Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 87 of 106
Found at i:17575163 original size:67 final size:67
Alignment explanation
Indices: 17575086--17575220 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
17575076 TTATCAAGAG
17575086 AAAGAAAAGTTCAAACTAAACCAATTCAAATTAAACTGTACACCAAGAAACAAGAAATGTGCGTG
1 AAAGAAAAGTTCAAACTAAACCAATTCAAATTAAACTGTACACCAAGAAACAAGAAATGTGCGTG
17575151 TT
66 TT
*
17575153 AAAGAAAAGTTCAAACTAAACCAATTTAAATTAAACTGTACACCAAGAAACAAGAAATGTGCGTG
1 AAAGAAAAGTTCAAACTAAACCAATTCAAATTAAACTGTACACCAAGAAACAAGAAATGTGCGTG
17575218 TT
66 TT
17575220 A
1 A
17575221 CCTTTCCTTG
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.50, C:0.16, G:0.13, T:0.21
Consensus pattern (67 bp):
AAAGAAAAGTTCAAACTAAACCAATTCAAATTAAACTGTACACCAAGAAACAAGAAATGTGCGTG
TT
Found at i:17575455 original size:6 final size:6
Alignment explanation
Indices: 17575444--17575468 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17575434 ATAAGAAGGC
17575444 CAGCAA CAGCAA CAGCAA CAGCAA C
1 CAGCAA CAGCAA CAGCAA CAGCAA C
17575469 TACTATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.16, T:0.00
Consensus pattern (6 bp):
CAGCAA
Found at i:17586853 original size:2 final size:2
Alignment explanation
Indices: 17586846--17586887 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
17586836 AAAAGGGGAA
17586846 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
17586888 GAGAAAGCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17592650 original size:9 final size:9
Alignment explanation
Indices: 17592636--17592681 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
17592626 TGAATTTAAT
17592636 TAATATTTA
1 TAATATTTA
17592645 TAATATTTA
1 TAATATTTA
17592654 TAATATTTA
1 TAATATTTA
17592663 -AATCTATTTA
1 TAA--TATTTA
17592673 -AATATTTA
1 TAATATTTA
17592681 T
1 T
17592682 TTAATTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.24
9 18 0.53
10 8 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATATTTA
Found at i:17593063 original size:17 final size:16
Alignment explanation
Indices: 17593041--17593083 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
17593031 GATAAATTTT
17593041 TTATCTAAATTTATTAA
1 TTATCTAAATTTA-TAA
17593058 TTATCT--ATTTATAA
1 TTATCTAAATTTATAA
*
17593072 CTATCTAAATTT
1 TTATCTAAATTT
17593084 GACATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.35
15 5 0.22
16 4 0.17
17 6 0.26
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATCTAAATTTATAA
Found at i:17598523 original size:24 final size:24
Alignment explanation
Indices: 17598492--17598569 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
17598482 TATATATAAA
* * *
17598492 AAATTTATTTTTTAATTATTTTTT
1 AAATTTATTATTTAATTATATATT
17598516 AAATTTA-TATTTAATTATATATT
1 AAATTTATTATTTAATTATATATT
*
17598539 -AATTTATATATTTAATTTTATATT
1 AAATTTAT-TATTTAATTATATATT
*
17598563 ATATTTA
1 AAATTTA
17598570 AAATAATATT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.13
23 13 0.28
24 22 0.48
25 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
AAATTTATTATTTAATTATATATT
Found at i:17598536 original size:12 final size:12
Alignment explanation
Indices: 17598502--17598562 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
17598492 AAATTTATTT
*
17598502 TTTAATTAT-TT
1 TTTAATTATATA
17598513 TTTAAATT-TATA
1 TTT-AATTATATA
17598525 TTTAATTATATA
1 TTTAATTATATA
17598537 -TTAATTTATATA
1 TTTAA-TTATATA
*
17598549 TTTAATTTTATA
1 TTTAATTATATA
17598561 TT
1 TT
17598563 ATATTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
11 12 0.28
12 27 0.63
13 4 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTAATTATATA
Found at i:17598558 original size:14 final size:13
Alignment explanation
Indices: 17598493--17598562 Score: 64
Period size: 12 Copynumber: 5.9 Consensus size: 13
17598483 ATATATAAAA
*
17598493 AATTTAT-TTTTT
1 AATTTATATATTT
*
17598505 AA-TTAT-TTTTT
1 AATTTATATATTT
*
17598516 AAATT-TATATTT
1 AATTTATATATTT
17598528 AA-TTATATA-TT
1 AATTTATATATTT
17598539 AATTTATATATTT
1 AATTTATATATTT
17598552 AATTT-TATATT
1 AATTTATATATT
17598563 ATATTTAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
11 18 0.35
12 27 0.52
13 7 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTATATATTT
Found at i:17598815 original size:10 final size:9
Alignment explanation
Indices: 17598777--17598893 Score: 54
Period size: 9 Copynumber: 13.7 Consensus size: 9
17598767 TTTAAAATAA
17598777 TATTAAAA-
1 TATTAAAAT
17598785 TATTAAAAAT
1 TATT-AAAAT
*
17598795 TATT--TAT
1 TATTAAAAT
17598802 TATTAAAAT
1 TATTAAAAT
17598811 ATATTAAAAT
1 -TATTAAAAT
*
17598821 TATT--TAT
1 TATTAAAAT
*
17598828 TATTAAAAG
1 TATTAAAAT
*
17598837 TATTAATAT
1 TATTAAAAT
*
17598846 TA-AAAAAT
1 TATTAAAAT
* **
17598854 AATTATATTT
1 TATTA-AAAT
*
17598864 TAATAAAAT
1 TATTAAAAT
*
17598873 TATT-TAA-
1 TATTAAAAT
17598880 TATTAAAA-
1 TATTAAAAT
17598888 TATTAA
1 TATTAA
17598894 GTTAATAAAA
Statistics
Matches: 79, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
7 16 0.20
8 19 0.24
9 26 0.33
10 18 0.23
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (9 bp):
TATTAAAAT
Found at i:17598826 original size:26 final size:25
Alignment explanation
Indices: 17598777--17598842 Score: 105
Period size: 26 Copynumber: 2.6 Consensus size: 25
17598767 TTTAAAATAA
17598777 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
*
17598802 TATTAAAATATATTAAAATTATTTAT
1 TATTAAAATAT-TAAAAATTATTTAT
17598828 TATTAAAAGTATTAA
1 TATTAAAA-TATTAA
17598843 TATTAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 11 0.30
26 23 0.62
27 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:17598831 original size:16 final size:16
Alignment explanation
Indices: 17598785--17598888 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
17598775 AATATTAAAA
17598785 TATTAAAAATTATTTAT
1 TATT-AAAATTATTTAT
17598802 TATT-AAA--A--TA-
1 TATTAAAATTATTTAT
17598812 TATTAAAATTATTTAT
1 TATTAAAATTATTTAT
*
17598828 TATTAAAAGTATTAATAT
1 TATTAAAATTATT--TAT
* *
17598846 TA-AAAAATAATTATATTT
1 TATTAAAATTATT-TA--T
* *
17598864 TAATAAAATTATTTAA
1 TATTAAAATTATTTAT
17598880 TATTAAAAT
1 TATTAAAAT
17598889 ATTAAGTTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
10 4 0.06
11 5 0.07
13 2 0.03
15 5 0.07
16 23 0.34
17 11 0.16
18 10 0.15
19 8 0.12
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (16 bp):
TATTAAAATTATTTAT
Found at i:17598848 original size:15 final size:16
Alignment explanation
Indices: 17598811--17598850 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
17598801 TTATTAAAAT
*
17598811 ATATTAAAATTATTTA
1 ATATTAAAAGTATTTA
*
17598827 TTATTAAAAGTA-TTA
1 ATATTAAAAGTATTTA
17598842 ATATTAAAA
1 ATATTAAAA
17598851 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATATTAAAAGTATTTA
Found at i:17598871 original size:36 final size:37
Alignment explanation
Indices: 17598818--17598887 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
17598808 AATATATTAA
*
17598818 AATTATTTATTATTAAAAGTA-TTAATATTAAAAAAT
1 AATTATTTATTAATAAAAGTATTTAATATTAAAAAAT
*
17598854 AATTATATT-TTAATAAAATTATTTAATATTAAAA
1 AATTAT-TTATTAATAAAAGTATTTAATATTAAAA
17598888 TATTAAGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 16 0.53
37 14 0.47
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (37 bp):
AATTATTTATTAATAAAAGTATTTAATATTAAAAAAT
Found at i:17598871 original size:52 final size:49
Alignment explanation
Indices: 17598815--17598932 Score: 141
Period size: 52 Copynumber: 2.3 Consensus size: 49
17598805 TAAAATATAT
*
17598815 TAAAATTATTTATTATTAAAAGTATTAATATTAA-AAAATAATTATATTT-TAA
1 TAAAATTATTTATTATTAAAA-TATTAA-ATTAATAAAA-AA--ATATTTAAAA
* *
17598867 TAAAATTATTTAATATTAAAATATTAAGTTAATAAAAAAATATTTAAAA
1 TAAAATTATTTATTATTAAAATATTAAATTAATAAAAAAATATTTAAAA
*
17598916 TAAAATAATTTATTATT
1 TAAAATTATTTATTATT
17598933 TATTATATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
48 6 0.10
49 17 0.29
50 6 0.10
51 10 0.17
52 20 0.34
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (49 bp):
TAAAATTATTTATTATTAAAATATTAAATTAATAAAAAAATATTTAAAA
Found at i:17598943 original size:15 final size:15
Alignment explanation
Indices: 17598925--17599136 Score: 80
Period size: 15 Copynumber: 13.7 Consensus size: 15
17598915 ATAAAATAAT
17598925 TTATTATTTATTATA
1 TTATTATTTATTATA
* *
17598940 TTATTTATTAATAATA
1 TTA-TTATTTATTATA
17598956 -TATTATTTATTA-A
1 TTATTATTTATTATA
* * *
17598969 TATATGACTCATTAGTA
1 T-TATTATTTATTA-TA
*
17598986 TTAATATATTATTATA
1 TTATTAT-TTATTATA
17599002 -TATTTATTTATAATAATA
1 TTA-TTATTTAT--T-ATA
* *
17599020 TTTATTAATATATAATA
1 -TTATT-ATTTATTATA
* *
17599037 ATATTATTTATGA-A
1 TTATTATTTATTATA
*
17599051 TATATTATAATATTATA
1 T-TATTAT-TTATTATA
*
17599068 CTATTATTTATTA-A
1 TTATTATTTATTATA
* *
17599082 TTTTTA-TTAATATA
1 TTATTATTTATTATA
* *
17599096 TTA-TATAATAGTATA
1 TTATTAT-TTATTATA
*
17599111 TTATT-TATTAATATA
1 TTATTAT-TTATTATA
*
17599126 ATATTATTTAT
1 TTATTATTTAT
17599137 AAATAAAATT
Statistics
Matches: 144, Mismatches: 32, Indels: 42
0.66 0.15 0.19
