.01
150 127 0.28
152 2 0.00
154 2 0.00
155 1 0.00
157 2 0.00
159 3 0.01
162 79 0.17
164 1 0.00
165 42 0.09
ACGTcount: A:0.18, C:0.05, G:0.46, T:0.30
Consensus pattern (146 bp):
TTGTAGTAGTATGGTGGAGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTATGGTGG
AGGAGGAGATGACGATGGTGGTGGAGGAGATTTGTAGTAGTATGGTGGTTGCTCTTCGTGTTTTG
GGGTGGTGGTGGGGAC
Found at i:19183 original size:48 final size:47
Alignment explanation
Indices: 19116--19231 Score: 126
Period size: 48 Copynumber: 2.4 Consensus size: 47
19106 TGATGGCGGT
* * * * *
19116 GGGGACTTGTAGTAGTATGGTGAAGGTGGAGAGTGTAC-TGGTGGTGGC
1 GGGGATTTGTAGTAATATGGTGAAGGAGGAGA-TG-ACATGGTGGGGGA
* *
19164 GGGGATTTGTAGTAATATGGTGTAGGAGGAGATGGCGATGGTGGGGGA
1 GGGGATTTGTAGTAATATGGTGAAGGAGGAGATGAC-ATGGTGGGGGA
*
19212 GGAGATTTGTAGTAATATGG
1 GGGGATTTGTAGTAATATGG
19232 AGGTTGTTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 2 0.03
48 55 0.95
ACGTcount: A:0.22, C:0.03, G:0.47, T:0.28
Consensus pattern (47 bp):
GGGGATTTGTAGTAATATGGTGAAGGAGGAGATGACATGGTGGGGGA
Found at i:19267 original size:99 final size:99
Alignment explanation
Indices: 19154--19333 Score: 222
Period size: 99 Copynumber: 1.8 Consensus size: 99
19144 GAGAGTGTAC
* * *
19154 TGGTGGTGGCGGGGATTTGTAGTAATATGGT-GTAGGAGGAGA-TGG-CGATGGTGGGGGAGGAG
1 TGGTGGAGGCGGGGACTTGTAATAATATGGTGGT-GGAGGAGAGTGGAC--TGGTGGGGGAGGAG
*
19216 ATTTGTAGTAATATGGAGGTTGTTCTTCGTGTTTTGG
63 ATTTGTAGTAATACGGAGGTTGTTCTTCGTGTTTTGG
* * * * *
19253 TGGTGGAGGTGGGGACTTGTAATAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATT
1 TGGTGGAGGCGGGGACTTGTAATAATATGGTGGTGGAGGAGAGTGGACTGGTGGGGGAGGAGATT
*
19318 TGTAGTAGTACGGAGG
66 TGTAGTAATACGGAGG
19334 AGGAGGTGGT
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
99 62 0.91
100 5 0.07
101 1 0.01
ACGTcount: A:0.18, C:0.04, G:0.47, T:0.31
Consensus pattern (99 bp):
TGGTGGAGGCGGGGACTTGTAATAATATGGTGGTGGAGGAGAGTGGACTGGTGGGGGAGGAGATT
TGTAGTAATACGGAGGTTGTTCTTCGTGTTTTGG
Found at i:19437 original size:48 final size:48
Alignment explanation
Indices: 19366--19492 Score: 166
Period size: 48 Copynumber: 2.6 Consensus size: 48
19356 TAGGTGGGGC
* * * **
19366 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGTTGTTCGA-CGTGTT
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGTGG-CGGTCGAGAGTGGA
* *
19414 TTGGTGGTGGTGGGGACTTGTAGTAGTATGGTGGCGGTGGAGAGTGGA
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGCGGTCGAGAGTGGA
*
19462 CTGGTGGTGGTGGAGACTTGTAGTAGTATGG
1 TTGGTGGTGGTGGAGACTTGTAGTAGTATGG
19493 AGGAGGAGGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 4 0.06
48 65 0.94
ACGTcount: A:0.14, C:0.06, G:0.46, T:0.34
Consensus pattern (48 bp):
TTGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGCGGTCGAGAGTGGA
Found at i:19445 original size:24 final size:24
Alignment explanation
Indices: 19418--19492 Score: 57
Period size: 24 Copynumber: 3.1 Consensus size: 24
19408 CGTGTTTTGG
*
19418 TGGTGGTGGGGACTTGTAGTAGTA
1 TGGTGGTGGAGACTTGTAGTAGTA
* * * *
19442 TGGTGGCGGTGGAGA-GTGGACT-G-G
1 TGGT---GGTGGAGACTTGTAGTAGTA
19466 TGGTGGTGGAGACTTGTAGTAGTA
1 TGGTGGTGGAGACTTGTAGTAGTA
19490 TGG
1 TGG
19493 AGGAGGAGGA
Statistics
Matches: 36, Mismatches: 9, Indels: 12
0.63 0.16 0.21
Matches are distributed among these distances:
21 8 0.22
22 4 0.11
23 1 0.03
24 11 0.31
25 1 0.03
26 4 0.11
27 7 0.19
ACGTcount: A:0.16, C:0.05, G:0.49, T:0.29
Consensus pattern (24 bp):
TGGTGGTGGAGACTTGTAGTAGTA
Found at i:19455 original size:162 final size:162
Alignment explanation
Indices: 19202--19603 Score: 581
Period size: 162 Copynumber: 2.5 Consensus size: 162
19192 GAGATGGCGA
* * * * *
19202 TGGTGGGGGAGGAGATTTGTAGTAATATGGAGGTTGTTCTTCGTGTTTTGGTGGTGGAGGTGGGG
1 TGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGTTGTTCTACGTGTTTTGGTGGT---GGTGGGG
* * *
19267 ACTTGTAATAGTATGGTGGTGGTGGAGAGTGGACTGGTGGTGGTGGAGATTTGTAGTAGTACGGA
63 ACTTGTAGTAGTATGGTGGCGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTACGGA
* *
19332 GGAGGAGGTGGTGACTTGTAAACATAGGTGGGGCT
128 GGAGGAGGAGGTGACTTGTAAACATAAGTGGGGCT
* *
19367 TGGTGGTGGTGGAGACTTGTAGTAGTATGGTGGTTGTTCGACGTGTTTTGGTGGTGGTGGGGACT
