Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold452
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: 589716
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
File 2 of 5
Found at i:88526 original size:10 final size:9
Alignment explanation
Indices: 88486--88529 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
88476 AAATTTATTT
*
88486 AAAAGTTAA
1 AAAAATTAA
88495 ATAAAATTAA
1 A-AAAATTAA
*
88505 AATAA-TAA
1 AAAAATTAA
88513 AAAAATTAA
1 AAAAATTAA
88522 AAAAATTA
1 AAAAATTA
88530 TATTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 7 0.23
9 15 0.50
10 8 0.27
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AAAAATTAA
Found at i:88805 original size:19 final size:20
Alignment explanation
Indices: 88778--88816 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
88768 AACTTGAACA
*
88778 AAAAATTTA-TTAATAAAAT
1 AAAAATTTAGTTAACAAAAT
*
88797 AAAAGTTTAGTTAACAAAAT
1 AAAAATTTAGTTAACAAAAT
88817 TTTATAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAATTTAGTTAACAAAAT
Found at i:89548 original size:40 final size:43
Alignment explanation
Indices: 89455--89552 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 43
89445 TTTAATTTAA
89455 ATAAA-AATAAT-TAAAAAATATTTTTATTTATATTATAAAAT
1 ATAAATAATAATATAAAAAATATTTTTATTTATATTATAAAAT
* * ** *
89496 ATAAATATTAATATAAAATAT-TTTTTA-TTAT-TTATTTATT
1 ATAAATAATAATATAAAAAATATTTTTATTTATATTATAAAAT
89536 ATAAATAATAATATAAA
1 ATAAATAATAATATAAA
89553 TAAGTAGGTC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 22 0.45
41 9 0.18
42 11 0.22
43 7 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (43 bp):
ATAAATAATAATATAAAAAATATTTTTATTTATATTATAAAAT
Found at i:89921 original size:20 final size:20
Alignment explanation
Indices: 89874--89921 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
89864 GAAAATTTTT
*
89874 TTAAATATTTTTAATAAATAA
1 TTAAAT-TTTTTAAAAAATAA
*
89895 TTTAATTTTTTAAAAAATTAA
1 TTAAATTTTTTAAAAAA-TAA
89916 -TAAATT
1 TTAAATT
89922 AAACTTGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAATTTTTTAAAAAATAA
Found at i:89946 original size:10 final size:10
Alignment explanation
Indices: 89931--89982 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
89921 TAAACTTGTA
89931 AAATTTAATT
1 AAATTTAATT
89941 AAATTTAATT
1 AAATTTAATT
* *
89951 AGATTTTATAT
1 AAATTTAAT-T
*
89962 AATATTTATTT
1 AA-ATTTAATT
89973 AAATTTAATT
1 AAATTTAATT
89983 TAACTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 24 0.71
11 5 0.15
12 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
AAATTTAATT
Found at i:94833 original size:3 final size:3
Alignment explanation
Indices: 94825--94856 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
94815 TGCACAATTT
94825 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
94857 CAAATCTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:96004 original size:26 final size:24
Alignment explanation
Indices: 95975--96037 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
95965 TGTATAATTT
95975 AAAAATATTATTAAAATTTAATATA
1 AAAAATATTATTAAAATTT-ATATA
** *
96000 AAAAATAAAATTTAAATTTATATA
1 AAAAATATTATTAAAATTTATATA
96024 ATAAAA-ATTATTAA
1 A-AAAATATTATTAA
96038 TATATTAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAATATTATTAAAATTTATATA
Found at i:96045 original size:8 final size:9
Alignment explanation
Indices: 96035--96080 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 9
96025 TAAAAATTAT
96035 TAATATAT-
1 TAATATATA
96043 TAA-AT-TA
1 TAATATATA
96050 TAATATATA
1 TAATATATA
96059 TATATATATA
1 TA-ATATATA
96069 TATATATATA
1 TA-ATATATA
96079 TA
1 TA
96081 TGATATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 1 0.03
7 5 0.15
8 5 0.15
9 4 0.12
10 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TAATATATA
Found at i:96055 original size:15 final size:16
Alignment explanation
Indices: 96028--96057 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
96018 TATATAATAA
96028 AAATTATTAATATATT
1 AAATTATTAATATATT
96044 AAATTA-TAATATAT
1 AAATTATTAATATAT
96058 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATTATTAATATATT
Found at i:96057 original size:2 final size:2
Alignment explanation
Indices: 96048--96086 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
96038 TATATTAAAT
96048 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
96087 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.91
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:96257 original size:21 final size:20
Alignment explanation
Indices: 96212--96266 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
96202 TATATTTTTT
96212 ATTAT-ATTATGTTAATTATA
1 ATTATAATTAT-TTAATTATA
*
96232 TTTATAAATATATTTAA-TATA
1 ATTAT-AAT-TATTTAATTATA
96253 ATTATAATTATTTA
1 ATTATAATTATTTA
96267 TAATAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 6 0.20
20 7 0.23
21 8 0.27
22 6 0.20
23 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTATAATTATTTAATTATA
Found at i:98552 original size:14 final size:14
Alignment explanation
Indices: 98529--98559 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
98519 ATTTAATCAA
98529 TTTAAAATTTTAAT
1 TTTAAAATTTTAAT
*
98543 TTTAATATTTTAAT
1 TTTAAAATTTTAAT
98557 TTT
1 TTT
98560 TTTTTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTAAAATTTTAAT
Found at i:99831 original size:15 final size:15
Alignment explanation
Indices: 99811--99845 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
99801 TTTTATTATA
*
99811 TTTTTAATTTAAAAT
1 TTTTTAATTCAAAAT
*
99826 TTTTTAATTCAAACT
1 TTTTTAATTCAAAAT
99841 TTTTT
1 TTTTT
99846 TCAACAATAA
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:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTAATTCAAAAT
Found at i:102762 original size:74 final size:76
Alignment explanation
Indices: 102635--102785 Score: 252
Period size: 74 Copynumber: 2.0 Consensus size: 76
102625 TTGCATAAAA
* * *
102635 TATGGTAGGCAAGTGGCAAGGTAGGACAGACTTTGGGATTAATTAAATGTTTAATTTGTTACCAA
1 TATGATAGGCAAGTGGCAAGCTAGGACAGACTTTGGGATTAATTAAATGTTTAATTTGTCACCAA
102700 CTTA-TTGGGG
66 CTTATTTGGGG
*
102710 TATGATAGGCAAGTGGCAAGCTA-GACAGATTTTGGGATTAATTAAATGTTTAATTTGTCACCAA
1 TATGATAGGCAAGTGGCAAGCTAGGACAGACTTTGGGATTAATTAAATGTTTAATTTGTCACCAA
102774 CTTATTTGGGG
66 CTTATTTGGGG
102785 T
1 T
102786 CCCATTGCAA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 43 0.61
75 28 0.39
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (76 bp):
TATGATAGGCAAGTGGCAAGCTAGGACAGACTTTGGGATTAATTAAATGTTTAATTTGTCACCAA
CTTATTTGGGG
Found at i:102995 original size:19 final size:18
Alignment explanation
Indices: 102936--102995 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
102926 TATCGATATA
102936 AAATTAATTAAT-TTTT-T
1 AAATT-ATTAATATTTTAT
*
102953 AAA-TATTTATAATTTTAT