Matches are distributed among these distances:
13 8 0.06
14 17 0.12
15 61 0.42
16 34 0.24
17 12 0.08
18 3 0.02
19 2 0.01
20 7 0.05
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (15 bp):
TTATTATTTATTATA
Found at i:17598959 original size:18 final size:18
Alignment explanation
Indices: 17598936--17599142 Score: 108
Period size: 18 Copynumber: 11.0 Consensus size: 18
17598926 TATTATTTAT
17598936 TATATTATTTATTAATAA
1 TATATTATTTATTAATAA
17598954 TATATTATTTATTAATATA
1 TATATTATTTATTAATA-A
*
17598973 TGACTCATTA-GTATTAATATA
1 T-A-T-ATTATTTATTAATA-A
*
17598994 TTATTATATATTTATTTATAA
1 -TA-TAT-TATTTATTAATAA
17599015 TA-A-TATTTATTAAT-A
1 TATATTATTTATTAATAA
* *
17599030 TATAATAATATTATTTATGAA
1 TAT-ATTAT-TTATTAAT-AA
*
17599051 TATATTATAATATTATACTATTA
1 TATATTAT-TTATTA-A-TA--A
* *
17599074 TTTATTAATTT-TTATTAA
1 TATATT-ATTTATTAATAA
*
17599092 TATATTA--TA-TAATAG
1 TATATTATTTATTAATAA
17599107 TATATTATTTATTAAT-A
1 TATATTATTTATTAATAA
*
17599124 TAATATTATTTATAAATAA
1 T-ATATTATTTATTAATAA
17599143 AATTATGCTT
Statistics
Matches: 147, Mismatches: 18, Indels: 47
0.69 0.08 0.22
Matches are distributed among these distances:
15 15 0.10
16 10 0.07
17 5 0.03
18 44 0.30
19 10 0.07
20 16 0.11
21 22 0.15
22 16 0.11
23 7 0.05
24 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (18 bp):
TATATTATTTATTAATAA
Found at i:17599063 original size:23 final size:23
Alignment explanation
Indices: 17599009--17599066 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
17598999 ATATATTTAT
* *
17599009 TTATAATAATATTTATTAATATA
1 TTATAATATTATTTATGAATATA
*
17599032 TAATAATATTATTTATGAATATA
1 TTATAATATTATTTATGAATATA
17599055 TTATAATATTAT
1 TTATAATATTAT
17599067 ACTATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATAATATTATTTATGAATATA
Found at i:17599079 original size:23 final size:22
Alignment explanation
Indices: 17598936--17599136 Score: 78
Period size: 23 Copynumber: 9.5 Consensus size: 22
17598926 TATTATTTAT
17598936 TATATTATTTA-T-TAATA--A
1 TATATTATTTATTATAATATTA
17598954 TATATTATTTA-T-TAATA-TA
1 TATATTATTTATTATAATATTA
* *
17598973 TGACTCATTAGTATTAATATATTATTA
1 T-A-T-ATTA-T-TTATTATAATATTA
*
17599000 TATATTTATTTATAATAATATT-
1 TATA-TTATTTATTATAATATTA
* * *
17599022 TAT-TAATATATAATAATATTA
1 TATATTATTTATTATAATATTA
* * *
17599043 TTTATGAATATATTATAATATTA
1 TATAT-TATTTATTATAATATTA
* *
17599066 TACTATTATTTATTA-ATTTTTA
1 TA-TATTATTTATTATAATATTA
* *
17599088 T-TAATATATTA-TATAATA--G
1 TATATTAT-TTATTATAATATTA
17599107 TATATTATTTA-T-TAATA-TA
1 TATATTATTTATTATAATATTA
17599126 -ATATTATTTAT
1 TATATTATTTAT
17599137 AAATAAAATT
Statistics
Matches: 145, Mismatches: 19, Indels: 37
0.72 0.09 0.18
Matches are distributed among these distances:
18 32 0.22
19 7 0.05
20 28 0.19
21 8 0.06
22 14 0.10
23 35 0.24
24 8 0.06
25 5 0.03
26 5 0.03
27 3 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (22 bp):
TATATTATTTATTATAATATTA
Found at i:17599093 original size:31 final size:30
Alignment explanation
Indices: 17598995--17599136 Score: 98
Period size: 30 Copynumber: 4.6 Consensus size: 30
17598985 ATTAATATAT
*
17598995 TATTATATATTTATTTATAATAATATTTATTAA
1 TATTATATA-TTATTTAT--TAATTTTTATTAA
* *
17599028 TATATAATAATATTATTTATGAATATATTA-TAA
1 TAT-T-AT-ATATTATTTATTAAT-TTTTATTAA
17599061 TATTATACTATTATTTATTAATTTTTATTAA
1 TATTATA-TATTATTTATTAATTTTTATTAA
* *
17599092 TA-TAT-TA-TATAATAGTATATTATTTATTAA
1 TATTATATATTAT-TTATTA-ATT-TTTATTAA
17599122 TA-TA-ATATTATTTAT
1 TATTATATATTATTTAT
17599137 AAATAAAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 25
0.72 0.07 0.20
Matches are distributed among these distances:
27 3 0.03
28 6 0.07
29 3 0.03
30 24 0.27
31 23 0.26
32 1 0.01
33 12 0.13
34 4 0.04
35 10 0.11
36 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (30 bp):
TATTATATATTATTTATTAATTTTTATTAA
Found at i:17599269 original size:22 final size:22
Alignment explanation
Indices: 17599244--17599304 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
17599234 TTAAAAATCA
17599244 TATTTTTCATTAATAAATAAAT
1 TATTTTTCATTAATAAATAAAT
* * *
17599266 TATTTTTTATTAATCAATTAAT
1 TATTTTTCATTAATAAATAAAT
17599288 T-TTTTATCA--AATAAATA
1 TATTTT-TCATTAATAAATA
17599305 TTTAAAAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 6 0.19
21 4 0.12
22 22 0.69
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTTTCATTAATAAATAAAT
Found at i:17608104 original size:14 final size:14
Alignment explanation
Indices: 17608068--17608115 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
17608058 CTTGTGTTGG
* *
17608068 AGAGAGAGAGAAGGA
1 AGAGAGAGGGAA-AA
* *
17608083 AGAAAGAGGGGAAA
1 AGAGAGAGGGAAAA
17608097 AGAGAGAGGGAAAA
1 AGAGAGAGGGAAAA
17608111 AGAGA
1 AGAGA
17608116 TGGGGAGGGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (14 bp):
AGAGAGAGGGAAAA
Found at i:17608303 original size:2 final size:2
Alignment explanation
Indices: 17608296--17608324 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17608286 CATGCCTTTT
17608296 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 T
17608325 ATCTAGTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17621029 original size:2 final size:2
Alignment explanation
Indices: 17621024--17621050 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17621014 TATATATATC
17621024 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
17621051 TGCATTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:17626521 original size:13 final size:13
Alignment explanation
Indices: 17626485--17626514 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
17626475 ATTTTGATTA
*
17626485 AATTTGATTAATT
1 AATTCGATTAATT
17626498 AATTCGATTAATT
1 AATTCGATTAATT
17626511 AATT
1 AATT
17626515 GAATTAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (13 bp):
AATTCGATTAATT
Found at i:17628688 original size:7 final size:7
Alignment explanation
Indices: 17628672--17628735 Score: 65
Period size: 7 Copynumber: 9.1 Consensus size: 7
17628662 CTATACACAT
17628672 ATCATCC
1 ATCATCC
*
17628679 ATCGTCC
1 ATCATCC
17628686 ATCATCC
1 ATCATCC
*
17628693 ACCATCC
1 ATCATCC
*
17628700 ACCATCC
1 ATCATCC
*
17628707 ACCATCC
1 ATCATCC
*
17628714 ACCATCC
1 ATCATCC
*
17628721 ACCATCC
1 ATCATCC
*
17628728 ACCATCC
1 ATCATCC
17628735 A
1 A
17628736 CCGTCCATCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.28, C:0.52, G:0.02, T:0.19
Consensus pattern (7 bp):
ATCATCC
Found at i:17628700 original size:21 final size:21
Alignment explanation
Indices: 17628674--17628742 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
17628664 ATACACATAT
* * *
17628674 CATCCATCGTCCATCATCCAC
1 CATCCACCATCCACCATCCAC
17628695 CATCCACCATCCACCATCCAC
1 CATCCACCATCCACCATCCAC
17628716 CATCCACCATCCACCATCCAC
1 CATCCACCATCCACCATCCAC
*
17628737 CGTCCA
1 CATCCA
17628743 TCTCCCCTCT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.26, C:0.54, G:0.03, T:0.17
Consensus pattern (21 bp):
CATCCACCATCCACCATCCAC
Found at i:17628736 original size:7 final size:7
Alignment explanation
Indices: 17628683--17628742 Score: 102
Period size: 7 Copynumber: 8.6 Consensus size: 7
17628673 TCATCCATCG
*
17628683 TCCATCA
1 TCCACCA
17628690 TCCACCA
1 TCCACCA
17628697 TCCACCA
1 TCCACCA
17628704 TCCACCA
1 TCCACCA
17628711 TCCACCA
1 TCCACCA
17628718 TCCACCA
1 TCCACCA
17628725 TCCACCA
1 TCCACCA
*
17628732 TCCACCG
1 TCCACCA
17628739 TCCA
1 TCCA
17628743 TCTCCCCTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.27, C:0.55, G:0.02, T:0.17
Consensus pattern (7 bp):
TCCACCA
Found at i:17628923 original size:2 final size:2
Alignment explanation
Indices: 17628911--17628945 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
17628901 TTGGTTGCTA
17628911 AT AT AT GAT 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
17628946 GGGTTGTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17630216 original size:2 final size:2
Alignment explanation
Indices: 17630209--17630235 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17630199 TTTTATTATG
17630209 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 A
17630236 GAGAGAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17655527 original size:6 final size:6
Alignment explanation
Indices: 17655511--17655551 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
17655501 TTTCTTCTTT
* *
17655511 TTTTTG CTTTTG TTTTTG TTTTTG TTTTT- TTTTTT TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG
17655552 CCTTCGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:17670374 original size:17 final size:18
Alignment explanation
Indices: 17670334--17670375 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
17670324 GAGATGCGAG
17670334 AGAAAATGAGAGATGAAA
1 AGAAAATGAGAGATGAAA
*
17670352 A-AAAAAGAGAGA-GAAGA
1 AGAAAATGAGAGATGAA-A
17670369 AGAAAAT
1 AGAAAAT
17670376 TCTGAAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (18 bp):
AGAAAATGAGAGATGAAA
Found at i:17670502 original size:15 final size:15
Alignment explanation
Indices: 17670484--17670518 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