1 TGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGTTGTTCTACGTGTTTTGGTGGTGGTGGGGACT
*
19432 TGTAGTAGTATGGTGGCGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGA
66 TGTAGTAGTATGGTGGCGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTACGGAGGA
19497 GGAGGAGGTGACTTGTAAACATAAGTGGGGCT
131 GGAGGAGGTGACTTGTAAACATAAGTGGGGCT
* * * * * * *
19529 TGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGATT-CTCTACATGCTTCGGTGGTGGTGGAGAC
1 TGGTGGTGGTGGAGACTTGTAGTAGTATGGAGG-TTGTTCTACGTGTTTTGGTGGTGGTGGGGAC
19593 TTGTAGTAGTA
65 TTGTAGTAGTA
19604 CGGGGGAGGA
Statistics
Matches: 215, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
162 165 0.77
163 2 0.01
165 48 0.22
ACGTcount: A:0.18, C:0.06, G:0.45, T:0.31
Consensus pattern (162 bp):
TGGTGGTGGTGGAGACTTGTAGTAGTATGGAGGTTGTTCTACGTGTTTTGGTGGTGGTGGGGACT
TGTAGTAGTATGGTGGCGGTGGAGAGTGGACTGGTGGTGGTGGAGACTTGTAGTAGTACGGAGGA
GGAGGAGGTGACTTGTAAACATAAGTGGGGCT
Found at i:19532 original size:114 final size:114
Alignment explanation
Indices: 19414--19663 Score: 319
Period size: 114 Copynumber: 2.2 Consensus size: 114
19404 TCGACGTGTT
* * * *
19414 TTGGTGGTGGTGGGGACTTGTAGTAGTATGGTGG-CGGTGGAGAGTGGAC-T-GGTGGTGGTGGA
1 TTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGACGCTCGACA-T-G-CTTCGGTGGTGGTGGA
* *
19476 GACTTGTAGTAGTATGGAGGAGGAGGAGGTGACTTGTAAACATAAGTGGG-G
63 GACTTGTAGTAGTACGGAGGAGGAGGAGGAGACTTGTAAACATAAGTGGGTG
** *
19527 CTTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGATTCTCTACATGCTTCGGTGGTGGTGGAGA
1 -TTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGACGCTCGACATGCTTCGGTGGTGGTGGAGA
* * *
19592 CTTGTAGTAGTACGGGGGAGGAGGTGGAGACTTGTAAACATAGGTGGGTG
65 CTTGTAGTAGTACGGAGGAGGAGGAGGAGACTTGTAAACATAAGTGGGTG
*
19642 TTGGTGGTGGTGGTGACTTGTA
1 TTGGTGGTGGTGGGGACTTGTA
19664 AACGTATATG
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
112 1 0.01
113 2 0.02
114 112 0.94
115 4 0.03
ACGTcount: A:0.18, C:0.07, G:0.46, T:0.29
Consensus pattern (114 bp):
TTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGACGCTCGACATGCTTCGGTGGTGGTGGAGAC
TTGTAGTAGTACGGAGGAGGAGGAGGAGACTTGTAAACATAAGTGGGTG
Found at i:19660 original size:36 final size:36
Alignment explanation
Indices: 19614--19699 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
19604 CGGGGGAGGA
*
19614 GGTGGAGACTTGTAAACATAGGTGGGTG-TTGGTGGT
1 GGTGGAGACTTGTAAACATAGATGGG-GCTTGGTGGT
* * *
19650 GGTGGTGACTTGTAAACGTATATGGGGCTTGGTGGT
1 GGTGGAGACTTGTAAACATAGATGGGGCTTGGTGGT
*
19686 GGTGGGGACTTGTA
1 GGTGGAGACTTGTA
19700 GTAGTACGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 1 0.02
36 43 0.98
ACGTcount: A:0.17, C:0.07, G:0.44, T:0.31
Consensus pattern (36 bp):
GGTGGAGACTTGTAAACATAGATGGGGCTTGGTGGT
Found at i:19735 original size:150 final size:150
Alignment explanation
Indices: 19503--20113 Score: 936
Period size: 150 Copynumber: 4.1 Consensus size: 150
19493 AGGAGGAGGA
* *
19503 GGTGACTTGTAAACATA-AGTGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTATGGGGGATTCT
1 GGTGACTTGTAAACGTATA-TGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCT
* *
19567 CTACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGGGGAGGAGGTGGAGACTTGTAAACA
65 CTACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGTGGAGGAGGTGGTGACTTGTAAACA
19632 TAGGTGGGTGTTGGTGGTGGT
130 TAGGTGGGTGTTGGTGGTGGT
19653 GGTGACTTGTAAACGTATATGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCTC
1 GGTGACTTGTAAACGTATATGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCTC
* * *
19718 TACATGCTTCGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGAGGTGGTGACTTGTAAACAT
66 TACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGTGGAGGAGGTGGTGACTTGTAAACAT
*
19783 AGGTAGGTGTTGGTGGTGGT
131 AGGTGGGTGTTGGTGGTGGT
* * * *
19803 GGTGACTTGTAAATGTATGTGGGGCTTGGTGGTGGTGGGGATTTGTAGTAGTACGGGGGAATCTC
1 GGTGACTTGTAAACGTATATGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCTC
* * *
19868 TACATGCTTCGGTGGTGGTGGAGATTTGTAGTAGTATGGTGGTGGAGGTGGTGACTTGTAAACAT
66 TACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGTGGAGGAGGTGGTGACTTGTAAACAT
* *
19933 AGGTGGGCGTCGGTGGTGGT
131 AGGTGGGTGTTGGTGGTGGT
* * * * * *