1 AAATTATTAAT-ATTTTAT
*
102971 ATATTATTAATATTTTAAT
1 AAATTATTAATATTTT-AT
102990 AAATTA
1 AAATTA
102996 ACGGTTGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 5 0.15
16 1 0.03
17 7 0.21
18 8 0.24
19 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTATTAATATTTTAT
Found at i:103722 original size:2 final size:2
Alignment explanation
Indices: 103715--103742 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
103705 TCTGACTTCC
103715 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
103743 GTATGTATGT
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):
AT
Found at i:103918 original size:21 final size:21
Alignment explanation
Indices: 103894--103936 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
103884 ATTATTAATA
103894 TATTTAATTTTCTCAGAAAGT
1 TATTTAATTTTCTCAGAAAGT
103915 TATTTAATTTTCTCAGAAAGT
1 TATTTAATTTTCTCAGAAAGT
103936 T
1 T
103937 CATGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (21 bp):
TATTTAATTTTCTCAGAAAGT
Found at i:105829 original size:2 final size:2
Alignment explanation
Indices: 105822--105876 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
105812 TGTAAGCAAA
105822 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
105864 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
105877 CACGCACACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:107136 original size:3 final size:3
Alignment explanation
Indices: 107128--107171 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
107118 AAAAGGCTAG
107128 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
107172 CATGCATGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:108067 original size:5 final size:5
Alignment explanation
Indices: 108052--108082 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
108042 ATACGTATTC
108052 AAAAT -AAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
108083 TCAAGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:109019 original size:8 final size:9
Alignment explanation
Indices: 108972--109029 Score: 54
Period size: 8 Copynumber: 7.0 Consensus size: 9
108962 GTTTTTCGAT
108972 TATATAATA
1 TATATAATA
108981 TATAT-ATA
1 TATATAATA
*
108989 TATA-AAGA
1 TATATAATA
108997 -ATA-AATA
1 TATATAATA
109004 TATATAATA
1 TATATAATA
*
109013 T-TATAATG
1 TATATAATA
*
109021 TAAATAATA
1 TATATAATA
109030 AAAAATATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
7 6 0.15
8 19 0.47
9 15 0.38
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (9 bp):
TATATAATA
Found at i:109030 original size:30 final size:32
Alignment explanation
Indices: 108972--109031 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
108962 GTTTTTCGAT
108972 TATATAATATATATATATATAAAGAATAAATA
1 TATATAATATATATATATATAAAGAATAAATA
* *
109004 TATATAATAT-TATA-ATGTAAATAATAAA
1 TATATAATATATATATATATAAAGAATAAA
109032 AAATATGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 4 0.15
32 10 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (32 bp):
TATATAATATATATATATATAAAGAATAAATA
Found at i:109080 original size:26 final size:25
Alignment explanation
Indices: 109051--109110 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
109041 AAATTATTTA
*
109051 TATTTGAAAATTTAATAAAAATAAAT
1 TATTT-AAAATTTAATAAAAACAAAT
109077 TA-TTAAACATTTAATAAAAACAAAT
1 TATTTAAA-ATTTAATAAAAACAAAT
*
109102 TTTTTAAAA
1 TATTTAAAA
109111 CAAAAATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.10
25 20 0.67
26 7 0.23
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (25 bp):
TATTTAAAATTTAATAAAAACAAAT
Found at i:112018 original size:14 final size:15
Alignment explanation
Indices: 111987--112026 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
111977 ATAAATAATT
* *
111987 TATTATATTTTTTAA
1 TATTATATATTATAA
112002 TATT-TATATTATAA
1 TATTATATATTATAA
112016 TATTATATATT
1 TATTATATATT
112027 TTTATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATATATTATAA
Found at i:112038 original size:30 final size:29
Alignment explanation
Indices: 111987--112044 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
111977 ATAAATAATT
111987 TATTATATTTTTTAATATTTATATTATAA
1 TATTATATTTTTTAATATTTATATTATAA
* *
112016 TATTATATATTTTTATTTTTTATATTATA
1 TATTATAT-TTTTTAATATTTATATTATA
112045 TAAATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTATATTTTTTAATATTTATATTATAA
Found at i:112349 original size:15 final size:15
Alignment explanation
Indices: 112331--112363 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
112321 ATAAAAAAAT
112331 AATTA-AAATATAATA
1 AATTATAAATAT-ATA
112346 AATTATAAATATATA
1 AATTATAAATATATA
112361 AAT
1 AAT
112364 ATTTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTATAAATATATA
Found at i:112592 original size:3 final size:3
Alignment explanation
Indices: 112584--112617 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
112574 ATTCCCAAAA
*
112584 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
112618 AATTTCAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:113249 original size:21 final size:20
Alignment explanation
Indices: 113224--113282 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
113214 TCTCATAATT
113224 TTTAAATATAATAATATTATA
1 TTTAAA-ATAATAATATTATA
*
113245 TTTAAAAT-ATTATA-TATA
1 TTTAAAATAATAATATTATA
113263 TTTATAAA-AA-AATATTATA
1 TTTA-AAATAATAATATTATA
113282 T
1 T
113283 ATTTATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 11 0.33
19 14 0.42
20 2 0.06
21 6 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAAATAATAATATTATA
Found at i:113263 original size:23 final size:24
Alignment explanation
Indices: 113227--113293 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 24
113217 CATAATTTTT
* **
113227 AAATATAATA-ATATTATAT-TTA
1 AAATATTATATATATTATATAAAA
113249 AAATATTATATATATT-TATAAAA
1 AAATATTATATATATTATATAAAA
113272 AAATATTATATAT-TTATATAAA
1 AAATATTATATATATTATATAAA
113294 TTTTAATATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 14 0.36
23 25 0.64
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATATTATATATATTATATAAAA
Found at i:113335 original size:14 final size:14
Alignment explanation
Indices: 113286--113336 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
113276 ATTATATATT
113286 TATATAAATTTTAA
1 TATATAAATTTTAA
*
113300 TATATTAATAATTTATAC
1 TATA-T-A-AATTT-TAA
113318 TATATAAATTTTAA
1 TATATAAATTTTAA
113332 TATAT
1 TATAT
113337 TCGTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 2 0.06
17 6 0.19
18 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:114470 original size:2 final size:2
Alignment explanation
Indices: 114458--114490 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
114448 TCGAAATTAT
*
114458 TA TA TA GA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