17670474 GGGTATTAGG
17670484 GGGTGGGAAGGGATT
1 GGGTGGGAAGGGATT
*
17670499 GGGTGGGGAGGGATT
1 GGGTGGGAAGGGATT
*
17670514 AGGTG
1 GGGTG
17670519 TGGTGGGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.63, T:0.20
Consensus pattern (15 bp):
GGGTGGGAAGGGATT
Found at i:17670524 original size:35 final size:34
Alignment explanation
Indices: 17670451--17670525 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 34
17670441 GGGCAGGCAC
* *
17670451 GTGGGGAGGGATTGGGTGTGCTGGGGTATTAGGGG
1 GTGGGAAGGGATTGGGTGTGC-GGGGGATTAGGGG
17670486 GTGGGAAGGGATTGGGTG-G-GGAGGGATTAGGTGTG
1 GTGGGAAGGGATTGGGTGTGCGG-GGGATTAGG-G-G
17670521 GTGGG
1 GTGGG
17670526 GTGTTGGGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 2 0.06
33 8 0.23
34 2 0.06
35 23 0.66
ACGTcount: A:0.13, C:0.01, G:0.61, T:0.24
Consensus pattern (34 bp):
GTGGGAAGGGATTGGGTGTGCGGGGGATTAGGGG
Found at i:17671046 original size:25 final size:23
Alignment explanation
Indices: 17671012--17671061 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 23
17671002 TAAAAAATAA
*
17671012 AAAATTTAAGTTTGAAAATTTTATT
1 AAAATATAAGTTTG-AAATTTT-TT
17671037 AAAATATAAGTTTGAAATTTTTT
1 AAAATATAAGTTTGAAATTTTTT
17671060 AA
1 AA
17671062 TTTTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 4 0.17
24 7 0.29
25 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
AAAATATAAGTTTGAAATTTTTT
Found at i:17671448 original size:25 final size:24
Alignment explanation
Indices: 17671391--17671448 Score: 57
Period size: 25 Copynumber: 2.3 Consensus size: 24
17671381 TAATTATTGA
*
17671391 AAGTTATTTGTGATAAAAAAATTT
1 AAGTTATTAGTGATAAAAAAATTT
17671415 ATA-TCTATTAGTGTATAAAAAAGA-TT
1 A-AGT-TATTAGTG-ATAAAAAA-ATTT
17671441 AAGTTATT
1 AAGTTATT
17671449 TAATAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
24 2 0.07
25 13 0.46
26 12 0.43
27 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (24 bp):
AAGTTATTAGTGATAAAAAAATTT
Found at i:17674854 original size:18 final size:18
Alignment explanation
Indices: 17674831--17674901 Score: 81
Period size: 18 Copynumber: 3.9 Consensus size: 18
17674821 ATGGTTATTA
*
17674831 TCCACCTCAAATGTATCT
1 TCCACCACAAATGTATCT
*
17674849 TCCACCTCAAATGTATCAT
1 TCCACCACAAATGTATC-T
* *
17674868 T-TACCACAAATGTATCC
1 TCCACCACAAATGTATCT
*
17674885 CCCACCACAAATGTATC
1 TCCACCACAAATGTATC
17674902 ATCCTCAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 44 0.96
19 2 0.04
ACGTcount: A:0.32, C:0.34, G:0.06, T:0.28
Consensus pattern (18 bp):
TCCACCACAAATGTATCT
Found at i:17682358 original size:2 final size:2
Alignment explanation
Indices: 17682353--17682385 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17682343 TTATATATGG
17682353 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 T
17682386 GACTTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17682644 original size:2 final size:2
Alignment explanation
Indices: 17682637--17682670 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17682627 AAGCTAAAAC
17682637 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
17682671 CTTCGAGTGA
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:17688424 original size:2 final size:2
Alignment explanation
Indices: 17688417--17688442 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17688407 TGAGTTGCAG
17688417 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
17688443 GGTGCCCCCA
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:17691957 original size:25 final size:26
Alignment explanation
Indices: 17691921--17691976 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
17691911 TTAAATATTT
* * *
17691921 TTTATATGAATC-ATGAAATAAAATA
1 TTTATATAAATCAATCAAATAAAAAA
17691946 TTTATATAAATCAAATCAAATAAAAAA
1 TTTATATAAATC-AATCAAATAAAAAA
17691973 TTTA
1 TTTA
17691977 AAATATCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 11 0.42
27 15 0.58
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTATATAAATCAATCAAATAAAAAA
Found at i:17692374 original size:4 final size:4
Alignment explanation
Indices: 17692365--17692391 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17692355 ATTAGTAATG
17692365 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
17692392 CAGATATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:17693831 original size:18 final size:18
Alignment explanation
Indices: 17693805--17693839 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17693795 ATTTATAATA
*
17693805 ATTAATTTTATATTTATT
1 ATTAATTTTAAATTTATT
*
17693823 ATTATTTTTAAATTTAT
1 ATTAATTTTAAATTTAT
17693840 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTAATTTTAAATTTATT
Found at i:17699255 original size:2 final size:2
Alignment explanation
Indices: 17699248--17699278 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17699238 CATTGAAGCT
17699248 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
17699279 TTTTAGTGCA
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:17699782 original size:2 final size:2
Alignment explanation
Indices: 17699777--17699804 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17699767 TCTCTCTCTC
17699777 TA 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 TA
17699805 CACAATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17706034 original size:16 final size:18
Alignment explanation
Indices: 17706015--17706051 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
17706005 TAAAGAGGTA
17706015 AAATAAT-AAAAT-TTTT
1 AAATAATAAAAATATTTT
17706031 AAATAATAAAAATATTTT
1 AAATAATAAAAATATTTT
17706049 AAA
1 AAA
17706052 ATTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATAATAAAAATATTTT
Found at i:17706047 original size:19 final size:19
Alignment explanation
Indices: 17706016--17706053 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17706006 AAAGAGGTAA
*
17706016 AATAATAAAATTTTTAAAT
1 AATAATAAAATTTTAAAAT
17706035 AATAA-AAATATTTTAAAAT
1 AATAATAAA-ATTTTAAAAT
17706054 TTAAAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAATAAAATTTTAAAAT
Found at i:17706170 original size:11 final size:11
Alignment explanation
Indices: 17706154--17706194 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
17706144 GATCGATAAT
17706154 AATTAAATTTA
1 AATTAAATTTA
*
17706165 AATTAAATTTT
1 AATTAAATTTA
* *
17706176 ATTTAAATTAA
1 AATTAAATTTA
17706187 AATTAAAT
1 AATTAAAT
17706195 AATTTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTAAATTTA
Found at i:17707412 original size:17 final size:17
Alignment explanation
Indices: 17707390--17707422 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17707380 TATATATAAA
17707390 TAAAAAATATTTTATAT
1 TAAAAAATATTTTATAT
17707407 TAAAAAATATTTTATA
1 TAAAAAATATTTTATA
17707423 AATATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAAATATTTTATAT
Found at i:17712562 original size:22 final size:23
Alignment explanation
Indices: 17712537--17712583 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
17712527 TTTGAATAAA
17712537 AATAATTAAA-TTTAAAATTAAG
1 AATAATTAAAGTTTAAAATTAAG
**
17712559 AATAATTAAAGTTTTTAATTAAG
1 AATAATTAAAGTTTAAAATTAAG
17712582 AA
1 AA
17712584 ATAAATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AATAATTAAAGTTTAAAATTAAG
Found at i:17712886 original size:74 final size:75
Alignment explanation
Indices: 17712788--17712933 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 75
17712778 ATTTCTTTTG
* * *
17712788 TTTTTTTGAAAAGGATCTGAAGCCCAACAAACTT-AGGCCTGAAAGCCCAAGTTTGTATTCACCT
1 TTTTTTTGAAAAGGACCTGAAGCCCAACAAACTTCAGGCCTGAAAGCCCAAGCTCGTATTCACCT
17712852 TGTCTTTCCA
66 TGTCTTTCCA
*
17712862 TTTTATTT-AAAAGGACCTGAAGCCCAACAAACTTCAGGCCTGAAAGTCCAAGCTCGTATTCACC
1 TTTT-TTTGAAAAGGACCTGAAGCCCAACAAACTTCAGGCCTGAAAGCCCAAGCTCGTATTCACC
*
17712926 TTTTCTTT
65 TTGTCTTT
17712934 ACCCCAGCCC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
74 29 0.45
75 36 0.55
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (75 bp):
TTTTTTTGAAAAGGACCTGAAGCCCAACAAACTTCAGGCCTGAAAGCCCAAGCTCGTATTCACCT
TGTCTTTCCA
Found at i:17724287 original size:12 final size:12
Alignment explanation
Indices: 17724270--17724303 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17724260 ATGTTGTTTG
*
17724270 TGAAGATGATTT
1 TGAAGATGATCT
17724282 TGAAGATGATCT
1 TGAAGATGATCT
*
17724294 TGATGATGAT
1 TGAAGATGAT
17724304 GATGATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.38
Consensus pattern (12 bp):
TGAAGATGATCT
Found at i:17729648 original size:3 final size:3
Alignment explanation
Indices: 17729640--17729687 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
17729630 GCCTTTTGTG
17729640 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
17729688 GGTATTGTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:17733193 original size:7 final size:7
Alignment explanation
Indices: 17733177--17733219 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
17733167 TATTTTATCT
17733177 TTTATGTA
1 TTTAT-TA
17733185 TTTATTA
1 TTTATTA
17733192 TTTACTTA
1 TTTA-TTA
17733200 TTTATTA
1 TTTATTA
*
17733207 -TTACTA
1 TTTATTA