19953 GGTGACTTGTAAACGTAAATGGGACTCGGTGGTGGTGGAGACTTGTAGTAGTACGGGGGGTTCAC
1 GGTGACTTGTAAACGTATATGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCTC
* * *
20018 AACATGCTTCGGTGGTGGTGGAGACTTGTAGTAATACGGCGGAGGAGGTGGTGACTTGTAAACAT
66 TACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGTGGAGGAGGTGGTGACTTGTAAACAT
**
20083 AGGTGGGACTTGGTGGTGGT
131 AGGTGGGTGTTGGTGGTGGT
**
20103 GAAGACTTGTA
1 GGTGACTTGTA
20114 TACATAAGTA
Statistics
Matches: 424, Mismatches: 36, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
150 423 1.00
151 1 0.00
ACGTcount: A:0.19, C:0.09, G:0.42, T:0.30
Consensus pattern (150 bp):
GGTGACTTGTAAACGTATATGGGGCTTGGTGGTGGTGGGGACTTGTAGTAGTACGGGGGATTCTC
TACATGCTTCGGTGGTGGTGGAGACTTGTAGTAGTACGGTGGAGGAGGTGGTGACTTGTAAACAT
AGGTGGGTGTTGGTGGTGGT
Found at i:19832 original size:36 final size:36
Alignment explanation
Indices: 19757--19849 Score: 107
Period size: 36 Copynumber: 2.6 Consensus size: 36
19747 AGTAGTATGG
* *
19757 TGGTGGAGGTGGTGACTTGTAAACATAGGTAGGTGT
1 TGGTGGTGGTGGTGACTTGTAAACATAGGTAGGGGT
** *
19793 TGGTGGTGGTGGTGACTTGTAAATGTATGT-GGGGCT
1 TGGTGGTGGTGGTGACTTGTAAACATAGGTAGGGG-T
* *
19829 TGGTGGTGGTGGGGATTTGTA
1 TGGTGGTGGTGGTGACTTGTA
19850 GTAGTACGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
35 3 0.06
36 46 0.94
ACGTcount: A:0.16, C:0.04, G:0.45, T:0.34
Consensus pattern (36 bp):
TGGTGGTGGTGGTGACTTGTAAACATAGGTAGGGGT
Found at i:19948 original size:36 final size:36
Alignment explanation
Indices: 19908--19999 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
19898 GTAGTATGGT
* **
19908 GGTGGAGGTGGTGACTTGTAAACATAGGTGGG-CGTC
1 GGTGGTGGTGGTGACTTGTAAACATAAATGGGAC-TC
*
19944 GGTGGTGGTGGTGACTTGTAAACGTAAATGGGACTC
1 GGTGGTGGTGGTGACTTGTAAACATAAATGGGACTC
*
19980 GGTGGTGGTGGAGACTTGTA
1 GGTGGTGGTGGTGACTTGTA
20000 GTAGTACGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
36 49 0.98
37 1 0.02
ACGTcount: A:0.20, C:0.10, G:0.43, T:0.27
Consensus pattern (36 bp):
GGTGGTGGTGGTGACTTGTAAACATAAATGGGACTC
Found at i:21360 original size:51 final size:49
Alignment explanation
Indices: 21284--21562 Score: 165
Period size: 51 Copynumber: 5.6 Consensus size: 49
21274 TTTCACCGGT
* * *
21284 GGTGGTGGAGACTTGTAGTAGTATGGAGGTTGCTCTTCGTGCTTTGGTGGC
1 GGTGGTGGAGACTTGTA-TAATATGGAGGTTGCTCCTCGTG-TTTGATGGC
* ** * *
21335 GGTGGTGGAGACTTGTATACATATGGAGG-TGGT-GGCGATG-GTGAAGGC
1 GGTGGTGGAGACTTGTATA-ATATGGAGGTTGCTCCTCG-TGTTTGATGGC
* * * * *
21383 GGTGGTGGAGACTTGTAATAGTATGGGGGCTGCTCCTCGTGTTTCGTTGGT
1 GGTGGTGGAGACTTGT-ATAATATGGAGGTTGCTCCTCGTGTTT-GATGGC
* * *** * * *
21434 GGTGGTGGAGACTTGTAGACATATGGAGG-TGAT-GGGGATG-GTGAAGGT
1 GGTGGTGGAGACTTGTATA-ATATGGAGGTTGCTCCTCG-TGTTTGATGGC
* * * * * *
21482 GGTGGTGGAGATTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGT
1 GGTGGTGGAGACTTGTA-TAATATGGAGGTTGCTCCTCGTGTTT-GATGGC
*
21533 GGTGGTGGAGACTTGTAGACATATGGAGGT
1 GGTGGTGGAGACTTGTATA-ATATGGAGGT
21563 GATGGGGATG
Statistics
Matches: 171, Mismatches: 42, Indels: 30
0.70 0.17 0.12
Matches are distributed among these distances:
48 55 0.32
49 18 0.11
50 20 0.12
51 78 0.46
ACGTcount: A:0.16, C:0.10, G:0.43, T:0.31
Consensus pattern (49 bp):
GGTGGTGGAGACTTGTATAATATGGAGGTTGCTCCTCGTGTTTGATGGC
Found at i:21390 original size:99 final size:99
Alignment explanation
Indices: 21281--22470 Score: 1432
Period size: 99 Copynumber: 12.1 Consensus size: 99
21271 AGATTTCACC
* * * *
21281 GGTGGTGGTGGAGACTTGTAGTAGTATGGAGGTTGCTCTTCGTGCTTT-GGTGGCGGTGGTGGAG
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTG-TTTCGGTGGTGGTGGTGGAG
* * *
21345 ACTTGTATACATATGGAGGTGGTGGCGATGGTGAA
65 ACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
21380 GGCGGTGGTGGAGACTTGTAATAGTATGGGGGCTGCTCCTCGTGTTTCGTTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
21445 CTTGTAGACATATGGAGGTGATGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
*
21479 GGTGGTGGTGGAGATTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
21544 CTTGTAGACATATGGAGGTGATGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * * *
21578 GGTGGTGGTGGAGATTTGTAGTAGTATGGGGGCTGCTCCTCATGTTTCGGTGGAGGAGGAGGGGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
