Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 138 of 147
Found at i:25172014 original size:17 final size:18
Alignment explanation
Indices: 25171966--25172029 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
25171956 TAATTTATAC
*
25171966 TTAAATA-AAATTTTAAT
1 TTAAATATAAATTTTTAT
* *
25171983 ATAAAT-TAATTTTTTTAT
1 TTAAATATAA-ATTTTTAT
25172001 TTAAA-ATAAA-TTTTAT
1 TTAAATATAAATTTTTAT
25172017 TTAAATATAAATT
1 TTAAATATAAATT
25172030 AAAAAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
16 11 0.30
17 12 0.32
18 14 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATATAAATTTTTAT
Found at i:25172887 original size:19 final size:21
Alignment explanation
Indices: 25172850--25172894 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
25172840 TATTTCATTT
25172850 TATATTCATACTTTAAAAATA
1 TATATTCATACTTTAAAAATA
*
25172871 TATATTTATA-TTT-AAAATA
1 TATATTCATACTTTAAAAATA
25172890 -ATATT
1 TATATT
25172895 AAATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 6 0.26
20 3 0.13
21 9 0.39
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TATATTCATACTTTAAAAATA
Found at i:25188317 original size:13 final size:15
Alignment explanation
Indices: 25188288--25188320 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
25188278 GTGAATGTCC
25188288 AAGAATCATCAAGAA
1 AAGAATCATCAAGAA
25188303 AAGAATC-TC-AGAA
1 AAGAATCATCAAGAA
25188316 AAGAA
1 AAGAA
25188321 ATTCCATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGAATCATCAAGAA
Found at i:25194433 original size:22 final size:22
Alignment explanation
Indices: 25194384--25194433 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
25194374 ACTTTAAGTT
* *
25194384 TATTAAAATTTTTAATAAAATG
1 TATTAAAATTGTTAATAAAATC
* * *
25194406 TCTTAAAATTGTTAATTAACTC
1 TATTAAAATTGTTAATAAAATC
25194428 TATTAA
1 TATTAA
25194434 TTTTTGCAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (22 bp):
TATTAAAATTGTTAATAAAATC
Found at i:25196664 original size:24 final size:24
Alignment explanation
Indices: 25196619--25196670 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
25196609 AAATTAAAAA
*
25196619 AATTAATAAATTTTATTATAATTAT
1 AATTAATAAATTTTAATATAATT-T
25196644 AATTAA-AAATTTTAA-ATTAATTT
1 AATTAATAAATTTTAATA-TAATTT
25196667 AATT
1 AATT
25196671 TTATTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
24 13 0.52
25 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTAATAAATTTTAATATAATTT
Found at i:25196682 original size:34 final size:34
Alignment explanation
Indices: 25196608--25196683 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
25196598 GTTTGATTGC
*
25196608 AAAATTAAAAAAATTAATAAATTTTATTATAATT
1 AAAATTAAAAAAATTAATAAATTTAATTATAATT
* ** * *
25196642 ATAATTAAAAATTTTAAATTAATTTAATT-TTATT
1 AAAATTAAAAAAATT-AATAAATTTAATTATAATT
25196676 AAAATTAA
1 AAAATTAA
25196684 TATTTAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
34 23 0.68
35 11 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
AAAATTAAAAAAATTAATAAATTTAATTATAATT
Found at i:25197186 original size:27 final size:26
Alignment explanation
Indices: 25197135--25197193 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
25197125 TTTAAAGGGG
*
25197135 TATTTAAATAAATATAATAATTTATA
1 TATTTAAATAAATATAATAAATTATA
*
25197161 TATTTACATAAAATATTAA-AAATTATA
1 TATTTAAAT-AAATA-TAATAAATTATA
25197188 TATTTA
1 TATTTA
25197194 TATTATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 8 0.28
27 18 0.62
28 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
TATTTAAATAAATATAATAAATTATA
Found at i:25198464 original size:19 final size:19
Alignment explanation
Indices: 25198440--25198476 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25198430 TTTTATCTAT
*
25198440 AAAAAACGCCTTAAATAAC
1 AAAAAACACCTTAAATAAC
*
25198459 AAAAAATACCTTAAATAA
1 AAAAAACACCTTAAATAA
25198477 TCATCTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAAAACACCTTAAATAAC
Found at i:25199100 original size:23 final size:22
Alignment explanation
Indices: 25199074--25199199 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 22
25199064 TAAAAATGAA
25199074 TAAAAAATTACTATTATATATAT
1 TAAAAAATTACTA-TATATATAT
25199097 TAAAAAATTA-TGATA-AT-TAT
1 TAAAAAATTACT-ATATATATAT
* * * *
25199117 TTAAAAATTAATATATAAATGAA
1 TAAAAAATTACTATATATAT-AT
* *
25199140 TAAAAAGTTACCATTATATATAT
1 TAAAAAATTACTA-TATATATAT
25199163 TAAAAAAATTA-TGATA-AT-TAT
1 T-AAAAAATTACT-ATATATATAT
* *
25199184 TTAAAAATTAATATAT
1 TAAAAAATTACTATAT
25199200 GTAAATTCAT
Statistics
Matches: 81, Mismatches: 12, Indels: 22
0.70 0.10 0.19
Matches are distributed among these distances:
20 26 0.32
21 9 0.11
22 6 0.07
23 25 0.31
24 15 0.19
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (22 bp):
TAAAAAATTACTATATATATAT
Found at i:25199123 original size:22 final size:22
Alignment explanation
Indices: 25199098--25199190 Score: 61
Period size: 22 Copynumber: 4.2 Consensus size: 22
25199088 TATATATATT
25199098 AAAAAATTATGATAATTATTTA
1 AAAAAATTATGATAATTATTTA
*
25199120 AAAATTAA-TAT-ATAA--A-TGA
1 AAAA--AATTATGATAATTATTTA
** *
25199139 ATAAAAAGTTACCATTATATATATTA
1 A-AAAAA-TTATGATAAT-TAT-TTA
25199165 AAAAAATTATGATAATTATTTA
1 AAAAAATTATGATAATTATTTA
25199187 AAAA
1 AAAA
25199191 TTAATATATG
Statistics
Matches: 53, Mismatches: 7, Indels: 22
0.65 0.09 0.27
Matches are distributed among these distances:
18 2 0.04
19 3 0.06
20 6 0.11
21 3 0.06
22 15 0.28
23 6 0.11
24 10 0.19
25 5 0.09
26 3 0.06
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
AAAAAATTATGATAATTATTTA
Found at i:25199144 original size:66 final size:67
Alignment explanation
Indices: 25199059--25199199 Score: 243
Period size: 67 Copynumber: 2.1 Consensus size: 67
25199049 AGTATTTATT
*
25199059 ATTAATA-A-AAATGAATAAAAAATTACTATTATATATATT-AAAAAATTATGATAATTATTTAA
1 ATTAATATATAAATGAATAAAAAATTACCATTATATATATTAAAAAAATTATGATAATTATTTAA
25199121 AA
66 AA
*
25199123 ATTAATATATAAATGAATAAAAAGTTACCATTATATATATTAAAAAAATTATGATAATTATTTAA
1 ATTAATATATAAATGAATAAAAAATTACCATTATATATATTAAAAAAATTATGATAATTATTTAA
25199188 AA
66 AA
25199190 ATTAATATAT
1 ATTAATATAT
25199200 GTAAATTCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
64 7 0.10
65 1 0.01
66 29 0.40
67 35 0.49
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (67 bp):
ATTAATATATAAATGAATAAAAAATTACCATTATATATATTAAAAAAATTATGATAATTATTTAA
AA
Found at i:25200488 original size:21 final size:21
Alignment explanation
Indices: 25200462--25200501 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25200452 ATATTCAATC
25200462 ATGT-AATATGATTTTAATTAA
1 ATGTAAATATGA-TTTAATTAA
*
25200483 ATGTAAATTTGATTTAATT
1 ATGTAAATATGATTTAATT
25200502 TTTTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (21 bp):
ATGTAAATATGATTTAATTAA
Found at i:25200892 original size:17 final size:17
Alignment explanation
Indices: 25200872--25200906 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25200862 ATTATTAAAG
* *
25200872 ATATTAAATTAAAATTT
1 ATATAAAATAAAAATTT
25200889 ATATAAAATAAAAATTT
1 ATATAAAATAAAAATTT
25200906 A
1 A
25200907 AAATTATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAAAATAAAAATTT
Found at i:25200944 original size:36 final size:33
Alignment explanation
Indices: 25200890--25200957 Score: 84
Period size: 37 Copynumber: 2.0 Consensus size: 33
25200880 TTAAAATTTA
25200890 TATAAAATAAAAATTT-AAAATTATTTCATATT
1 TATAAAATAAAAATTTAAAAATTATTTCATATT
*
25200922 TATAAAATTAATAAATGATTAAAAATTATTTTATAT
1 TATAAAA-TAA-AAAT--TTAAAAATTATTTCATAT
25200958 CAAATAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 7 0.23
33 3 0.10
34 4 0.13
36 2 0.07
37 14 0.47
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
TATAAAATAAAAATTTAAAAATTATTTCATATT
Found at i:25201688 original size:3 final size:3
Alignment explanation
Indices: 25201680--25201711 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
25201670 GAAACATTTA