17733213 TTTATTA
1 TTTATTA
17733220 ATATATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:17733303 original size:25 final size:24
Alignment explanation
Indices: 17733275--17733388 Score: 109
Period size: 25 Copynumber: 4.9 Consensus size: 24
17733265 CTGTTAATAT
17733275 TTATATATGTATTTTATTTATCTAG
1 TTATATAT-TATTTTATTTATCTAG
*
17733300 TTATATATTATTATTATTTAT-TCAT
1 TTATATATTATT-TTATTTATCT-AG
*
17733325 TTATATATTA--TGATTTATCT-G
1 TTATATATTATTTTATTTATCTAG
*
17733346 TTAT-TATTATTTTTATTTATCTTG
1 TTATATATTA-TTTTATTTATCTAG
17733370 -TA-ATATT-TTTTATTTATCT
1 TTATATATTATTTTATTTATCT
17733389 TATTATTTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
20 5 0.06
21 16 0.21
22 7 0.09
23 16 0.21
24 6 0.08
25 27 0.35
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (24 bp):
TTATATATTATTTTATTTATCTAG
Found at i:17733381 original size:21 final size:20
Alignment explanation
Indices: 17733286--17733435 Score: 79
Period size: 22 Copynumber: 6.8 Consensus size: 20
17733276 TATATATGTA
17733286 TTTTATTTATCTAGTTATATATT
1 TTTTATTTATCT--TTA-ATATT
17733309 ATTATTATTTATTCATTT-ATATAT
1 -TT-TTATTTA-TC-TTTAATAT-T
* * *
17733333 TATGATTTATCTGTTATTATTAT
1 TTTTATTTATCT-TTAATA-T-T
17733356 TTTTATTTATCTTGTAATATT
1 TTTTATTTATCTT-TAATATT
* *
17733377 TTTTATTTATCTTATTATTTTT
1 TTTTATTTATC-T-TTAATATT
*
17733399 TTTCTAATTATCTATTAATATT
1 TTT-TATTTATCT-TTAATATT
17733421 TATTTATTTAT-TTTA
1 T-TTTATTTATCTTTA
17733436 TTTATCTGAT
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
20 4 0.04
21 17 0.17
22 34 0.33
23 32 0.31
24 3 0.03
25 9 0.09
26 2 0.02
27 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTATCTTTAATATT
Found at i:17733395 original size:45 final size:43
Alignment explanation
Indices: 17733286--17733431 Score: 136
Period size: 45 Copynumber: 3.2 Consensus size: 43
17733276 TATATATGTA
*
17733286 TTTTATTTATCTAGTTATATATTATTATTATTTATTCATTT-ATATAT
1 TTTTATTTATCTA-TTAT-TATTATTTTTATTTA-TC-TTTAATAT-T
* * *
17733333 TATGATTTATCTGTTATTATTATTTTTATTTATCTTGTAATATT
1 TTTTATTTATCTATTATTATTATTTTTATTTATCTT-TAATATT
*
17733377 TTTTATTTATCTTATTATT-TT-TTTTCTAATTATCTATTAATATT
1 TTTTATTTATC-TATTATTATTATTTT-TATTTATCT-TTAATATT
17733421 TATTTATTTAT
1 T-TTTATTTAT
17733432 TTTATTTATC
Statistics
Matches: 85, Mismatches: 8, Indels: 14
0.79 0.07 0.13
Matches are distributed among these distances:
43 6 0.07
44 31 0.36
45 34 0.40
46 4 0.05
47 10 0.12
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.66
Consensus pattern (43 bp):
TTTTATTTATCTATTATTATTATTTTTATTTATCTTTAATATT
Found at i:17733410 original size:44 final size:43
Alignment explanation
Indices: 17733337--17733437 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
17733327 ATATATTATG
*
17733337 ATTTATCTGTTATTATTATTTTTATTTATCT-TGTAATATTT-TTT
1 ATTTATC--TTATTATTATTTTTAATTATCTAT-TAATATTTATTT
*
17733381 ATTTATCTTATTATTTTTTTTCTAATTATCTATTAATATTTATTT
1 ATTTATCTTATTA-TTATTTT-TAATTATCTATTAATATTTATTT
*
17733426 ATTTATTTTATT
1 ATTTATCTTATT
17733438 TATCTGATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
42 6 0.12
43 6 0.12
44 23 0.46
45 15 0.30
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (43 bp):
ATTTATCTTATTATTATTTTTAATTATCTATTAATATTTATTT
Found at i:17733626 original size:19 final size:18
Alignment explanation
Indices: 17733604--17733648 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
17733594 TCAATCCTTA
*
17733604 TTATTTTTTTCGTTTTTTT
1 TTATTTTTTTC-TTTTTTC
17733623 TTATTATTTTTCTTTTTTC
1 TTATT-TTTTTCTTTTTTC
17733642 TTATTTT
1 TTATTTT
17733649 ATTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (18 bp):
TTATTTTTTTCTTTTTTC
Found at i:17733882 original size:121 final size:116
Alignment explanation
Indices: 17733753--17734037 Score: 326
Period size: 121 Copynumber: 2.4 Consensus size: 116
17733743 AAAAATATAT
17733753 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAA-T-AAATTTTCAAAAA
1 AAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATTAAAATTTT-AAAAA
* * * *
17733816 AGATTTTTTTTTTTAGAAAAGGTTGAAAGTATCAATTTTTCTCGAAA-TTAAGAATTTC-
63 A-A---TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT-GAAAGATAA-AATTTCA
*
17733874 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAATTTTTAAAAAA
1 AAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAATTTTAAAAAAA
* *
17733939 TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAGATAAAATTTCAAA
65 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTGAAAGATAAAATTTC--A
*
17733993 AAAAAAAGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAA----TATTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
17734038 ATTGTAAAAA
Statistics
Matches: 145, Mismatches: 8, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
116 9 0.06
117 35 0.24
119 7 0.05
120 4 0.03
121 50 0.34
122 33 0.23
123 7 0.05
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (116 bp):
AAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAATTTTAAAAAAAT
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTGAAAGATAAAATTTCA
Found at i:17733937 original size:58 final size:56
Alignment explanation
Indices: 17733752--17734037 Score: 268
Period size: 58 Copynumber: 4.8 Consensus size: 56
17733742 AAAAAATATA
17733752 TAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT-AAATTT
1 TAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAA-AATAAAATTT
* ** * * *
17733809 TCAAAAAAGATTTTTTTTTTTAGAAAAGGTTGAAAGTATCAATTTTTCTCGAAATTAAGAATTT
1 T-AAAAAA-A---TATTTTTGGGAAAA-GTTGAAAGTATCAATTTTCCT-TAAAATAA-AATTT
*
17733873 CAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATTAAAATTT
1 TAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA-TAAAATTT
* *
17733931 TTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAGATAAAATTT
1 TAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTTAAA-ATAAAATTT
* * *
17733989 CAAAAAAAAAAGTTTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCC
1 ---TAAAAAAA----TATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
17734038 ATTGTAAAAA
Statistics
Matches: 188, Mismatches: 21, Indels: 33
0.78 0.09 0.14
Matches are distributed among these distances:
57 4 0.02
58 63 0.34
59 31 0.16
60 5 0.03
61 11 0.06
62 29 0.15
63 9 0.05
64 28 0.15
65 8 0.04
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (56 bp):
TAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTT
Found at i:17737090 original size:20 final size:21
Alignment explanation
Indices: 17737037--17737091 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
17737027 TGGTTGAAGG
* *
17737037 TTTTTTTTGTCATTTTAGAAT
1 TTTTTTTTGTAATGTTAGAAT
**
17737058 TTTTTTCGAGTAATGTTAG-AT
1 TTTTTT-TTGTAATGTTAGAAT
17737079 TTTTTTTTGTAAT
1 TTTTTTTTGTAAT
17737092 ATGACTTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.19
21 14 0.52
22 8 0.30
ACGTcount: A:0.20, C:0.04, G:0.13, T:0.64
Consensus pattern (21 bp):
TTTTTTTTGTAATGTTAGAAT
Found at i:17737918 original size:8 final size:8
Alignment explanation
Indices: 17737907--17737963 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 8
17737897 ATGAAAAATG
17737907 AGAAAAAA
1 AGAAAAAA
17737915 AGAAAAAAA
1 AG-AAAAAA
17737924 AGAAAGAAAGA
1 AG-AA-AAA-A
17737935 AGAAAAAA
1 AGAAAAAA
17737943 ATGAAAAAA
1 A-GAAAAAA
*
17737952 TAAAAAAAA
1 -AGAAAAAA
17737961 AGA
1 AGA
17737964 TTCAAATTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
8 6 0.14
9 27 0.64
10 6 0.14
11 3 0.07
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (8 bp):
AGAAAAAA
Found at i:17737921 original size:17 final size:17
Alignment explanation
Indices: 17737907--17737963 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
17737897 ATGAAAAATG
17737907 AGAAAAAAAGAAAAAAA
1 AGAAAAAAAGAAAAAAA
17737924 AGAAAGAAAGAAGAAAAAAA
1 AG-AA-AAA-AAGAAAAAAA
*
17737944 TGAAAAAATA-AAAAAAA
1 AGAAAAAA-AGAAAAAAA
17737961 AGA
1 AGA
17737964 TTCAAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
17 12 0.35
18 6 0.18
19 5 0.15
20 11 0.32
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (17 bp):
AGAAAAAAAGAAAAAAA
Found at i:17737937 original size:20 final size:19
Alignment explanation
Indices: 17737909--17737961 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
17737899 GAAAAATGAG
17737909 AAAAA-AAGAAAAAAAAGA
1 AAAAAGAAGAAAAAAAAGA
*
17737927 AAGAAAGAAGAAAAAAATGA
1 AA-AAAGAAGAAAAAAAAGA
*
17737947 AAAAATAA-AAAAAAA
1 AAAAAGAAGAAAAAAA
17737962 GATTCAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 9 0.29
19 8 0.26
20 14 0.45
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAAAGAAGAAAAAAAAGA
Found at i:17737962 original size:29 final size:28
Alignment explanation
Indices: 17737907--17737963 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
17737897 ATGAAAAATG
*
17737907 AGAAAAAAAGAAAAAAAAGAAAGAAAGA
1 AGAAAAAAAGAAAAAAAAGAAAAAAAGA
17737935 AGAAAAAAATGAAAAAATAA-AAAAAAAGA
1 AGAAAAAAA-GAAAAAA-AAGAAAAAAAGA
17737964 TTCAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.35
29 15 0.58
30 2 0.08
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (28 bp):