21643 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * *
21677 GGTGGTGGAGGAGACTTGTAGTAATATGGAGGCTGCTCTTCATGTTTCGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* * **
21742 TTTATAGATATATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * *
21776 GGTGGTGGTGGGGACTTGTAGTAATACGGGGGCTGTTCCTCGTGTTTAGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
*
21841 CTTGTAGACGTATGTAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
21875 GGTGGTGGAGGAGACTTGTAGTAGTATGGAGGCTGCT-CTACATGTTTCGGTGGTGGTGGTGGAG
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCT-CGTGTTTCGGTGGTGGTGGTGGAG
* * *
21939 ATTTATAGACGTATGGAGGTGGCGGGGATGGTGAA
65 ACTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * *
21974 GGTGGTGGTGGGGACTTGTAGTAGTACGGAGGCTGCTCCTCGTGTTTAGGTGGTGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
22039 CTTATAGACGTATGGAGGTGGCGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * *
22073 GGTGGTGGAGGAGACTTGTAGTAGTAGGGGGGCTGCTCCTCGTGTTTAGGTGGTGGTGGCGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* *
22138 TTTATAGACGTATGGAGGTGGTGGGGATGGTGAA
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * *
22172 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGTTGCTCCTTGTGTTTCGGTGGAGGTGGTGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* * * * *
22237 TTTGTAGACGTATGGAGGTGGAGGAGAAGGTGAT
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
* * * * * * * *
22271 GGTGGTGGTGGAGATTTATAATAGTA---CGGTTTCTCCTCGTGCTT---TGGTGGTGGAGGAGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
* ** * * *
22330 CTTGCACTCGTAAGGAGGTGG-GGGAGAAGGTGAT
66 CTTGTAGACGTATGGAGGTGGTGGG-GATGGTGAA
* * * * * * * * *
22364 GGTGGTGGTGGGGACTTATAATAATAT---GGCTTCTCTTCGTGTTTTGGTGGTGGTGGAGGGGA
1 GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
** * * * * * *
22426 CTTGTACTCATAAGGAGGTGGTGGAGAAGGCGAT
66 CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
22460 GGTGGTGGTGG
1 GGTGGTGGTGG
22471 TGGTGGAGAT
Statistics
Matches: 972, Mismatches: 110, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.00
93 75 0.08
96 66 0.07
97 2 0.00
98 5 0.01
99 820 0.84
100 2 0.00
ACGTcount: A:0.17, C:0.08, G:0.45, T:0.29
Consensus pattern (99 bp):
GGTGGTGGTGGAGACTTGTAGTAGTATGGGGGCTGCTCCTCGTGTTTCGGTGGTGGTGGTGGAGA
CTTGTAGACGTATGGAGGTGGTGGGGATGGTGAA
Found at i:22356 original size:93 final size:95
Alignment explanation
Indices: 22245--22470 Score: 303
Period size: 93 Copynumber: 2.4 Consensus size: 95
22235 GATTTGTAGA
* * * *
22245 CGTATGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGATTTATAATAGTACGGTTTCTCCTCG
1 CGTAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGACTTATAATAATACGGCTTCTCCTCG
22310 TG-CTT-TGGTGGTGGAGGAGACTTGCACT
66 TGTCTTGTGGTGGTGGAGGAGACTTGCACT
* * * *
22338 CGTAAGGAGGTGGGGGAGAAGGTGATGGTGGTGGTGGGGACTTATAATAATATGGCTTCTCTTCG
1 CGTAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGACTTATAATAATACGGCTTCTCCTCG
* * *
22403 TGTTTTGGTGGTGGTGGAGGGGACTTGTACT
66 TGTCTT-GTGGTGGTGGAGGAGACTTGCACT
* * *
22434 CATAAGGAGGTGGTGGAGAAGGCGATGGTGGTGGTGG
1 CGTAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGG
22471 TGGTGGAGAT
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
93 59 0.51
94 2 0.02
96 55 0.47
ACGTcount: A:0.19, C:0.09, G:0.43, T:0.29
Consensus pattern (95 bp):
CGTAAGGAGGTGGAGGAGAAGGTGATGGTGGTGGTGGAGACTTATAATAATACGGCTTCTCCTCG
TGTCTTGTGGTGGTGGAGGAGACTTGCACT
Found at i:22463 original size:48 final size:49
Alignment explanation
Indices: 22410--22545 Score: 130
Period size: 54 Copynumber: 2.7 Consensus size: 49
22400 TCGTGTTTTG
* * *
22410 GTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGA
1 GTGGTGGTGGAGGGGATTTGTACTCATAAGGAGGCGGTGGAGAAGGAGA
* * * *
22459 TGGTGGTGGTGGTGGTGGAGATTTATACACATAAGGCGGCGGTGGAGAAGGAGA
1 --GTGGTGGTGG-AG-GG-GATTTGTACTCATAAGGAGGCGGTGGAGAAGGAGA
* * *
22513 -AGGTGGTGGTGGTGATTTGTACTCATAAGGAGG
1 GTGGTGGTGGAGGGGATTTGTACTCATAAGGAGG
22546 AGGAGGCGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
48 17 0.25
49 1 0.01
50 1 0.01
51 18 0.26
52 1 0.01
53 2 0.03
54 29 0.42
ACGTcount: A:0.23, C:0.07, G:0.46, T:0.24