114491 GTGTGAATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:114961 original size:18 final size:19
Alignment explanation
Indices: 114920--114961 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
114910 TTTATTTAAA
114920 TTTAATTATAAAAATTTAT
1 TTTAATTATAAAAATTTAT
*
114939 ATTAA-TATAAAAATATT-T
1 TTTAATTATAAAAAT-TTAT
114957 TTTAA
1 TTTAA
114962 AAAATAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAATTATAAAAATTTAT
Found at i:116501 original size:28 final size:29
Alignment explanation
Indices: 116465--116528 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
116455 GATTTATAAA
*
116465 TATTATTTATAATTCTATTAAATATTAAT
1 TATTATTTAAAATTCTATTAAATATTAAT
* *
116494 TATT-TTTAAAATTTTATTAAATTTTAAT
1 TATTATTTAAAATTCTATTAAATATTAAT
*
116522 TTTTATT
1 TATTATT
116529 AAATTAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTATTTAAAATTCTATTAAATATTAAT
Found at i:116553 original size:9 final size:9
Alignment explanation
Indices: 116526--116560 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
116516 TTTAATTTTT
116526 ATTAAATTA
1 ATTAAATTA
*
116535 ATCAAAATTA
1 AT-TAAATTA
116545 ATTAAATTA
1 ATTAAATTA
116554 ATTAAAT
1 ATTAAAT
116561 CAATCAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
ATTAAATTA
Found at i:116788 original size:2 final size:2
Alignment explanation
Indices: 116783--116815 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116773 TTTTTTCCTT
116783 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
116816 GTGCACTTTG
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:121230 original size:15 final size:15
Alignment explanation
Indices: 121207--121253 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
121197 TTTAATAAGT
* *
121207 AATTATAAATATTAA
1 AATTTTAAATTTTAA
121222 AATTTTAAATTTTAA
1 AATTTTAAATTTTAA
* *
121237 AATATTATATTTTAA
1 AATTTTAAATTTTAA
121252 AA
1 AA
121254 ATAATTAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTAAATTTTAA
Found at i:121232 original size:22 final size:22
Alignment explanation
Indices: 121207--121252 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
121197 TTTAATAAGT
121207 AATTAT-AAATATTAAAATTTTA
1 AATTATAAAATATT-AAATTTTA
* *
121229 AATTTTAAAATATTATATTTTA
1 AATTATAAAATATTAAATTTTA
121251 AA
1 AA
121253 AATAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTATAAAATATTAAATTTTA
Found at i:121309 original size:6 final size:7
Alignment explanation
Indices: 121292--121317 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
121282 TTTATCATAA
121292 AAAAATT
1 AAAAATT
121299 AAAAATT
1 AAAAATT
121306 AAAAATT
1 AAAAATT
121313 AAAAA
1 AAAAA
121318 GTGAAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
AAAAATT
Found at i:121733 original size:15 final size:14
Alignment explanation
Indices: 121713--121771 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
121703 AATTTAAATA
121713 TAAATTTAGTTTAAT
1 TAAATTTA-TTTAAT
*
121728 TAAATTTATTTATT
1 TAAATTTATTTAAT
**
121742 TAAATTTAAATAAT
1 TAAATTTATTTAAT
*
121756 T--ATTTATTTTAT
1 TAAATTTATTTAAT
121768 TAAA
1 TAAA
121772 AATTTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
12 9 0.26
14 18 0.51
15 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (14 bp):
TAAATTTATTTAAT
Found at i:121738 original size:19 final size:19
Alignment explanation
Indices: 121706--121771 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 19
121696 AATTTTAAAT
*
121706 TTAAATATAAATTTAGTTTAA
1 TTAAATAT-TATTTA-TTTAA
121727 TTAAAT-TTATTTATTTAAA
1 TTAAATATTATTTATTT-AA
*
121746 TTTAAATAATTATTTATTTTA
1 -TTAAAT-ATTATTTATTTAA
121767 TTAAA
1 TTAAA
121772 AATTTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 12 0.31
21 7 0.18
22 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTAAATATTATTTATTTAA
Found at i:121761 original size:41 final size:41
Alignment explanation
Indices: 121699--121780 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
121689 AATTTTAAAT
121699 TTTAAATTTAAATATAAATTTAGTTTAATT-AAATTTATTTA
1 TTTAAATTTAAATATAAATTTA-TTTAATTAAAATTTATTTA
* *
121740 TTTAAATTTAAATA-ATTATTTATTTTATTAAAAATTTATTT
1 TTTAAATTTAAATATA-AATTTATTTAATT-AAAATTTATTT
121781 TTATATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 7 0.19
41 19 0.53
42 10 0.28
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (41 bp):
TTTAAATTTAAATATAAATTTATTTAATTAAAATTTATTTA
Found at i:121766 original size:23 final size:22
Alignment explanation
Indices: 121697--121766 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
121687 ATAATTTTAA
*
121697 ATTTTAAATTTAAATATAAATTT
1 ATTTTAAATTTAAATAT-TATTT
*
121720 AGTTT-AA-TTAAAT-TTATTT
1 ATTTTAAATTTAAATATTATTT
121739 A-TTTAAATTTAAATAATTATTT
1 ATTTTAAATTTAAAT-ATTATTT
121761 ATTTTA
1 ATTTTA
121767 TTAAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 3 0.08
19 7 0.17
20 7 0.17
21 6 0.15
22 9 0.22
23 8 0.20
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (22 bp):
ATTTTAAATTTAAATATTATTT
Found at i:121774 original size:22 final size:19
Alignment explanation
Indices: 121755--121812 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
121745 ATTTAAATAA
*
121755 TTATTTATTTTATTAAAAAT
1 TTATTT-TTATATTAAAAAT
* *
121775 TTATTTTTATATTAATATT
1 TTATTTTTATATTAAAAAT
121794 TATATATTTTATAATTAAA
1 T-TAT-TTTTAT-ATTAAA
121813 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 11 0.35
20 9 0.29
21 6 0.19
22 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTTTATATTAAAAAT
Found at i:122542 original size:23 final size:23
Alignment explanation
Indices: 122506--122551 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
122496 TTGAAAATTT
**
122506 TTAATAAAATAATTTTAAAAAAA
1 TTAATAAAATAATTAAAAAAAAA
122529 TTAATAACAA-AATTAAAAAAAAA
1 TTAATAA-AATAATTAAAAAAAAA
122552 AAACCATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAATAAAATAATTAAAAAAAAA
Found at i:122676 original size:3 final size:3
Alignment explanation
Indices: 122668--122703 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
122658 CTAGTTATGT
122668 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
122704 TCATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:122712 original size:3 final size:3
Alignment explanation
Indices: 122706--122738 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
122696 TAATAATATC
122706 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
122739 AATGTCGTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:123288 original size:18 final size:18
Alignment explanation
Indices: 123262--123314 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
123252 ATTTTATATA
123262 ATATAAATAAAATATATTT
1 ATAT-AATAAAATATATTT
** * *
123281 ATATAATAATTTAAAATT
1 ATATAATAAAATATATTT
*
123299 ATATAATATAATATAT
1 ATATAATAAAATATAT
123315 CATTTATATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATAAAATATATTT
Found at i:123338 original size:45 final size:42
Alignment explanation
Indices: 123255--123338 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 42
123245 TAATTATATT
* *
123255 TTATATAATATAAATAAAATATATTTATATAATAATTTAAAA
1 TTATATAATATAAATAAAATATATTTACATAAGAATTTAAAA
** *
123297 TTATATAATATAATATATCATTTATATTACATATAGAATTTA
1 TTATATAATATAA-ATAAAATATAT-TTACATA-AGAATTTA
123339 CAATAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 13 0.38
43 8 0.24
44 6 0.18
45 7 0.21
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (42 bp):
TTATATAATATAAATAAAATATATTTACATAAGAATTTAAAA
Found at i:123672 original size:3 final size:3
Alignment explanation
Indices: 123666--123695 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
123656 CAACCAAAAT
*
123666 TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
123696 AAACAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:123684 original size:9 final size:9
Alignment explanation
Indices: 123670--123703 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
123660 CAAAATTAAT
123670 AATAATAAA
1 AATAATAAA
*
123679 AATAATAAT
1 AATAATAAA
123688 AATAATAAA
1 AATAATAAA
*
123697 AACAATA
1 AATAATA
123704 TTACTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAATAAA
Found at i:123684 original size:15 final size:15
Alignment explanation
Indices: 123661--123692 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
123651 GTCAACAACC
*
123661 AAAATTAATAATAAT
1 AAAAATAATAATAAT
123676 AAAAATAATAATAAT
1 AAAAATAATAATAAT
123691 AA
1 AA
123693 TAAAAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:128277 original size:17 final size:17
Alignment explanation
Indices: 128251--128291 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
128241 CGGAAGCGTG
*
128251 GCGCATGGTCGGAGTTT
1 GCGCACGGTCGGAGTTT
128268 GCGCACGGTCGGAGTTT
1 GCGCACGGTCGGAGTTT
*
128285 TCGCACG
1 GCGCACG
128292 TACCAGAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.24, G:0.39, T:0.24
Consensus pattern (17 bp):
GCGCACGGTCGGAGTTT
Found at i:128303 original size:2 final size:2
Alignment explanation
Indices: 128296--128332 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
128286 CGCACGTACC
128296 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
128333 AGCAGACAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:128582 original size:26 final size:26
Alignment explanation
Indices: 128553--128605 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
128543 TTGACATAAT
* * *
128553 TATAAATATTTAATAAAATTATTATA
1 TATAAATATATAATAAAAATATCATA
* *
128579 TATATATATATGATAAAAATATCATA
1 TATAAATATATAATAAAAATATCATA
128605 T
1 T
128606 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TATAAATATATAATAAAAATATCATA
Found at i:128626 original size:14 final size:14
Alignment explanation
Indices: 128607--128642 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
128597 ATATCATATT
128607 ATTAAAAATAAAAA
1 ATTAAAAATAAAAA
*
128621 ATTAAAATTAAAAA
1 ATTAAAAATAAAAA
128635 A-TAAAAAT
1 ATTAAAAAT
128643 TTAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
ATTAAAAATAAAAA
Found at i:129426 original size:22 final size:22
Alignment explanation
Indices: 129398--129445 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
129388 ATAAAATGAT
** *
129398 AATAAAAATTTTGAAATTTAGA
1 AATAAAAATTTAAAAATTTAAA
129420 AATAAAAATTTAAAAATTTAAA
1 AATAAAAATTTAAAAATTTAAA
129442 AATA
1 AATA
129446 TTCTCTCTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AATAAAAATTTAAAAATTTAAA
Found at i:134700 original size:6 final size:6
Alignment explanation
Indices: 134680--134719 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
134670 GCTTTGTTTG
* *
134680 TATGTTA TATATA TATGTA TATGTA TATATA TATGTA TAT
1 TATG-TA TATGTA TATGTA TATGTA TATGTA TATGTA TAT
134720 ACATACACGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 26 0.90
7 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (6 bp):
TATGTA
Found at i:134708 original size:18 final size:19
Alignment explanation
Indices: 134680--134719 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
134670 GCTTTGTTTG
134680 TATGTTATATATATATGTA
1 TATGTTATATATATATGTA
134699 TATG-TATATATATATGTA
1 TATGTTATATATATATGTA
134717 TAT
1 TAT
134720 ACATACACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.53
Consensus pattern (19 bp):
TATGTTATATATATATGTA
Found at i:134957 original size:36 final size:35
Alignment explanation
Indices: 134893--134965 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 35
134883 TTAAAAAGAT
134893 ATTCATTAAGTCCATATTAATACCAATTATTAATAAA
1 ATTCATTAAG-CCATATTAATACCAATTATT-ATAAA
**
134930 ATTCATTAAG-CATAATTAATATTAATTATTATAAA
1 ATTCATTAAGCCAT-ATTAATACCAATTATTATAAA
134965 A
1 A
134966 AAATTAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 9 0.27
36 14 0.42
37 10 0.30
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (35 bp):
ATTCATTAAGCCATATTAATACCAATTATTATAAA
Found at i:136199 original size:15 final size:15
Alignment explanation
Indices: 136179--136214 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
136169 ATATTATTTT
136179 TTTAATTTTT-TTAAA
1 TTTAATTTTTATT-AA
136194 TTTAATTTTTATTAA
1 TTTAATTTTTATTAA
136209 TTTAAT
1 TTTAAT
136215 AATTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.90
16 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTAATTTTTATTAA
Found at i:136316 original size:17 final size:16
Alignment explanation
Indices: 136296--136342 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
136286 GTTTATTTTT
136296 TATATATTATAAATACA
1 TATATA-TATAAATACA
136313 TATATATATAAATACA
1 TATATATATAAATACA
* *
136329 AAGATAATATAAAT
1 TATAT-ATATAAAT
136343 TATAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
TATATATATAAATACA
Found at i:136317 original size:34 final size:34
Alignment explanation
Indices: 136254--136321 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
136244 AACAACTTAA
* *
136254 TTATTTTTTAATATTTACACTATATTATATATGT
1 TTATTTTTTAATATTTACAATACATTATATATGT
136288 TTATTTTTTATATATTATA-AATACATATATATAT
1 TTATTTTTTA-ATATT-TACAATACAT-TATATAT
136322 AAATACAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 10 0.34
35 10 0.34
36 9 0.31
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (34 bp):
TTATTTTTTAATATTTACAATACATTATATATGT
Found at i:136561 original size:16 final size:16
Alignment explanation
Indices: 136500--136571 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
136490 TATATATATA
*
136500 TTTATATAAATTTTTAT
1 TTTATATAAA-TCTTAT
136517 TTTATA-AGTAATC-TAT
1 TTTATATA--AATCTTAT
136533 TTTATAT-AA-CTTAT
1 TTTATATAAATCTTAT
136547 TTTATATAAATCTTAAT
1 TTTATATAAATCTT-AT
136564 ATTTATAT
1 -TTTATAT
136572 TATATATTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