AGAAAAAAAGAAAAAAAAGAAAAAAAGA
Found at i:17739339 original size:43 final size:42
Alignment explanation
Indices: 17739285--17739366 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 42
17739275 GCCTTTGAAC
* *
17739285 TCAAATGAAAAGCTTT-GAATTTTTAGATGTGAATTTCCAAAAT
1 TCAAATAAAAAGCTTTAG-ATTTTTAGATATGAA-TTCCAAAAT
*
17739328 TCAAATAAAAAGCTTTAGATTTTTGGATATGAATTCCAA
1 TCAAATAAAAAGCTTTAGATTTTTAGATATGAATTCCAA
17739367 GTTTGCCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
42 6 0.17
43 28 0.80
44 1 0.03
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (42 bp):
TCAAATAAAAAGCTTTAGATTTTTAGATATGAATTCCAAAAT
Found at i:17739735 original size:42 final size:42
Alignment explanation
Indices: 17739660--17740020 Score: 390
Period size: 42 Copynumber: 8.6 Consensus size: 42
17739650 GACTGTCAAA
* * * *
17739660 GAGCAATTTATTTTTCCAAAGTT-TTGTTACCTCTGTTTAGAG
1 GAGCAATTTA-CTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
17739702 GAACAATTTACTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* * * *
17739744 GAGTAATTTATTTTTCAAAGTTGTGATTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* * * * *
17739786 GAGCAATTTACTTTTCAAAGTT-TCGTTACCTCTGTTTAAAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
17739827 GAGTAATTTACTTTTCAAAGTTGTGGTTGCCTCTATTTAGAG
1 GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* * * *
17739869 GAGCAATTTACTTTTCAAAAGTCGT-GATGCCTCTGTTTAGAG
1 GAGCAATTTAC-TTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* *
17739911 GAGCAATTTACTTTTCAAAAGTTGAGG-TGCCTCTATTTAGAG
1 GAGCAATTTAC-TTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* * * *
17739953 GAGCGATTTACTTTCCAAAGTCGTGG-TACCTCTATTTAGAA
1 GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
* * *
17739994 GAGTAATTTACTTTTCAAAGTCGTGGT
1 GAGCAATTTACTTTCCAAAGTTGTGGT
17740021 ACTTTTGATT
Statistics
Matches: 274, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
41 94 0.34
42 169 0.62
43 11 0.04
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (42 bp):
GAGCAATTTACTTTCCAAAGTTGTGGTTGCCTCTATTTAGAG
Found at i:17739900 original size:125 final size:125
Alignment explanation
Indices: 17739660--17740018 Score: 497
Period size: 125 Copynumber: 2.9 Consensus size: 125
17739650 GACTGTCAAA
* * *
17739660 GAGCAATTTATTTTTCCAAAGTTTTGTTACCTCTGTTTAGAGGAACAATTTACTTTCCAAAGTTG
1 GAGCAATTTACTTTT-CAAAGTTTAGTTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTG
* * *
17739725 TGGTTGCCTCTGTTTAGAGGAGTAATTTATTTTTCAAAGTTGTGATTGCCTCTATTTAGAG
65 TGGTTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAGTCGTGATTGCCTCTATTTAGAG
* * * *
17739786 GAGCAATTTACTTTTCAAAGTTTCGTTACCTCTGTTTAAAGGAGTAATTTACTTTTCAAAGTTGT
1 GAGCAATTTACTTTTCAAAGTTTAGTTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTGT
* *
17739851 GGTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGA-TGCCTCTGTTTAGAG
66 GGTTGCCTCTATTTAGAGGAGTAATTTACTTTTC-AAAGTCGTGATTGCCTCTATTTAGAG
* * * * * *
17739911 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCTATTTAGAGGAGCGATTTACTTTCCAAAGTCG
1 GAGCAATTTACTTTTC-AAAGTTTAGTTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTG
* *
17739976 TGG-TACCTCTATTTAGAAGAGTAATTTACTTTTCAAAGTCGTG
65 TGGTTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAGTCGTG
17740019 GTACTTTTGA
Statistics
Matches: 207, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
124 9 0.04
125 134 0.65
126 64 0.31
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (125 bp):
GAGCAATTTACTTTTCAAAGTTTAGTTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTGT
GGTTGCCTCTATTTAGAGGAGTAATTTACTTTTCAAAGTCGTGATTGCCTCTATTTAGAG
Found at i:17740033 original size:41 final size:41
Alignment explanation
Indices: 17739660--17740140 Score: 341
Period size: 42 Copynumber: 11.5 Consensus size: 41
17739650 GACTGTCAAA
* ** * *
17739660 GAGCAATTTATTTTTCCAAAGTTTTGTTACCTCTGTTTAGAG
1 GAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTGATTAGAG
* * * * *
17739702 GAACAATTTACTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGG-TACCTCTGATTAGAG
* * * * *
17739744 GAGTAATTTATTTTTCAAAGTTGTGATTGCCTCT-ATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTG-GTACCTCTGA-TTAGAG
* *
17739786 GAGCAATTTACTTTTCAAAGTTTCGT--TACCTCTGTTTAAAG
1 GAGCAATTTACTTTTCAAAG--TCGTGGTACCTCTGATTAGAG
* * *
17739827 GAGTAATTTACTTTTCAAAGTTGTGGTTGCCTCT-ATTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGG-TACCTCTGA-TTAGAG
* * *
17739869 GAGCAATTTACTTTTCAAAAGTCGTGATGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTACCTCTGATTAGAG
* * *
17739911 GAGCAATTTACTTTTCAAAAGTTGAGGTGCCTCT-ATTTAGAG
1 GAGCAATTTACTTTTC-AAAGTCGTGGTACCTCTGA-TTAGAG
* * *
17739953 GAGCGATTTACTTTCCAAAGTCGTGGTACCTCT-ATTTAGAA
1 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGA-TTAGAG
* * * *
17739994 GAGTAATTTACTTTTCAAAGTCGTGGTACTTTTGATTAGAT
1 GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGATTAGAG
* * * *
17740035 AAGCCATTTATTTTTTCAAAGTCGTTG-AGCCTCTGATTAGAG
1 GAGCAATTTA-CTTTTCAAAGTCGTGGTA-CCTCTGATTAGAG
* * * *
17740077 GAGTC-ATTTATTTTTCCAAAGTCATCG-AGCCTCTGGTTAGAG
1 GAG-CAATTTACTTTT-CAAAGTCGTGGTA-CCTCTGATTAGAG
* * *
17740119 GAACCATTTATTTTTCCAAAGT
1 GAGCAATTTACTTTT-CAAAGT
17740141 TGTTGAGCCT
Statistics
Matches: 364, Mismatches: 56, Indels: 38
0.79 0.12 0.08
Matches are distributed among these distances:
39 3 0.01
41 107 0.29
42 242 0.66
43 9 0.02
44 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGATTAGAG
Found at i:17740053 original size:167 final size:166
Alignment explanation
Indices: 17739685--17740098 Score: 477
Period size: 167 Copynumber: 2.5 Consensus size: 166
17739675 CCAAAGTTTT
* * * * * *
17739685 GTTACCTCTGTTTAGAGGAA-CAATTTACTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGTA
1 GTTACCTCTATTTAGA-GAAGCAATTTACTTTTCAAAGTCGTTGATGCCTCTGTTTAGAGGAGCA
* * *
17739749 ATTTATTTTTCAAAGTTGTGATTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTTA
65 ATTTATTTTTCAAAGTTGAGAGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAG-TTCGTTA
* *
17739814 CCTCTGTTTAAAGGAGTAATTTACTTTTCAAAGTTGTG
129 CCTCTATTTAAAGGAGTAATTTACTTTTCAAAGTCGTG
* *
17739852 GTTGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGTCG-TGATGCCTCTGTTTAGAGGAGCA
1 GTTACCTCTATTTAGAGAAGCAATTTACTTTTC-AAAGTCGTTGATGCCTCTGTTTAGAGGAGCA
* *
17739916 ATTTACTTTTCAAAAGTTGAG-GTGCCTCTATTTAGAGGAGCGATTTACTTTCCAAAG-TCGTGG
65 ATTTATTTTTC-AAAGTTGAGAGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--
17739979 TACCTCTATTTAGAA-GAGTAATTTACTTTTCAAAGTCGTG
127 TACCTCTATTTA-AAGGAGTAATTTACTTTTCAAAGTCGTG
* * * * * *
17740019 G-TACTTTTGA-TTAGATAAGCCATTTATTTTTTCAAAGTCGTTGA-GCCTCTGATTAGAGGAGT
1 GTTACCTCT-ATTTAGAGAAGCAATTTA-CTTTTCAAAGTCGTTGATGCCTCTGTTTAGAGGAG-
17740081 C-ATTTATTTTTCCAAAGT
63 CAATTTATTTTT-CAAAGT
17740099 CATCGAGCCT
Statistics
Matches: 212, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
165 4 0.02
166 56 0.26
167 136 0.64
168 16 0.08
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (166 bp):
GTTACCTCTATTTAGAGAAGCAATTTACTTTTCAAAGTCGTTGATGCCTCTGTTTAGAGGAGCAA
TTTATTTTTCAAAGTTGAGAGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGTTCGTTACC
TCTATTTAAAGGAGTAATTTACTTTTCAAAGTCGTG
Found at i:17740059 original size:83 final size:82
Alignment explanation
Indices: 17739689--17740020 Score: 382
Period size: 83 Copynumber: 4.0 Consensus size: 82
17739679 AGTTTTGTTA
* * * * * * *
17739689 CCTCTGTTTAGAGGAACAATTTACTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGTAATTTA
1 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG-TACCTCTATTTAGAAGAGTAATTTA
* * *
17739754 TTTTTCAAAGTTGTGATTG
65 CTTTTCAAAGTCGTG-GTG
*
17739773 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTTCGT--TACCTCTGTTTA-AAGGAGTAATT
1 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAG--TCGTGGTACCTCTATTTAGAA-GAGTAATT
*
17739835 TACTTTTCAAAGTTGTGGTTG
63 TACTTTTCAAAGTCGTGG-TG
* * * * *
17739856 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTA
1 CCTCTATTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTACCTCTATTTAGAAGAGTAATTTA
* *
17739921 CTTTTCAAAAGTTGAGGTG
65 CTTTTC-AAAGTCGTGGTG
* *
17739940 CCTCTATTTAGAGGAGCGATTTACTTTCCAAAGTCGTGGTACCTCTATTTAGAAGAGTAATTTAC
1 CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAGAAGAGTAATTTAC
17740005 TTTTCAAAGTCGTGGT
66 TTTTCAAAGTCGTGGT
17740021 ACTTTTGATT
Statistics
Matches: 218, Mismatches: 21, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
82 14 0.06
83 102 0.47
84 89 0.41
85 10 0.05
86 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (82 bp):
CCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTATTTAGAAGAGTAATTTAC
TTTTCAAAGTCGTGGTG
Found at i:17740097 original size:125 final size:124
Alignment explanation
Indices: 17739689--17740099 Score: 406
Period size: 125 Copynumber: 3.3 Consensus size: 124
17739679 AGTTTTGTTA
* * * * *
17739689 CCTCTGTTTAGAGGA-ACAATTTACTTTCCAAAGTTGTGGTTGCCTCTGTTTAGAGGAGTAATTT
1 CCTCTGATTAGAGGAGTC-ATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGTAATTT
* *