Consensus pattern (49 bp):
GTGGTGGTGGAGGGGATTTGTACTCATAAGGAGGCGGTGGAGAAGGAGA
Found at i:22492 original size:54 final size:54
Alignment explanation
Indices: 22408--22526 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
22398 CTTCGTGTTT
* * * * * *
22408 TGGTGGTGGTGGAGGGGACTTGTACTCATAAGGAGGTGGTGGAGAAGGCGATGG
1 TGGTGGTGGTGGAGGAGACTTATACACATAAGGAGGCGGTGGAGAAGGAGAAGG
* * *
22462 TGGTGGTGGTGGTGGAGATTTATACACATAAGGCGGCGGTGGAGAAGGAGAAGG
1 TGGTGGTGGTGGAGGAGACTTATACACATAAGGAGGCGGTGGAGAAGGAGAAGG
22516 TGGTGGTGGTG
1 TGGTGGTGGTG
22527 ATTTGTACTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.21, C:0.07, G:0.50, T:0.23
Consensus pattern (54 bp):
TGGTGGTGGTGGAGGAGACTTATACACATAAGGAGGCGGTGGAGAAGGAGAAGG
Found at i:22931 original size:24 final size:22
Alignment explanation
Indices: 22891--22935 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22881 ATTAATTTCA
*
22891 ATTATATTAATATAATAATATT
1 ATTATATAAATATAATAATATT
22913 ATTATATAAATATGAAATAATAT
1 ATTATATAAATAT--AATAATAT
22936 AGTGATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATATAAATATAATAATATT
Found at i:24285 original size:2 final size:2
Alignment explanation
Indices: 24278--24311 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
24268 TTGTTTTTCA
24278 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
24312 TATTGATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24824 original size:21 final size:20
Alignment explanation
Indices: 24783--24825 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
24773 TTTTCGTCGT
* *
24783 TGACAGTTACGGTGTTGACA
1 TGACAGTTACGGTGCTAACA
24803 TGACAGTTCACGGTGCTAACA
1 TGACAGTT-ACGGTGCTAACA
24824 TG
1 TG
24826 GTGATCCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TGACAGTTACGGTGCTAACA
Found at i:27606 original size:11 final size:11
Alignment explanation
Indices: 27590--27614 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27580 TAATTTAAAA
27590 TATTAAAATTT
1 TATTAAAATTT
27601 TATTAAAATTT
1 TATTAAAATTT
27612 TAT
1 TAT
27615 AAATTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTAAAATTT
Found at i:27606 original size:19 final size:20
Alignment explanation
Indices: 27584--27621 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
27574 TATTATTAAT
27584 TTAAAATATTA-AAATTTTA
1 TTAAAATATTATAAATTTTA
*
27603 TTAAAATTTTATAAATTTT
1 TTAAAATATTATAAATTTT
27622 GTGACCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATATTATAAATTTTA
Found at i:28217 original size:2 final size:2
Alignment explanation
Indices: 28210--28235 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
28200 CGTACAATGT
28210 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
28236 ACAATGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28466 original size:2 final size:2
Alignment explanation
Indices: 28459--28489 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28449 AAGTGGATCT
28459 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
28490 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:30877 original size:22 final size:22
Alignment explanation
Indices: 30849--30908 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
30839 GAGTCTACGC
30849 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
*
30871 GGTCCTTCAGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
*
30893 GGTCATTCGGGACAAA
1 GGTCCTTCGGGACAAA
30909 GTTCATATGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACATA
Found at i:30922 original size:23 final size:22
Alignment explanation
Indices: 30854--30923 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
30844 TACGCGGTCC
30854 TTCGGGACAAATACATAGGTCC-
1 TTCGGGACAAATACATAGG-CCA
* *
30876 TTCAGGACAAATACATAGGTCA
1 TTCGGGACAAATACATAGGCCA
* *
30898 TTCGGGACAAAGTTCATATGCCA
1 TTCGGGACAAA-TACATAGGCCA
30921 TTC
1 TTC
30924 AGTGGGACTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.70
23 11 0.28
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (22 bp):
TTCGGGACAAATACATAGGCCA
Found at i:31053 original size:2 final size:2
Alignment explanation
Indices: 31046--31071 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31036 AATGTACATA