13 1 0.02
14 12 0.26
15 2 0.04
16 13 0.28
17 9 0.20
18 9 0.20
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (16 bp):
TTTATATAAATCTTAT
Found at i:136664 original size:2 final size:2
Alignment explanation
Indices: 136657--136688 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
136647 TCTATTGTTC
*
136657 CT CT CT CT CT CT CT CG CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
136689 TAATCAGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
CT
Found at i:138137 original size:17 final size:16
Alignment explanation
Indices: 138110--138141 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
138100 CCAAATTGAT
138110 AAAAGTCAAAAGTTTG
1 AAAAGTCAAAAGTTTG
138126 AAAAGTTCAAAAGTTT
1 AAAAG-TCAAAAGTTT
138142 TCTAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (16 bp):
AAAAGTCAAAAGTTTG
Found at i:144250 original size:19 final size:19
Alignment explanation
Indices: 144209--144252 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
144199 AACTTTTAAA
144209 TTTAAT-TATAAAATATAT
1 TTTAATATATAAAATATAT
*
144227 ATTAATATA-AAAATAATAT
1 TTTAATATATAAAAT-ATAT
144246 TTTAATA
1 TTTAATA
144253 ATTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAATATATAAAATATAT
Found at i:144761 original size:17 final size:17
Alignment explanation
Indices: 144739--144773 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
144729 AAGTCGAATC
144739 AAATTAAAATTT-AGTTT
1 AAATT-AAATTTGAGTTT
144756 AAATTAAATTTGAGTTT
1 AAATTAAATTTGAGTTT
144773 A
1 A
144774 GATTTTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (17 bp):
AAATTAAATTTGAGTTT
Found at i:145445 original size:3 final size:3
Alignment explanation
Indices: 145439--145478 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
145429 TGACGACGAC
145439 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
145479 CATCATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:146225 original size:14 final size:15
Alignment explanation
Indices: 146208--146236 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
146198 ATAAATATAC
146208 TCTTTAA-AATTTAA
1 TCTTTAATAATTTAA
146222 TCTTTAATAATTTAA
1 TCTTTAATAATTTAA
146237 CATTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (15 bp):
TCTTTAATAATTTAA
Found at i:146338 original size:7 final size:7
Alignment explanation
Indices: 146326--146366 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
146316 AGATAAAAAT
146326 TATATAA
1 TATATAA
146333 TATATAA
1 TATATAA
146340 -ATATAA
1 TATATAA
*
146346 AAT-TAA
1 TATATAA
*
146352 TATATAT
1 TATATAA
146359 TATATAA
1 TATATAA
146366 T
1 T
146367 TAAAAAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATATAA
Found at i:146354 original size:24 final size:25
Alignment explanation
Indices: 146312--146365 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
146302 ATTTATTTTT
146312 TATAAGATAAAAATTATATA-A-TA
1 TATAAGATAAAAATTATATATATTA
146335 TATAA-ATATAAAATTAATATATATTA
1 TATAAGATA-AAAATT-ATATATATTA
146361 TATAA
1 TATAA
146366 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.11
23 11 0.41
24 5 0.19
25 1 0.04
26 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
TATAAGATAAAAATTATATATATTA
Found at i:146716 original size:20 final size:20
Alignment explanation
Indices: 146691--146747 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
146681 TAAATAAATA
146691 TATTTTTATTTTTATTTATT
1 TATTTTTATTTTTATTTATT
**
146711 TATTTTTAAATTTATTTA--
1 TATTTTTATTTTTATTTATT
*
146729 TA-TTTTATTTATATTTATT
1 TATTTTTATTTTTATTTATT
146748 AAAAATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 12 0.40
18 2 0.07
20 16 0.53
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTTTATTTTTATTTATT
Found at i:146737 original size:11 final size:11
Alignment explanation
Indices: 146695--146744 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
146685 TAAATATATT
146695 TTTAT-TTTTA
1 TTTATATTTTA
146705 TTTAT-TTATT-
1 TTTATATT-TTA
*
146715 TTTA-AATTTA
1 TTTATATTTTA
146725 TTTATATTTTA
1 TTTATATTTTA
146736 TTTATATTT
1 TTTATATTT
146745 ATTAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 2 0.06
10 16 0.47
11 16 0.47
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:146750 original size:30 final size:31
Alignment explanation
Indices: 146685--146777 Score: 111
Period size: 30 Copynumber: 3.0 Consensus size: 31
146675 TAAGTTTAAA
*
146685 TAAATATATTTTTATTTTTATTTATTTATTT-T
1 TAAATATATTTATATTTTTATTTA--TATTTAT
*
146717 TAAATTTATTTATA-TTTTATTTATATTTAT
1 TAAATATATTTATATTTTTATTTATATTTAT
* *
146747 TAAAAAT-TTTAAATTTTTATTTATATTTAT
1 TAAATATATTTATATTTTTATTTATATTTAT
146777 T
1 T
146778 TGTTTAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.19
30 23 0.43
31 9 0.17
32 12 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TAAATATATTTATATTTTTATTTATATTTAT
Found at i:146783 original size:26 final size:28
Alignment explanation
Indices: 146754--146817 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
146744 TATTAAAAAT
* *
146754 TTTAAATTT-T-TATTTATATTTATTTG
1 TTTAAATTTATATATTTATATTCATTTA
146780 TTTAAAATTTGATATATTTATATTCATTTA
1 TTT-AAATTT-ATATATTTATATTCATTTA
146810 TTTAAATT
1 TTTAAATT
146818 AAATAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.09
27 6 0.19
29 6 0.19
30 17 0.53
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTAAATTTATATATTTATATTCATTTA
Found at i:146827 original size:29 final size:30
Alignment explanation
Indices: 146765--146829 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
146755 TTAAATTTTT
* * ** *
146765 ATTTATATTTATTTGTTTAAAATTTGATAT
1 ATTTATATTCATTTATTTAAAATTAAATAA
146795 ATTTATATTCATTTATTT-AAATTAAATAA
1 ATTTATATTCATTTATTTAAAATTAAATAA
146824 ATTTAT
1 ATTTAT
146830 TTATAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTTATATTCATTTATTTAAAATTAAATAA
Found at i:146883 original size:22 final size:23
Alignment explanation
Indices: 146817--146894 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
146807 TTATTTAAAT
* * *
146817 TAAATAAATTTATTTATAAATAT
1 TAAATAAATATATTCATAAATAA
* * * *
146840 TAAATTAACATGTTCATGAATAA
1 TAAATAAATATATTCATAAATAA
*
146863 TTAA-AAATATATTCATAAATAA
1 TAAATAAATATATTCATAAATAA
146885 TAAATAAATA
1 TAAATAAATA
146895 AACCTAATAC
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
22 17 0.41
23 24 0.59
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (23 bp):
TAAATAAATATATTCATAAATAA
Found at i:146996 original size:39 final size:38
Alignment explanation
Indices: 146950--147040 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 38
146940 TTTAAATATA
* * *
146950 AAATAAAAATACATGAGTAATATTAGTTATATTATAAAT-
1 AAATAAAAATAAAT-AATAATATTAATTATATT-TAAATC
* *
146989 AAATAAAACATAAATAATTATATTAATTATATTTTAATC
1 AAATAAAA-ATAAATAATAATATTAATTATATTTAAATC
147028 AAATAATAAATAA
1 AAATAA-AAATAA