17739753 ATTTTTCAAAGTTGTGATTGCCTCT-ATTTAGAGGAGCAATTTACTTTTCAAAGTTTCGTT-A-
65 ACTTTTCAAAGTCGTGA-TGCCTCTGA-TTAGAGGAGCAATTTACTTTTCAAAG--TCGTTGAG
* * * * *
17739814 CCTCTGTTTAAAGGAGTAATTTACTTTT-CAAAGTTGTGGTTGCCTCTATTTAGAGGAGCAATTT
1 CCTCTGATTAGAGGAGTCATTTA-TTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGTAATTT
* * ** *
17739878 ACTTTTCAAAAGTCGTGATGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTTGAGGTG
65 ACTTTTC-AAAGTCGTGATGCCTCTGATTAGAGGAGCAATTTACTTTTC-AAAGTCGTTGAG
* * *
17739940 CCTCT-ATTTAGAGGAG-CGATTTACTTTCCAAAGTCGTGG-TACCTCTATTTAGAAGAGTAATT
1 CCTCTGA-TTAGAGGAGTC-ATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGTAATT
* * * * ** * *
17740002 TACTTTTCAAAGTCGTGGTACTTTTGATTAGATAAGCCATTTATTTTTTCAAAGTCGTTGAG
64 TACTTTTCAAAGTCGTGATGCCTCTGATTAGAGGAGCAATTTA-CTTTTCAAAGTCGTTGAG
17740064 CCTCTGATTAGAGGAGTCATTTATTTTTCCAAAGTC
1 CCTCTGATTAGAGGAGTCATTTA-TTTTCCAAAGTC
17740100 ATCGAGCCTC
Statistics
Matches: 237, Mismatches: 35, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
124 56 0.24
125 137 0.58
126 44 0.19
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (124 bp):
CCTCTGATTAGAGGAGTCATTTATTTTCCAAAGTCGTGGTTGCCTCTATTTAGAGGAGTAATTTA
CTTTTCAAAGTCGTGATGCCTCTGATTAGAGGAGCAATTTACTTTTCAAAGTCGTTGAG
Found at i:17740201 original size:15 final size:14
Alignment explanation
Indices: 17740172--17740200 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17740162 AGCTTTGATC
17740172 ACATTAAAAAAAAA
1 ACATTAAAAAAAAA
17740186 ACATTAAAAAAAAA
1 ACATTAAAAAAAAA
17740200 A
1 A
17740201 AAACAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
ACATTAAAAAAAAA
Found at i:17740356 original size:46 final size:44
Alignment explanation
Indices: 17740213--17740365 Score: 229
Period size: 43 Copynumber: 3.5 Consensus size: 44
17740203 ACAAAAATTA
* *
17740213 CCTCTGTTTAGAGGAGCTTTGTTTA-TTTTCAAAAGTCGTTCAG
1 CCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAG
*
17740256 CCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAG
17740299 CCTCTGATTAGAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGAG
1 CCTCTGATTAGAGGAGCTTTGTTTA--TTTTTCAAAAGTCGTTGAG
* *
17740345 CCTCTGCTTAGAGGAGTTTTG
1 CCTCTGATTAGAGGAGCTTTG
17740366 AAAATGTCGA
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
43 58 0.58
44 5 0.05
45 6 0.06
46 31 0.31
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (44 bp):
CCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAAGTCGTTGAG
Found at i:17740593 original size:7 final size:7
Alignment explanation
Indices: 17740577--17740619 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
17740567 TCCTTTATCT
17740577 TTTATGTA
1 TTTAT-TA
17740585 TTTATTA
1 TTTATTA
17740592 TTTACTTA
1 TTTA-TTA
17740600 TTTATTA
1 TTTATTA
*
17740607 -TTACTA
1 TTTATTA
17740613 TTTATTA
1 TTTATTA
17740620 ATATATGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 5 0.16
7 14 0.45
8 12 0.39
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:17740653 original size:10 final size:10
Alignment explanation
Indices: 17740633--17740673 Score: 66
Period size: 10 Copynumber: 4.2 Consensus size: 10
17740623 TATGTATATC
17740633 TTTTTTT-TT
1 TTTTTTTCTT
*
17740642 TTTTTCTCTT
1 TTTTTTTCTT
17740652 TTTTTTTCTT
1 TTTTTTTCTT
17740662 TTTTTTTCTT
1 TTTTTTTCTT
17740672 TT
1 TT
17740674 CTATTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
9 6 0.21
10 23 0.79
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:17740653 original size:17 final size:18
Alignment explanation
Indices: 17740631--17740664 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17740621 TATATGTATA
17740631 TCTTTTTTTTT-TTTTTC
1 TCTTTTTTTTTCTTTTTC
17740648 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
17740665 TTTTCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TCTTTTTTTTTCTTTTTC
Found at i:17740721 original size:4 final size:4
Alignment explanation
Indices: 17740681--17740853 Score: 53
Period size: 4 Copynumber: 43.8 Consensus size: 4
17740671 TTTCTATTAA
* * * * *
17740681 TATT TATA TATG TATTT TATT TATC TAGT TATA TATT TA-T TA-T TATT
1 TATT TATT TATT TA-TT TATT TATT TATT TATT TATT TATT TATT TATT
* * * *
17740728 TATT CATT TATA TATT ATGATT TATC T-GT TA-T TA-T TATT T-TT TATT
1 TATT TATT TATT TATT -T-ATT TATT TATT TATT TATT TATT TATT TATT
* * * *
17740774 TATCT TGTAA TATT T-TT TATT TATCT TA-T TA-T TATT T-TT T-TC TAAT
1 TAT-T TAT-T TATT TATT TATT TAT-T TATT TATT TATT TATT TATT TATT
* *
17740820 TATC TATT AATATT TTTT TATT TATTT TATT TAT
1 TATT TATT --TATT TATT TATT TA-TT TATT TAT
17740854 CTGATTTTTT
Statistics
Matches: 125, Mismatches: 29, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
3 30 0.24
4 71 0.57
5 17 0.14
6 7 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (4 bp):
TATT
Found at i:17740738 original size:26 final size:25
Alignment explanation
Indices: 17740681--17740853 Score: 106
Period size: 24 Copynumber: 7.3 Consensus size: 25
17740671 TTTCTATTAA
*
17740681 TATTTATATATGTATTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
*
17740706 TAGTTATATATTTATTATTATTTAT-
1 TATTTATATATTTATT-TTATTTATC
*
17740731 TCATTTATATA-TTA--TGATTTATC
1 T-ATTTATATATTTATTTTATTTATC
* *
17740754 T-GTTAT-TATTATTTTTTATTTATC
1 TATTTATATATT-TATTTTATTTATC
*
17740778 T-TGTA-ATA-TT-TTTTATTTATC
1 TATTTATATATTTATTTTATTTATC
* *
17740799 T-TATTAT-TATTTTTTTCTAATTATC
1 TAT-TTATATATTTATTT-TATTTATC
*
17740824 TA-TTA-ATATTT-TTTTATTTATTT
1 TATTTATATATTTATTTTATTTA-TC
17740847 TATTTAT
1 TATTTAT
17740854 CTGATTTTTT
Statistics
Matches: 117, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
20 2 0.02
21 18 0.15
22 18 0.15
23 10 0.09
24 27 0.23
25 26 0.22
26 16 0.14
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (25 bp):
TATTTATATATTTATTTTATTTATC
Found at i:17740789 original size:21 final size:20
Alignment explanation
Indices: 17740763--17740848 Score: 75
Period size: 21 Copynumber: 4.0 Consensus size: 20
17740753 CTGTTATTAT
17740763 TATTTTTTATTTATCTTGTAA
1 TATTTTTTATTTATCTT-TAA
17740784 TATTTTTTATTTATCTTATTATTA
1 TATTTTTTATTTATC-T-TTA--A
* *
17740808 TTTTTTTCTAATTATCTATTAA
1 TATTTTT-TATTTATCT-TTAA
17740830 TATTTTTTTATTTAT-TTTA
1 TA-TTTTTTATTTATCTTTA
17740849 TTTATCTGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.05
21 16 0.29
22 11 0.20
23 6 0.11
24 12 0.22
25 7 0.13
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (20 bp):
TATTTTTTATTTATCTTTAA
Found at i:17740806 original size:46 final size:47
Alignment explanation
Indices: 17740747--17740864 Score: 136
Period size: 46 Copynumber: 2.5 Consensus size: 47
17740737 ATATATTATG
* *
17740747 ATTTATC-TGTTATTATTATTTTT-TATTTATCT-TGTAATA-TTTTTT
1 ATTTATCTTATTATTATT-TTTTTCTAATTATCTAT-TAATATTTTTTT
17740792 ATTTATCTTATTATTATTTTTTTCTAATTATCTATTAATATTTTTTT
1 ATTTATCTTATTATTATTTTTTTCTAATTATCTATTAATATTTTTTT
*
17740839 ATTTATTTTATTTATCTGATTTTTTT
1 ATTTATCTTA-TTAT-T-ATTTTTTT
17740865 TTTCATTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
45 12 0.19
46 22 0.35
47 16 0.25
48 4 0.06
49 1 0.02
50 8 0.13
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (47 bp):
ATTTATCTTATTATTATTTTTTTCTAATTATCTATTAATATTTTTTT
Found at i:17741777 original size:16 final size:16
Alignment explanation
Indices: 17741738--17741862 Score: 56
Period size: 16 Copynumber: 7.2 Consensus size: 16
17741728 TCGTTTTCTT
17741738 TTTATTATTTT-TATTA
1 TTTATTATTTTAT-TTA
**
17741754 TTCCTTATTTTATTTA
1 TTTATTATTTTATTTA
17741770 TTTATTATTATTATATTA
1 TTTATTATT-TTAT-TTA
* * *
17741788 GGGTTGTTTAATATTTTTTTCTT
1 ------TTTATTATTTTATT-TA
*
17741811 TTCTATTTTTTTATTTA
1 TT-TATTATTTTATTTA
*
17741828 TTT-TCATTTTATTTA
1 TTTATTATTTTATTTA
*
17741843 TTTTTTATTTTTATTTA
1 TTTATTA-TTTTATTTA
17741860 TTT
1 TTT
17741863 TATTTTCTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 25
0.68 0.12 0.21
Matches are distributed among these distances:
15 13 0.16
16 22 0.27
17 22 0.27
18 12 0.15
22 1 0.01
23 4 0.05
24 8 0.10
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTATTTTATTTA
Found at i:17741837 original size:15 final size:14
Alignment explanation
Indices: 17741819--17741873 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 14
17741809 TTTTCTATTT
17741819 TTTTATTTATTTTCA
1 TTTTATTTATTTT-A
17741834 TTTTATTTATTTTTTA
1 TTTTATTTA--TTTTA
17741850 TTTTTATTTATTTTA
1 -TTTTATTTATTTTA
*
17741865 TTTTCTTTA
1 TTTTATTTA
17741874 AATAAAATTC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 8 0.22
15 14 0.39
16 1 0.03
17 13 0.36
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:17742025 original size:61 final size:61
Alignment explanation
Indices: 17741902--17742178 Score: 303
Period size: 61 Copynumber: 4.5 Consensus size: 61
17741892 TAAAAAAATA
*
17741902 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGTTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC-AAAAAAGGTTTT
* * * *
17741964 TTTTTTAGGAAAGGTTGAAAGTATCAA-TTTTCTTTAAGAATAAATCTTCAAAAAGGGTTTT
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC-TTAAGAATAAATTTTCAAAAAAGGTTTT
* * * * * ** **** *