31046 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
31072 GATGTGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31257 original size:2 final size:2
Alignment explanation
Indices: 31250--31284 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31240 ATAGTGATTG
31250 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 T
31285 GCATGTATGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33021 original size:2 final size:2
Alignment explanation
Indices: 33014--33064 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
33004 TAGATTCGGC
33014 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
33056 AT AT AT AT A
1 AT AT AT AT A
33065 AACGGTAAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36529 original size:4 final size:4
Alignment explanation
Indices: 36520--36550 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
36510 TGATATAGAA
36520 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
36551 AGCCAGATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:37356 original size:2 final size:2
Alignment explanation
Indices: 37351--37386 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
37341 TTTGTGTGTG
37351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37387 TTTTAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:41775 original size:29 final size:30
Alignment explanation
Indices: 41713--41775 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
41703 GTCCCTCGAG
** *
41713 TATTAAAATTTACAAAAATGATCACTTGAC
1 TATTAAAATTTACAAAAATGATCACCCGAA
41743 TATTAAAATTTAC-AAAATGATCACCCGAA
1 TATTAAAATTTACAAAAATGATCACCCGAA
41772 TATT
1 TATT
41776 CATTATGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.33
Consensus pattern (30 bp):
TATTAAAATTTACAAAAATGATCACCCGAA
Found at i:43189 original size:22 final size:22
Alignment explanation
Indices: 43148--43211 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
43138 TAAGACAACT
*
43148 GTGTTGAACCCGGGTCTAGCTC-
1 GTGTTGAACCCGGGTTTAGC-CA
* *
43170 GTGTTAAACCCGAGTTTAGCCA
1 GTGTTGAACCCGGGTTTAGCCA
*
43192 GTGTCGAACCCGGGTTTAGC
1 GTGTTGAACCCGGGTTTAGC
43212 AAGTCTAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.27
Consensus pattern (22 bp):
GTGTTGAACCCGGGTTTAGCCA
Found at i:53967 original size:20 final size:19
Alignment explanation
Indices: 53920--53979 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
53910 TTTATATAAA
*
53920 AATTAAATATTTTATAATT
1 AATTAAATAATTTATAATT
** *
53939 CAAAAAAATAGTTTATAATT
1 -AATTAAATAATTTATAATT
*
53959 AATTTAAATAATATATAATT
1 AA-TTAAATAATTTATAATT
53979 A
1 A
53980 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATTAAATAATTTATAATT
Found at i:54240 original size:186 final size:185
Alignment explanation
Indices: 53912--54302 Score: 622
Period size: 186 Copynumber: 2.1 Consensus size: 185
53902 TTTTTTAATT
* * * *
53912 TATATAA-AAATTAAATATTTTATAATTCAAAAAAATAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAATAATTTACAATTAATTTAAATAATATATA
* *
53976 ATTATAAAATAAAAATTTTATATAAACTTTTTAATTAATTAATATTGATTTATGTTTAAAAGTTA
66 ATTATAAAATAAAAATTTTATATAAACTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
*
54041 TTGGATATTAAATTATTAATTGGGTTTTAAATAGTTTGGGCTAAGTCCATATGTTA
131 TTGGATATTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTAAG-CCATATGTTA
* *
54097 TATATAATATATTTAATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAATAATTTACAATTAATTTAAATAATATATA
* *
54162 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTAATTTAGGTTTAAAGGTTA
66 ATTATAAAATAAAAATTTTATATAAACTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
* * * *
54227 TTGGATCTTAAATTATTAATTGAGTTTTAAATGGTTTGGGTTGAGCCATATGTTA
131 TTGGATATTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTAAGCCATATGTTA
*
54282 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
54303 AAAATTTTAT
Statistics
Matches: 189, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
185 37 0.20
186 152 0.80
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAAATAATTTACAATTAATTTAAATAATATATA
ATTATAAAATAAAAATTTTATATAAACTTTTTAATTAATTAATATTAATTTAGGTTTAAAAGTTA
TTGGATATTAAATTATTAATTGAGTTTTAAATAGTTTGGGCTAAGCCATATGTTA