147041 GTTTTAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.09
39 33 0.75
40 7 0.16
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (38 bp):
AAATAAAAATAAATAATAATATTAATTATATTTAAATC
Found at i:147349 original size:27 final size:28
Alignment explanation
Indices: 147317--147389 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 28
147307 GATACTTTTT
147317 TATATTATAATTATATTTAAAATATTATA
1 TATATTATAATTATATTTAAAATATT-TA
* *
147346 TATTTTATAA--AT-TTTAATATATTTA
1 TATATTATAATTATATTTAAAATATTTA
147371 TATATTCAT-ATTATATTTA
1 TATATT-ATAATTATATTTA
147390 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 8 0.22
26 12 0.32
27 4 0.11
28 4 0.11
29 9 0.24
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TATATTATAATTATATTTAAAATATTTA
Found at i:147370 original size:18 final size:17
Alignment explanation
Indices: 147328--147372 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
147318 ATATTATAAT
147328 TATATTTA-AAATATTA
1 TATATTTATAAATATTA
*
147344 TATATTTTATAAATTTTAA
1 TATA-TTTATAAATATT-A
147363 TATATTTATA
1 TATATTTATA
147373 TATTCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 12 0.48
19 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTTATAAATATTA
Found at i:147397 original size:28 final size:28
Alignment explanation
Indices: 147367--147423 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
147357 TTTTAATATA
*
147367 TTTATATATTCATATTATATT-TATTTTAT
1 TTTA-ATATT-ATATCATATTCTATTTTAT
*
147396 TTTAATATTATATCGTATTCTATTTTAT
1 TTTAATATTATATCATATTCTATTTTAT
147424 GATTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 13 0.52
29 4 0.16
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTAATATTATATCATATTCTATTTTAT
Found at i:147406 original size:22 final size:23
Alignment explanation
Indices: 147378--147422 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
147368 TTATATATTC
* *
147378 ATATTATAT-TTATTTTATTTTA
1 ATATTATATCGTATTCTATTTTA
147400 ATATTATATCGTATTCTATTTTA
1 ATATTATATCGTATTCTATTTTA
147423 TGATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
ATATTATATCGTATTCTATTTTA
Found at i:147442 original size:19 final size:19
Alignment explanation
Indices: 147418--147455 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
147408 TCGTATTCTA
*
147418 TTTTATGATTTAATTAATT
1 TTTTATGATTTAATAAATT
*
147437 TTTTATTATTTAATAAATT
1 TTTTATGATTTAATAAATT
147456 ATTAGGTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTATGATTTAATAAATT
Found at i:147574 original size:22 final size:22
Alignment explanation
Indices: 147549--147591 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
147539 ATTTTTTATT
*
147549 TAAAT-TTAATTATATAAATAAA
1 TAAATATTAA-TATAAAAATAAA
147571 TAAATATTAATATAAAAATAA
1 TAAATATTAATATAAAAATAA
147592 CATTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATTAATATAAAAATAAA
Found at i:147628 original size:52 final size:53
Alignment explanation
Indices: 147523--147625 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 53
147513 GTATGATTAT
* *
147523 TTAATAATAAAAATTAATTTTTTATTTAAATTTAATTATATAAATAAATAAATA
1 TTAATAATAAAAATAAATTTTATATTTAAA-TTAATTATATAAATAAATAAATA
*
147577 TTAAT-ATAAAAATAACATTTTATATTTTAA-TAA-TATAATAAAT-AATAAA
1 TTAATAATAAAAATAA-ATTTTATATTTAAATTAATTAT-ATAAATAAATAAA
147626 ATAAAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
51 9 0.20
52 9 0.20
53 9 0.20
54 17 0.39
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (53 bp):
TTAATAATAAAAATAAATTTTATATTTAAATTAATTATATAAATAAATAAATA
Found at i:149020 original size:24 final size:23
Alignment explanation
Indices: 148992--149052 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
148982 ACAATACATG
*
148992 AAAAAATAAAATACGATATGATATT
1 AAAAAATAAAATA-AATATGATA-T
*
149017 AAAAAATAATATAAATATGATAT
1 AAAAAATAAAATAAATATGATAT
* *
149040 AAATATTAAAATA
1 AAAAAATAAAATA
149053 TTTTAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 11 0.35
24 8 0.26
25 12 0.39
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (23 bp):
AAAAAATAAAATAAATATGATAT
Found at i:149032 original size:29 final size:28
Alignment explanation
Indices: 148992--149050 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
148982 ACAATACATG
*
148992 AAAAAATAAAATACGATAT-GATATTAA
1 AAAAAATAAAATACGATATAAATATTAA
*
149019 AAAATAATATAAATATGATATAAATATTAA
1 AAAA-AATA-AAATACGATATAAATATTAA
149049 AA
1 AA
149051 TATTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 4 0.15
28 4 0.15
29 10 0.37
30 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (28 bp):
AAAAAATAAAATACGATATAAATATTAA
Found at i:149077 original size:16 final size:17
Alignment explanation
Indices: 149055--149101 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
149045 TTAAAATATT
149055 TTAAATTTTATATAATA
1 TTAAATTTTATATAATA
149072 -TAAATTATTA-AT-ATA
1 TTAAATT-TTATATAATA
*
149087 TTAAAATTTATATAA
1 TTAAATTTTATATAA
149102 AATATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAATTTTATATAATA
Found at i:149094 original size:33 final size:32
Alignment explanation
Indices: 149031--149101 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
149021 AATAATATAA
* *
149031 ATATGATATAAATATTAAAATATTTTAAATTTT
1 ATATAATATAAATATTAAAATA-TTTAAAATTT
*
149064 ATATAATATAAATTATTAATATA-TTAAAATTT
1 ATATAATATAAA-TATTAAAATATTTAAAATTT
149096 ATATAA
1 ATATAA
149102 AATATTTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 14 0.41
33 11 0.32
34 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATATAATATAAATATTAAAATATTTAAAATTT
Found at i:149106 original size:34 final size:33
Alignment explanation
Indices: 149036--149106 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
149026 TATAAATATG
* *
149036 ATATAAATATTAAAATATTTTAAATTTTATATA
1 ATATAAATATTAAAATATTTAAAATTTTATAAA
*
149069 ATATAAATTATTAATATA-TTAAAATTTATATAAA
1 ATATAAA-TATTAAAATATTTAAAATTT-TATAAA
149103 ATAT
1 ATAT
149107 TTTAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 15 0.45
34 18 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATATAAATATTAAAATATTTAAAATTTTATAAA
Found at i:149115 original size:9 final size:10
Alignment explanation
Indices: 149028--149136 Score: 52
Period size: 11 Copynumber: 10.7 Consensus size: 10
149018 AAAAATAATA
*
149028 TAAATATGAT
1 TAAATATTAT
149038 ATAAATATTA-
1 -TAAATATTAT
149048 -AAATATT-T
1 TAAATATTAT
*
149056 TAAATTTTAT
1 TAAATATTAT
149066 ATAATATAAATTAT
1 -TAA-AT--ATTAT
149080 T-AATA-TAT
1 TAAATATTAT
149088 TAAA-ATTTAT
1 TAAATA-TTAT
149098 ATAAAATATT-T
1 -T-AAATATTAT
149109 TAAATATTAT
1 TAAATATTAT
*
149119 TATAATATCAT
1 TA-AATATTAT
*
149130 CAAATAT
1 TAAATAT
149137 ATATACGAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 31
0.68 0.04 0.27
Matches are distributed among these distances:
8 12 0.15
9 16 0.21
10 13 0.17
11 23 0.29