17742025 TTTTTGAAGAAAAATTAAAAGTATCAATATTTT-TCGAA-ATTAAAAATTCAAAAAAAAAATA
1 TTTTTGAGGAAAAGTTGAAAGTATCAAT-TTTTCT-TAAGAATAAATTTTCAAAAAAGGTTTT
* *
17742086 TTTTT-AGGGAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGG-TTT
1 TTTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAGGTTTT
17742146 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
1 TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
17742179 CTTGTACAAA
Statistics
Matches: 176, Mismatches: 31, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
60 38 0.22
61 92 0.52
62 42 0.24
63 4 0.02
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (61 bp):
TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAGGTTTT
Found at i:17745236 original size:93 final size:93
Alignment explanation
Indices: 17745131--17745321 Score: 303
Period size: 93 Copynumber: 2.1 Consensus size: 93
17745121 TTAAATATTG
* * *
17745131 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTAAAATACGT-TTTCACTTTAAG
1 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTCAAAATACATCTTT-ACTTCAAG
* *
17745195 AGTATTTAAAAATCTCATTTATTTTTTTA
65 AGTATTCAAAAATCTCATTTATTTTCTTA
17745224 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTCAAAATACATCTTTACTTCAAGA
1 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTCAAAATACATCTTTACTTCAAGA
* *
17745289 GTATTCAAGAATCTTATTTATTTTCTTA
66 GTATTCAAAAATCTCATTTATTTTCTTA
17745317 AAAAT
1 AAAAT
17745322 GCTCCTCCAT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 87 0.97
94 3 0.03
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (93 bp):
AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTCAAAATACATCTTTACTTCAAGA
GTATTCAAAAATCTCATTTATTTTCTTA
Found at i:17745265 original size:44 final size:44
Alignment explanation
Indices: 17745131--17745270 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 44
17745121 TTAAATATTG
17745131 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTA
1 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTA
* * * ** * ** ** *
17745175 AAATACGTTTTCAC-TTTAAGAGTATTTAAAAATCTCATTTATTTTTTTA
1 AAA-A-----TAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTA
*
17745224 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTCA
1 AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTA
17745268 AAA
1 AAA
17745271 TACATCTTTA
Statistics
Matches: 66, Mismatches: 23, Indels: 14
0.64 0.22 0.14
Matches are distributed among these distances:
43 3 0.05
44 30 0.45
45 1 0.02
48 1 0.02
49 28 0.42
50 3 0.05
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.44
Consensus pattern (44 bp):
AAAATAACTTTTAAGATTATTCATCAATATGGTAGAATTTTTTA
Found at i:17745388 original size:18 final size:18
Alignment explanation
Indices: 17745352--17745389 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
17745342 AATCAATTTT
*
17745352 ATTTTATTTTTTGTTAAA
1 ATTTTATTTTTTGTGAAA
17745370 ATTTTATTTTTAT-TGAAA
1 ATTTTATTTTT-TGTGAAA
17745388 AT
1 AT
17745390 ATATTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTTTATTTTTTGTGAAA
Found at i:17745927 original size:26 final size:28
Alignment explanation
Indices: 17745874--17745929 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
17745864 TTGAGACAAA
* *
17745874 TTTAGAAAAATTTCTCATCTAGAGATTT
1 TTTAGAAAAATTTATCATCTAGAAATTT
*
17745902 TTTA-AAAAATTTATCAT-TTGAAATTT
1 TTTAGAAAAATTTATCATCTAGAAATTT
17745928 TT
1 TT
17745930 AATAATCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.36
27 12 0.48
28 4 0.16
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (28 bp):
TTTAGAAAAATTTATCATCTAGAAATTT
Found at i:17746245 original size:7 final size:7
Alignment explanation
Indices: 17746233--17746260 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
17746223 AAAATACTTT
17746233 AAAAATA
1 AAAAATA
17746240 AAAAATA
1 AAAAATA
17746247 AAAAATA
1 AAAAATA
17746254 AAAAATA
1 AAAAATA
17746261 CTAAAACAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:17752228 original size:30 final size:30
Alignment explanation
Indices: 17752192--17752260 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
17752182 ATGAATTTGC
* *
17752192 AGAGCTTCTACCAGTTTGACCGGATCGAGG
1 AGAGCTTCTACCAGTTTGACCAGATAGAGG
*
17752222 AGAGCTTCTACCAGTTTGGCCAGATAGAGG
1 AGAGCTTCTACCAGTTTGACCAGATAGAGG
17752252 AGAGCTTCT
1 AGAGCTTCT
17752261 GGCTGTTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (30 bp):
AGAGCTTCTACCAGTTTGACCAGATAGAGG
Found at i:17759557 original size:19 final size:19
Alignment explanation
Indices: 17759515--17759555 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17759505 AAAATGATTT
*
17759515 AAAATTTAATAATTATAAA
1 AAAATTTAATAAATATAAA
*
17759534 TAAATTTAATAAA-ATAAA
1 AAAATTTAATAAATATAAA
17759552 AAAA
1 AAAA
17759556 ATATTTTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATTTAATAAATATAAA
Found at i:17759603 original size:18 final size:19
Alignment explanation
Indices: 17759565--17759603 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
17759555 AATATTTTAT
* *
17759565 ATTTTTATATTAATATGTA
1 ATTTTTATATTAAAATATA
17759584 ATTTTTATA-TAAAATATA
1 ATTTTTATATTAAAATATA
17759602 AT
1 AT
17759604 ATAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
ATTTTTATATTAAAATATA
Found at i:17759839 original size:43 final size:43
Alignment explanation
Indices: 17759778--17759859 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
17759768 TATATATCCA
17759778 ACATATTTATGTTAGTTTGAATATATAGCCAACCCAAGTGGCT
1 ACATATTTATGTTAGTTTGAATATATAGCCAACCCAAGTGGCT
* *
17759821 ACATATTTATGTTGGTTTGAATATTTAGCCAACCCAAGT
1 ACATATTTATGTTAGTTTGAATATATAGCCAACCCAAGT
17759860 AGGATGAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (43 bp):
ACATATTTATGTTAGTTTGAATATATAGCCAACCCAAGTGGCT
Found at i:17760868 original size:21 final size:21
Alignment explanation
Indices: 17760844--17760884 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17760834 CATAGCATGA
*
17760844 ATTTATCATG-CATAATATAAC
1 ATTTAT-ATGACATAAAATAAC
17760865 ATTTATATGACATAAAATAA
1 ATTTATATGACATAAAATAA
17760885 AACATTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTTATATGACATAAAATAAC
Found at i:17775975 original size:20 final size:20
Alignment explanation
Indices: 17775929--17775975 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
17775919 GTACATTCAT
*
17775929 ATCGAGAAAGAAAGAAACGC
1 ATCGAGGAAGAAAGAAACGC
17775949 ATCGAGGAAGAAAGAAACGC
1 ATCGAGGAAGAAAGAAACGC
17775969 ATCGAGG
1 ATCGAGG
17775976 CAACAATCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.30, T:0.06
Consensus pattern (20 bp):
ATCGAGGAAGAAAGAAACGC
Found at i:17790138 original size:21 final size:20
Alignment explanation
Indices: 17790092--17790139 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
17790082 AGGTATGAGA
*
17790092 TTTTAGAAAAAGAAATTTTTG
1 TTTT-GAAAAAGAAATTTATG
*
17790113 ATTTGAAAAAGAAATTTGATG
1 TTTTGAAAAAGAAATTT-ATG
17790134 TTTTGA
1 TTTTGA
17790140 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (20 bp):
TTTTGAAAAAGAAATTTATG
Found at i:17796477 original size:19 final size:20
Alignment explanation
Indices: 17796432--17796477 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
17796422 AAGATATTTT
17796432 ATTAATTAAAATAATAAAAA
1 ATTAATTAAAATAATAAAAA
17796452 ATT-ATTAAAAT-ATAAAAA
1 ATTAATTAAAATAATAAAAA
*
17796470 TTTAATTA
1 ATTAATTA
17796478 GACTTGTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 12 0.50
20 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAATTAAAATAATAAAAA
Found at i:17800182 original size:23 final size:22
Alignment explanation
Indices: 17800150--17800199 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
17800140 TAACCCTAAC
17800150 ATTTTCTTGTCGAAATTTGATTT
1 ATTTTCTTGTCGAAATTTGA-TT
* * * *
17800173 ATTTTGTTGTTGAATTTTTATT
1 ATTTTCTTGTCGAAATTTGATT
17800195 ATTTT
1 ATTTT
17800200 TCATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.64
Consensus pattern (22 bp):
ATTTTCTTGTCGAAATTTGATT
Found at i:17801269 original size:28 final size:28
Alignment explanation
Indices: 17801229--17801288 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
17801219 CACATGTTAG
17801229 GCTTTTTTGTTTACTTATTAATTATTAT
1 GCTTTTTTGTTTACTTATTAATTATTAT
17801257 GCTTTTTTGTTTACTTATTAATTATTAT
1 GCTTTTTTGTTTACTTATTAATTATTAT
17801285 -CTTT
1 GCTTT
17801289 CACTATTGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.20, C:0.08, G:0.07, T:0.65
Consensus pattern (28 bp):
GCTTTTTTGTTTACTTATTAATTATTAT
Found at i:17810111 original size:21 final size:22
Alignment explanation
Indices: 17810085--17810127 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
17810075 ATTTTTTATC
*
17810085 CTTAATTTTAG-GATACAAATA
1 CTTAATTCTAGAGATACAAATA
17810106 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
17810128 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:17816153 original size:22 final size:21
Alignment explanation
Indices: 17816122--17816162 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
17816112 TAATATGATT
*
17816122 TAAAATTTTAATAATAATTATA
1 TAAAAATTTAATAA-AATTATA