Found at i:54952 original size:11 final size:11
Alignment explanation
Indices: 54936--54973 Score: 76
Period size: 11 Copynumber: 3.5 Consensus size: 11
54926 AGCTAATATG
54936 TCTTGTCCATA
1 TCTTGTCCATA
54947 TCTTGTCCATA
1 TCTTGTCCATA
54958 TCTTGTCCATA
1 TCTTGTCCATA
54969 TCTTG
1 TCTTG
54974 AGATATATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.16, C:0.26, G:0.11, T:0.47
Consensus pattern (11 bp):
TCTTGTCCATA
Found at i:60935 original size:18 final size:18
Alignment explanation
Indices: 60912--60950 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60902 ACCATAAACA
*
60912 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AATAAAAT
60930 GAATAAAGTGAATAAAAT
1 GAATAAAGTGAATAAAAT
60948 GAA
1 GAA
60951 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GAATAAAGTGAATAAAAT
Found at i:61146 original size:35 final size:34
Alignment explanation
Indices: 60999--61230 Score: 146
Period size: 36 Copynumber: 6.7 Consensus size: 34
60989 ATATATCCCA
*
60999 AAAAAT-ATTTTTTAAACTATATATTAT-A-TTT-
1 AAAAATGA-TTTTAAAACTATATATTATAATTTTC
* *
61030 AAAAATG-TTTTCAAAACTATATACCATATAGTTTTC
1 AAAAATGATTTT-AAAACTATATA--TTATAATTTTC
* *
61066 AAAAATGATTTTAAAAATAT-TA-TATGAGTTTTC
1 AAAAATGATTTTAAAACTATATATTAT-AATTTTC
*
61099 CAAAAT-ATTTTTAAAACTATATATTATAAAATTTTC
1 AAAAATGA-TTTTAAAACTATATATTAT--AATTTTC
*
61135 AAAAATG-TTTTATTTTAAACTATACATTAT-ATTTTC
1 AAAAATGATTTTA----AAACTATATATTATAATTTTC
* * *
61171 -AAAATGATTTCAAAAATATATGTTATATAATTTTC
1 AAAAATGATTTTAAAACTATAT-AT-TATAATTTTC
*
61206 -AAAATGTTTTTAAAACTTATATATT
1 AAAAATGATTTTAAAAC-TATATATT
61231 GTATATAAGT
Statistics
Matches: 160, Mismatches: 18, Indels: 43
0.72 0.08 0.19
Matches are distributed among these distances:
30 4 0.03
31 16 0.10
32 11 0.07
33 27 0.17
34 6 0.04
35 39 0.24
36 40 0.25
37 4 0.03
39 13 0.08
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (34 bp):
AAAAATGATTTTAAAACTATATATTATAATTTTC
Found at i:61203 original size:71 final size:70
Alignment explanation
Indices: 61008--61215 Score: 198
Period size: 69 Copynumber: 3.0 Consensus size: 70
60998 AAAAAATATT
* * ** *
61008 TTTTAAACTATATATTATA-TTTAAAAATGTTTTCAAAACTATATACCATATAGTTTTCAAAAAT
1 TTTTAAACTATA-ATTATATTTTCAAAATGATTTCAAAACTATATATTATATAATTTTCAAAAAT
61072 G----A
65 GTTTTA
* * * *
61074 TTTTAAA-AATATTATATGAGTTTTCCAAAAT-ATTTTTAAAACTATATATTATAAAATTTTCAA
1 TTTTAAACTATAAT-TAT-A-TTTT-CAAAATGA-TTTCAAAACTATATATTATATAATTTTCAA
61137 AAATGTTTTA
61 AAATGTTTTA
* *
61147 TTTTAAACTATACATTATATTTTCAAAATGATTTCAAAAATATATGTTATATAATTTTC-AAAAT
1 TTTTAAACTATA-ATTATATTTTCAAAATGATTTCAAAACTATATATTATATAATTTTCAAAAAT
61211 GTTTT
65 GTTTT
61216 TAAAACTTAT
Statistics
Matches: 114, Mismatches: 15, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
64 1 0.01
65 6 0.05
66 8 0.07
68 3 0.03
69 35 0.31
70 10 0.09
71 30 0.26
72 5 0.04
73 9 0.08
74 6 0.05
75 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (70 bp):
TTTTAAACTATAATTATATTTTCAAAATGATTTCAAAACTATATATTATATAATTTTCAAAAATG
TTTTA
Found at i:61288 original size:39 final size:38
Alignment explanation
Indices: 61182--61289 Score: 103
Period size: 39 Copynumber: 2.8 Consensus size: 38
61172 AAATGATTTC
* * *
61182 AAAAATATATGTTATATA-ATTTTCA-AAATGTTTTTA
1 AAAAAAATATATTATATATATTTTCAGAAACGTTTTTA
*** * *
61218 AAACTTATATATTGTATATAAGTTTTTAGAAACGTTTTTA
1 AAAAAAATATATTATATAT-A-TTTTCAGAAACGTTTTTA
61258 AAAAAAACTATATTATATATATTTTCAGAAAC
1 AAAAAAA-TATATTATATATATTTTCAGAAAC
61290 CATTTTTTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
36 14 0.25
38 1 0.02
39 15 0.27
40 15 0.27
41 11 0.20
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (38 bp):
AAAAAAATATATTATATATATTTTCAGAAACGTTTTTA
Found at i:62216 original size:106 final size:106
Alignment explanation
Indices: 62031--62932 Score: 1599
Period size: 106 Copynumber: 8.5 Consensus size: 106
62021 TATTGTTTCA
* * * * * * *
62031 AGTCCAACATCCTCCGTCGTGAAGTTGAAATTGGCTTTGGAACTGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62096 CAGTC-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
62137 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