12 8 0.10
13 2 0.03
14 4 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (10 bp):
TAAATATTAT
Found at i:149118 original size:21 final size:22
Alignment explanation
Indices: 149081--149123 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
149071 ATAAATTATT
149081 AATATATTAAAATTTA-TATAA
1 AATATATTAAAATTTATTATAA
*
149102 AATAT-TTTAAATATTATTATAA
1 AATATATTAAAAT-TTATTATAA
149124 TATCATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATATTAAAATTTATTATAA
Found at i:149353 original size:13 final size:14
Alignment explanation
Indices: 149294--149395 Score: 75
Period size: 15 Copynumber: 7.1 Consensus size: 14
149284 TTATAAAATT
149294 TTTAATTAAATAAAA
1 TTTAA-TAAATAAAA
*
149309 TTATAATTAATAAAA
1 TT-TAATAAATAAAA
* *
149324 TTTATTTAAA-AATA
1 TTTA-ATAAATAAAA
149338 TTTAATAAAT-AAA
1 TTTAATAAATAAAA
*
149351 TTTAA-AATTAAAA
1 TTTAATAAATAAAA
*
149364 TTTAATCATATAAAA
1 TTTAAT-AAATAAAA
*
149379 TATATATAATATAAAA
1 TTTA-ATAA-ATAAAA
149395 T
1 T
149396 AAATTAATAT
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
12 3 0.04
13 19 0.28
14 9 0.13
15 25 0.37
16 12 0.18
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAATAAAA
Found at i:149379 original size:43 final size:44
Alignment explanation
Indices: 149285--149381 Score: 105
Period size: 43 Copynumber: 2.2 Consensus size: 44
149275 TTTTAATATT
* *
149285 TATAAAATTTTTAATTAAATAAAATTATAATTAATAAAATTTATT
1 TATAAAATATTTAATTAAATAAAATTATAA-TAATAAAATTTATA
149330 TA-AAAATATTTAA-TAAAT-AAATT-TAA-AATTAAAATTTAATCA
1 TATAAAATATTTAATTAAATAAAATTATAATAA-TAAAATTT-AT-A
149372 TATAAAATAT
1 TATAAAATAT
149382 ATATAATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
39 2 0.04
40 8 0.17
41 5 0.11
42 7 0.15
43 12 0.26
44 10 0.22
45 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (44 bp):
TATAAAATATTTAATTAAATAAAATTATAATAATAAAATTTATA
Found at i:149392 original size:16 final size:15
Alignment explanation
Indices: 149371--149432 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 15
149361 AAATTTAATC
149371 ATATAAAATATATATA
1 ATATAAAATA-ATATA
149387 ATATAAAATAA-ATTA
1 ATATAAAATAATA-TA
149402 ATATATAACATAAGTATA
1 ATATA-AA-ATAA-TATA
149420 ATATTAAAA-AATA
1 ATA-TAAAATAATA
149433 ATCTTACTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 10 0.25
16 14 0.35
17 5 0.12
18 7 0.17
19 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATATAAAATAATATA
Found at i:150485 original size:12 final size:12
Alignment explanation
Indices: 150460--150514 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 12
150450 TAATACGAAT
150460 ATATATAAATAA
1 ATATATAAATAA
150472 ATATA-AAATAA
1 ATATATAAATAA
*
150483 A-ATA-AATTATTA
1 ATATATAA--ATAA
150495 ATATATAAA-AA
1 ATATATAAATAA
150506 ATATATAAA
1 ATATATAAA
150515 AATATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 5 0.14
11 17 0.46
12 10 0.27
13 3 0.08
14 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATATAAATAA
Found at i:150544 original size:26 final size:26
Alignment explanation
Indices: 150457--150532 Score: 72
Period size: 26 Copynumber: 3.1 Consensus size: 26
150447 ATATAATACG
* *
150457 AATATATATAAATA-AATATA-AAAT
1 AATATATAAAAATATAATATATAAAA
*
150481 AA-A-AT-AAATTATTAATATATAAAA
1 AATATATAAAAATA-TAATATATAAAA
*
150505 AATATATAAAAATATAATATTTAAAA
1 AATATATAAAAATATAATATATAAAA
150531 AA
1 AA
150533 ATAACACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.10
22 2 0.05
23 7 0.17
24 7 0.17
25 1 0.02
26 15 0.37
27 5 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AATATATAAAAATATAATATATAAAA
Found at i:150567 original size:11 final size:11
Alignment explanation
Indices: 150551--150578 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
150541 AATAAAAACA
150551 CTTTTTTTTCT
1 CTTTTTTTTCT
150562 CTTTTTTTTCT
1 CTTTTTTTTCT
150573 CTTTTT
1 CTTTTT
150579 CTTTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:151084 original size:27 final size:26
Alignment explanation
Indices: 151054--151114 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
151044 TTTAAAAAAT
* *
151054 TAAAATTTTTTAATATTAAATATAATA
1 TAAAATATTTTAAAATT-AATATAATA
*
151081 T-AAATATTTTAAAATTTATATAATA
1 TAAAATATTTTAAAATTAATATAATA
*
151106 TAAATTATT
1 TAAAATATT
151115 AATATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 9 0.31
26 19 0.66
27 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAAATATTTTAAAATTAATATAATA
Found at i:151107 original size:25 final size:24
Alignment explanation
Indices: 151073--151123 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
151063 TTAATATTAA
*
151073 ATATAATATAAATATTTTAAAATTT
1 ATATAATATAAAT-TATTAAAATTT
*
151098 ATATAATATAAATTATTAATATTT
1 ATATAATATAAATTATTAAAATTT
151122 AT
1 AT
151124 TAAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATATAATATAAATTATTAAAATTT
Found at i:151819 original size:2 final size:2
Alignment explanation
Indices: 151812--151837 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
151802 ACCAAATGTG
151812 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
151838 GTCTGTGTAT
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:152350 original size:5 final size:5
Alignment explanation
Indices: 152340--152367 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
152330 AGGAGGGAAA
152340 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
152368 TTTGATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:153420 original size:18 final size:18
Alignment explanation
Indices: 153380--153417 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
153370 AAATATTATC
153380 TAAATTTAATTAAAAATA
1 TAAATTTAATTAAAAATA
153398 TAAATATTAATATAAAAATA
1 TAAAT-TTAAT-TAAAAATA
153418 AATTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAATTTAATTAAAAATA
Found at i:153425 original size:18 final size:19
Alignment explanation
Indices: 153380--153425 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
153370 AAATATTATC
153380 TAAA-TTTAATTAAAAATA
1 TAAATTTTAATTAAAAATA
*
153398 TAAATATTAA-TATAAAA-A
1 TAAATTTTAATTA-AAAATA
153416 TAAATTTTAA
1 TAAATTTTAA
153426 ATCTTTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAATTTTAATTAAAAATA
Found at i:155630 original size:24 final size:26
Alignment explanation
Indices: 155611--155661 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
155601 TAATATTTAT
155611 ATATTTTTA-TAATTAAATATAAATAAA
1 ATATTTTTATTAATTAAATAT--ATAAA
155638 ATATTTTTATTAATTAAATA-ATAA
1 ATATTTTTATTAATTAAATATATAA
155662 TTTGACATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 4 0.17
27 9 0.39
28 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTTTATTAATTAAATATATAAA
Found at i:156360 original size:17 final size:17
Alignment explanation
Indices: 156323--156393 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 17