17816144 TAAAAATTTAATAAAATTA
1 TAAAAATTTAATAAAATTA
17816163 AAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAAAATTTAATAAAATTATA
Found at i:17817349 original size:25 final size:25
Alignment explanation
Indices: 17817321--17817368 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
17817311 AAAATTTAAA
* * *
17817321 TTATATTATTTTTATGTTTTATTTT
1 TTATATCATATTTATATTTTATTTT
17817346 TTATATCATATTTATATTTTATT
1 TTATATCATATTTATATTTTATT
17817369 ATCGTATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
TTATATCATATTTATATTTTATTTT
Found at i:17817359 original size:18 final size:19
Alignment explanation
Indices: 17817338--17817388 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
17817328 ATTTTTATGT
17817338 TTTATTTTTTA-TATCATA
1 TTTATTTTTTATTATCATA
* *
17817356 TTTATATTTTATTATCGTA
1 TTTATTTTTTATTATCATA
* *
17817375 TGTATTTTATATTA
1 TTTATTTTTTATTA
17817389 ACATGTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTATTTTTTATTATCATA
Found at i:17817625 original size:20 final size:20
Alignment explanation
Indices: 17817600--17817641 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17817590 AAACCAAAAG
17817600 AACAGAGCCAAACAGAGAGA
1 AACAGAGCCAAACAGAGAGA
** *
17817620 AACAGAGGGAAACCGAGAGA
1 AACAGAGCCAAACAGAGAGA
17817640 AA
1 AA
17817642 TTTTTTCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.17, G:0.29, T:0.00
Consensus pattern (20 bp):
AACAGAGCCAAACAGAGAGA
Found at i:17825463 original size:34 final size:34
Alignment explanation
Indices: 17825425--17825494 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 34
17825415 AAGCTTTCGT
*
17825425 AAATAAATCTTTGAAAAGTTATAAATCTTTTCAA
1 AAATAAATCTTTGAAAAATTATAAATCTTTTCAA
* * * *
17825459 AAATAAATTTTTTAAAAATTATAAATTTTTTGAA
1 AAATAAATCTTTGAAAAATTATAAATCTTTTCAA
17825493 AA
1 AA
17825495 TGAATTTTAG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (34 bp):
AAATAAATCTTTGAAAAATTATAAATCTTTTCAA
Found at i:17825484 original size:18 final size:18
Alignment explanation
Indices: 17825427--17825495 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
17825417 GCTTTCGTAA
* *
17825427 ATAAATCTTTGAAAAGTT
1 ATAAATCTTTTAAAAATT
*
17825445 ATAAATCTTTTCAAAA--
1 ATAAATCTTTTAAAAATT
*
17825461 ATAAATTTTTTAAAAATT
1 ATAAATCTTTTAAAAATT
* *
17825479 ATAAATTTTTTGAAAAT
1 ATAAATCTTTTAAAAAT
17825496 GAATTTTAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
16 14 0.33
18 29 0.67
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ATAAATCTTTTAAAAATT
Found at i:17828726 original size:46 final size:46
Alignment explanation
Indices: 17828674--17828769 Score: 156
Period size: 46 Copynumber: 2.1 Consensus size: 46
17828664 CTTTCTCTAG
*
17828674 CATGATTGAAATCAAGATATTTTTAGCACATTGCTTAAATCACTTA
1 CATGATTGAAATCAAGATATTTTTACCACATTGCTTAAATCACTTA
** *
17828720 CATGATTGAAATGGAGATATTTTTACCGCATTGCTTAAATCACTTA
1 CATGATTGAAATCAAGATATTTTTACCACATTGCTTAAATCACTTA
17828766 CATG
1 CATG
17828770 TGCTGCAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (46 bp):
CATGATTGAAATCAAGATATTTTTACCACATTGCTTAAATCACTTA
Found at i:17837920 original size:101 final size:99
Alignment explanation
Indices: 17837766--17837968 Score: 309
Period size: 102 Copynumber: 2.0 Consensus size: 99
17837756 CAACAGAGTG
* *
17837766 TGATAAGAAAAGTTGTTTCTTTTTTTTTTTAATTTCACAATTTGTTT-TTTTTTTAACAAAAAGG
1 TGATAAGAAAAGTTGTTTCTTTTTTTTTTTAATTTCACAAATTGTTTGGTTTTTTAACAAAAAGG
* *
17837830 TAAGATATTTTTTAATTAATGTTCTAAAATTTAA
66 TAAGAGATTTTTTAATTAATGTCCTAAAATTTAA
* * *
17837864 TGATAAGAAGAGTTGTTGTTGTTTTTTTCTTTTTATTTCACAAATTGTTTGGTTTTTTAACAAAA
1 TGATAAGAAAAGTTG-T-TTCTTTTTTT-TTTTAATTTCACAAATTGTTTGGTTTTTTAACAAAA
17837929 AGGTAAGAGATTTTTTAATTAATGTCCTAAAATTTAA
63 AGGTAAGAGATTTTTTAATTAATGTCCTAAAATTTAA
17837966 TGA
1 TGA
17837969 ACTGTTTCAC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
98 14 0.15
99 1 0.01
100 9 0.10
101 19 0.20
102 51 0.54
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (99 bp):
TGATAAGAAAAGTTGTTTCTTTTTTTTTTTAATTTCACAAATTGTTTGGTTTTTTAACAAAAAGG
TAAGAGATTTTTTAATTAATGTCCTAAAATTTAA
Found at i:17847616 original size:15 final size:15
Alignment explanation
Indices: 17847596--17847624 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17847586 ACTGGCGAGC
17847596 TCAATTTTGTCATGG
1 TCAATTTTGTCATGG
17847611 TCAATTTTGTCATG
1 TCAATTTTGTCATG
17847625 CAAGTCACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (15 bp):
TCAATTTTGTCATGG
Found at i:17850187 original size:14 final size:16
Alignment explanation
Indices: 17850170--17850205 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
17850160 ATAATGGAAA
17850170 AATAAATTAATT-TT-
1 AATAAATTAATTATTG
17850184 AATAAATTAATTATTG
1 AATAAATTAATTATTG
17850200 AATAAA
1 AATAAA
17850206 ATATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 12 0.60
15 2 0.10
16 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAAATTAATTATTG
Found at i:17856415 original size:29 final size:29
Alignment explanation
Indices: 17856383--17856441 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
17856373 ATCAACGGCT
17856383 TGTGGAAACTGATATACATGGTTTGAAGA
1 TGTGGAAACTGATATACATGGTTTGAAGA
17856412 TGTGGAAACTGATATACATGGTTTGAAGA
1 TGTGGAAACTGATATACATGGTTTGAAGA
17856441 T
1 T
17856442 ATGCTACTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (29 bp):
TGTGGAAACTGATATACATGGTTTGAAGA
Found at i:17865463 original size:31 final size:31
Alignment explanation
Indices: 17865425--17865489 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
17865415 AATAGATCCT
17865425 ACTATATTAATCTAATTGCTTCCACTCTATA
1 ACTATATTAATCTAATTGCTTCCACTCTATA
*
17865456 ACTATATTAATCTAATTGCTTTCACTCTATA
1 ACTATATTAATCTAATTGCTTCCACTCTATA
17865487 ACT
1 ACT
17865490 TCACCTATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.43
Consensus pattern (31 bp):
ACTATATTAATCTAATTGCTTCCACTCTATA
Found at i:17866171 original size:2 final size:2
Alignment explanation
Indices: 17866164--17866188 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17866154 TTTCCTTAAT
17866164 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 T
17866189 TTCAAAGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17874799 original size:15 final size:15
Alignment explanation
Indices: 17874779--17874809 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17874769 AACAAAATAC
17874779 AAAACAAGAGCTTTA
1 AAAACAAGAGCTTTA
17874794 AAAACAAGAGCTTTA
1 AAAACAAGAGCTTTA
17874809 A
1 A
17874810 GAGGCGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (15 bp):
AAAACAAGAGCTTTA
Found at i:17876270 original size:15 final size:16
Alignment explanation
Indices: 17876243--17876274 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
17876233 AAAATATGAT
17876243 TAAAAAATAATATAAA
1 TAAAAAATAATATAAA
17876259 TAAAAAAT-ATATAAA
1 TAAAAAATAATATAAA
17876274 T
1 T
17876275 TATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAATAATATAAA
Found at i:17876355 original size:33 final size:33
Alignment explanation
Indices: 17876316--17876384 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
17876306 TCAATTTTTT
*
17876316 TTATTAATATAAAATATAATATAAATATATAAA
1 TTATTAATATAAAATACAATATAAATATATAAA
*** *
17876349 TTATTAATATTTTATACAATATAAATTTATAAA
1 TTATTAATATAAAATACAATATAAATATATAAA
17876382 TTA
1 TTA
17876385 CCAAATCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (33 bp):
TTATTAATATAAAATACAATATAAATATATAAA
Found at i:17878567 original size:2 final size:2
Alignment explanation
Indices: 17878560--17878585 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17878550 TCAGACAGAC
17878560 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
17878586 CACACACACA
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:17885604 original size:32 final size:31
Alignment explanation
Indices: 17885563--17885622 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17885553 TGTATTTATA
*
17885563 TTATATAAAATATTAAAATTTATATATTAATG
1 TTATATAAAATA-TAAAAATTATATATTAATG
*
17885595 TTATATAAAATATAAAAATTATGTATTA
1 TTATATAAAATATAAAAATTATATATTA
17885623 TAATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (31 bp):
TTATATAAAATATAAAAATTATATATTAATG
Found at i:17885632 original size:32 final size:32
Alignment explanation
Indices: 17885563--17885622 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
17885553 TGTATTTATA
*
17885563 TTATATAAAATATTAAAATTTATATATTAATG
1 TTATATAAAATATAAAAATTTATATATTAATG
*
17885595 TTATATAAAATATAAAAA-TTATGTATTA
1 TTATATAAAATATAAAAATTTATATATTA
17885623 TAATTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (32 bp):
TTATATAAAATATAAAAATTTATATATTAATG
Found at i:17885749 original size:16 final size:16
Alignment explanation
Indices: 17885702--17885751 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
17885692 AAAATTTTAA
*
17885702 ATTATATTTCTTTCAT
1 ATTATATTTTTTTCAT
*
17885718 ATT-TA--TTTTTCGT
1 ATTATATTTTTTTCAT
*
17885731 ATTATATTTTTTTTAT
1 ATTATATTTTTTTCAT
17885747 ATTAT
1 ATTAT
17885752 CTCATCATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTATATTTTTTTCAT
Done.