62202 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
62243 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAATTATTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62308 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
62349 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTTTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
62414 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
62455 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62520 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTCG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
62561 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62626 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
62667 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62732 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
62773 AGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
*
62838 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
62879 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTGT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGT
62933 AATTTACTCT
Statistics
Matches: 771, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
105 1 0.00
106 770 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:66802 original size:11 final size:11
Alignment explanation
Indices: 66786--66814 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
66776 TAGGGGGACC
66786 AAAAAAAAATA
1 AAAAAAAAATA
66797 AAAAAAAAATA
1 AAAAAAAAATA
66808 AAAAAAA
1 AAAAAAA
66815 TGGAATTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:68067 original size:18 final size:18
Alignment explanation
Indices: 68044--68082 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
68034 ACCATAAACA
*
68044 GAATAAA-TGAAATTAAAT
1 GAATAAAGTG-AATAAAAT
68062 GAATAAAGTGAATAAAAT
1 GAATAAAGTGAATAAAAT
68080 GAA
1 GAA
68083 AAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (18 bp):
GAATAAAGTGAATAAAAT
Found at i:68202 original size:36 final size:34
Alignment explanation
Indices: 68139--68362 Score: 141
Period size: 36 Copynumber: 6.5 Consensus size: 34
68129 CAAAAAATAT
*
68139 TTTTTAAACTATATAT-TAT-A-TTT-AAAAATG
1 TTTTAAAACTATATATATATAATTTTCAAAAATG
* *
68169 TTTTCAAAACTATATACCATATAGTTTTCAAAAATG
1 TTTT-AAAACTATATA-TATATAATTTTCAAAAATG
* *
68205 ATTTTAAAA--ATAT-TATATGAGTTTTCCAAATAT-
1 -TTTTAAAACTATATATATAT-AATTTT-CAAAAATG
68238 TTTTAAAACTATATATTATATAAAATTTTCAAAAATG
1 TTTTAAAACTATATA-TATAT--AATTTTCAAAAATG
*
68275 TTTTATTTTAAACTATACAT-TAT-ATTTTC-AAAATG
1 TTTTA----AAACTATATATATATAATTTTCAAAAATG
* * *
68310 ATTTCAAAAATATATGTTATATAATTTTC-AAAATG
1 -TTTTAAAACTATAT-ATATATAATTTTCAAAAATG
68345 TTTTTAAAACT-TATATAT
1 -TTTTAAAACTATATATAT
68363 TGTATATAAG
Statistics
Matches: 154, Mismatches: 17, Indels: 43
0.72 0.08 0.20
Matches are distributed among these distances:
30 4 0.03
31 10 0.06
32 19 0.12
33 13 0.08
34 20 0.13
35 29 0.19
36 32 0.21
37 14 0.09
39 3 0.02
40 1 0.01
41 9 0.06
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (34 bp):
TTTTAAAACTATATATATATAATTTTCAAAAATG
Found at i:68407 original size:109 final size:105
Alignment explanation
Indices: 68188--68408 Score: 225
Period size: 109 Copynumber: 2.0 Consensus size: 105
68178 CTATATACCA
* * *
68188 TATAGTTTTCAAAAATGATTTTAAAAATATTATATGAGTTTTCCAAATATTTTTAAAACTATATA
1 TATA-TTTTCAAAAATGATTTAAAAAATATTATATGAATTTTCAAAATATTTTTAAAACTATATA
* **
68253 TTATATAAAATTTTCAAAAATGTTTTATTTTAAACTATACAT
65 TTATATAAAATTTTCAAAAACGTTTTATTAAAAACTATA-AT
*
68295 TATATTTTC-AAAATGATTTCAAAAATATATGTTATAT-AATTTTCAAAATGTTTTTAAAACTTA
1 TATATTTTCAAAAATGATTT-AAAAA-ATA--TTATATGAATTTTCAAAATATTTTTAAAAC-TA
* * * *
68358 TATATTGTATATAAGTTTTTAGAAACGTTTT-TTAAAAAAACTAT-AT
61 TATATTATATA-AAATTTTCAAAAACGTTTTATT--AAAAACTATAAT
68404 TATAT
1 TATAT
68409 ATATATTTTC
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
105 10 0.11
106 9 0.09
107 7 0.07
108 20 0.21
109 27 0.28
110 15 0.16
111 7 0.07
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (105 bp):
TATATTTTCAAAAATGATTTAAAAAATATTATATGAATTTTCAAAATATTTTTAAAACTATATAT
TATATAAAATTTTCAAAAACGTTTTATTAAAAACTATAAT
Done.