156313 ATAAGTAAAT
156323 AAATAATATAATATATTA
1 AAATAATATAATATA-TA
156341 AAATAATATTAATATA-A
1 AAATAATA-TAATATATA
156358 AAATAA-A-AATAGTATA
1 AAATAATATAATA-TATA
**
156374 ATTTAATTTATAATATATA
1 AAATAA--TATAATATATA
156393 A
1 A
156394 CTATATGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
14 4 0.09
15 2 0.05
16 6 0.14
17 7 0.16
18 8 0.18
19 13 0.30
20 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AAATAATATAATATATA
Found at i:156919 original size:22 final size:20
Alignment explanation
Indices: 156894--156961 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 20
156884 CAAGTTCATG
156894 ATATTTTTATTTGTATAATAT
1 ATATTTTTATTTGTATAAT-T
156915 CATATTTTTATTATGTTATAATT
1 -ATATTTTTATT-TG-TATAATT
*
156938 AT-TTTTTATATTATATAATT
1 ATATTTTTAT-TTGTATAATT
156958 ATAT
1 ATAT
156962 CGTATACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.22
21 9 0.22
22 14 0.34
23 3 0.07
24 6 0.15
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (20 bp):
ATATTTTTATTTGTATAATT
Found at i:157503 original size:2 final size:2
Alignment explanation
Indices: 157498--157523 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
157488 AGTTTTTTAT
157498 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
157524 ATTTTATTAT
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:158652 original size:30 final size:30
Alignment explanation
Indices: 158605--158664 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
158595 ATCTGTCCAA
*
158605 TTTAAATTACTATTTAATAATAAAAAATATT
1 TTTAAATTACAATTTAATAAT-AAAAATATT
*
158636 TTTAAATTA-AATTTAATTATAAAAATATT
1 TTTAAATTACAATTTAATAATAAAAATATT
158665 AATATTAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.33
30 9 0.33
31 9 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTAAATTACAATTTAATAATAAAAATATT
Found at i:159016 original size:13 final size:14
Alignment explanation
Indices: 158979--159017 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
158969 ACTCATCATA
*
158979 TTATATTTTTTAAT
1 TTATATTTTTAAAT
*
158993 TTATTTTTTTAAAT
1 TTATATTTTTAAAT
159007 TTA-ATTTTTAA
1 TTATATTTTTAA
159018 TAATTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATATTTTTAAAT
Found at i:159022 original size:15 final size:15
Alignment explanation
Indices: 158989--159026 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
158979 TTATATTTTT
* *
158989 TAATTTATTTTTTTA
1 TAATTTAATTTTTAA
159004 -AATTTAATTTTTAA
1 TAATTTAATTTTTAA
159018 TAATTTAAT
1 TAATTTAAT
159027 AAATTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TAATTTAATTTTTAA
Found at i:163007 original size:16 final size:16
Alignment explanation
Indices: 162986--163016 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
162976 AAATTATTTT
*
162986 TTTATTTAGATTTAAA
1 TTTATTTAGAGTTAAA
163002 TTTATTTAGAGTTAA
1 TTTATTTAGAGTTAA
163017 GTGAGGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
TTTATTTAGAGTTAAA
Found at i:163111 original size:12 final size:12
Alignment explanation
Indices: 163070--163120 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
163060 TTATAAAATA
163070 AAAATATTATATT
1 AAAATATTAT-TT
* *
163083 TAAAT-TTAATT
1 AAAATATTATTT
163094 ATAAATATTATTT
1 A-AAATATTATTT
*
163107 AAAATATTTTTT
1 AAAATATTATTT
163119 AA
1 AA
163121 TTTTTAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
11 2 0.06
12 19 0.61
13 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AAAATATTATTT
Found at i:163288 original size:2 final size:2
Alignment explanation
Indices: 163281--163317 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
163271 CACTACACTT
163281 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
163318 TCATGTTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:163550 original size:26 final size:25
Alignment explanation
Indices: 163516--163572 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
163506 ATGCATGAGT
*
163516 ATTAAAAATATAAAATTATTTATAA
1 ATTAAAAATATAAAATTATTGATAA
* *
163541 ATTAATAAATATTAATTTATTGATAA
1 ATTAA-AAATATAAAATTATTGATAA
*
163567 AATAAA
1 ATTAAA
163573 TTATTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTAAAAATATAAAATTATTGATAA
Found at i:163848 original size:18 final size:20
Alignment explanation
Indices: 163810--163848 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
163800 TTAAAATAAT
163810 TTTTTATGATATAATATTAA
1 TTTTTATGATATAATATTAA
*
163830 TTTTTAT-ATCTAA-ATTAA
1 TTTTTATGATATAATATTAA
163848 T
1 T
163849 ATAATAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTATGATATAATATTAA
Found at i:164456 original size:28 final size:29
Alignment explanation
Indices: 164393--164457 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
164383 ATTTTACTAC
*
164393 AAATAATATTATTTAATTTACATTTTAAA
1 AAATAATATTATTTAATTTACAATTTAAA
164422 AAATAATATTATTTAATTTA-AATTTAAA
1 AAATAATATTATTTAATTTACAATTTAAA
164450 AAATAATA
1 AAATAATA
164458 ATATATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AAATAATATTATTTAATTTACAATTTAAA
Found at i:166584 original size:15 final size:15
Alignment explanation
Indices: 166495--166585 Score: 50
Period size: 15 Copynumber: 5.9 Consensus size: 15
166485 ATTCACGTGT
*
166495 TATT-TATATATTT-
1 TATTATATAAATTTA
166508 TATTATATTATAA-TTA
1 TATTATA-TA-AATTTA
*
166524 TATT-TAAAATATTTA
1 TATTATATAA-ATTTA
166539 TATTAATATAAATTT-
1 TATT-ATATAAATTTA
166554 TGA-TATATTAACAATTTA
1 T-ATTATA-T-A-AATTTA
166572 TATTATATAAATTT
1 TATTATATAAATTT
166586 TAAAAATATA
Statistics
Matches: 61, Mismatches: 3, Indels: 26
0.68 0.03 0.29
Matches are distributed among these distances:
13 5 0.08
14 7 0.11
15 21 0.34
16 12 0.20
17 11 0.18
18 5 0.08
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (15 bp):
TATTATATAAATTTA
Found at i:166919 original size:35 final size:36
Alignment explanation
Indices: 166880--166959 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 36
166870 TTAAAATATT
*
166880 ATAAAATTATTTTTATATTTATTA-ATTA-AATTTAA
1 ATAAAATTATTTTTATA-TTATTAGATAATAATTTAA
*
166915 ATAAAAATATTTTTATATTATTAGATAATAATTTAA
1 ATAAAATTATTTTTATATTATTAGATAATAATTTAA
*
166951 ATTAAATTA
1 ATAAAATTA
166960 AATCGAGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 6 0.15
35 19 0.49
36 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (36 bp):
ATAAAATTATTTTTATATTATTAGATAATAATTTAA
Found at i:168990 original size:18 final size:19
Alignment explanation
Indices: 168948--169000 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
168938 ATAGTTAATT
168948 TGTAAAA-TATTAATTGCA
1 TGTAAAATTATTAATTGCA
**
168966 TACAAAATTA-TAATTGCA
1 TGTAAAATTATTAATTGCA
168984 TGTAAAATTGATTAATT
1 TGTAAAATT-ATTAATT
169001 TTACACTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 20 0.71
19 3 0.11
20 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (19 bp):
TGTAAAATTATTAATTGCA
Done.