25201680 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A
25201712 GAGGAGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:25202090 original size:3 final size:3
Alignment explanation
Indices: 25202084--25202114 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25202074 TCAACTTCCA
25202084 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
25202115 AATCTCTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:25204406 original size:1 final size:1
Alignment explanation
Indices: 25204400--25204425 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
25204390 CATGCACAGG
25204400 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
25204426 GTTCTTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:25205095 original size:2 final size:2
Alignment explanation
Indices: 25205090--25205122 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25205080 TCTCTCTCTC
25205090 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
25205123 GAACGATGGA
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:25216959 original size:14 final size:14
Alignment explanation
Indices: 25216940--25216966 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25216930 TTTATTATTT
25216940 TAAAATTTTTTAAA
1 TAAAATTTTTTAAA
25216954 TAAAATTTTTTAA
1 TAAAATTTTTTAA
25216967 TTATTCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATTTTTTAAA
Found at i:25217629 original size:15 final size:15
Alignment explanation
Indices: 25217611--25217643 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
25217601 GTGACTGCAA
25217611 CACGCTTGACCAGAC
1 CACGCTTGACCAGAC
25217626 CACGCTTGACCAGAC
1 CACGCTTGACCAGAC
25217641 CAC
1 CAC
25217644 CTCAAACAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.42, G:0.18, T:0.12
Consensus pattern (15 bp):
CACGCTTGACCAGAC
Found at i:25219173 original size:48 final size:48
Alignment explanation
Indices: 25219117--25219213 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
25219107 CGAATTCTTA
25219117 AAAGTTTAGAAATAGAGATTTTTAAATTTATATCTCAATTTGAAGAAC
1 AAAGTTTAGAAATAGAGATTTTTAAATTTATATCTCAATTTGAAGAAC
* *
25219165 AAAGTTTAGATATAGAGGTTTTTAAATTTATATCTCAATTTGAAGAAC
1 AAAGTTTAGAAATAGAGATTTTTAAATTTATATCTCAATTTGAAGAAC
25219213 A
1 A
25219214 CCTAAAAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.38
Consensus pattern (48 bp):
AAAGTTTAGAAATAGAGATTTTTAAATTTATATCTCAATTTGAAGAAC
Found at i:25235007 original size:116 final size:113
Alignment explanation
Indices: 25234800--25235201 Score: 379
Period size: 116 Copynumber: 3.4 Consensus size: 113
25234790 ATTTGAAAGT
* * ** * * *
25234800 TTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTA
1 TTTTATTTTAAAG-AAAATTGATACTTTCAACTTTTTCTCAAAA--AATAT-TT-AAAACTTTTA
* *
25234864 TTTTTAA-AGAAAATTGGTACTTCCAACTTTTCCTCAAAATATTTTTTTTCTAAAA
61 TTTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTT-TAAAA
*
25234919 TTTTAATTTTAAAGAAAATTGATACTTTCAACTTTTTTTCAAAAAATATTTAGAAA-TTTTATTT
1 TTTT-ATTTTAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTA-AAACTTTTATTT
*
25234983 TTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAA
64 TTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTA-AAA
* * * *
25235035 TTTTATTTTAAAAAAAATTAATACTTTCAAC-TTTTCTCTAAAAGTATTTTTTAAAACCTTTTTA
1 TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTTCTC-AAAA--AATATTTAAAA-C-TTTTA
* * * *
25235099 TTTTCAAGAGAAATTGATAGTTTCAAC-TTT-CTCAAAAAAATATTTTTTTAAAA
61 TTTTTAAGAAAAATTGATACTTTCAACTTTTCCTC--AAAAATTTTTTTTTAAAA
*
25235152 TTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCCTC-AAAAATATTT
1 TTTTATTTTAAAG-AAAATTGATACTTTCAACTTTTT-CTCAAAAAATATTT
25235202 TTTTAAGAAT
Statistics
Matches: 241, Mismatches: 25, Indels: 38
0.79 0.08 0.12
Matches are distributed among these distances:
114 6 0.02
115 38 0.16
116 57 0.24
117 31 0.13
118 32 0.13
119 42 0.17
120 32 0.13
121 3 0.01
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (113 bp):
TTTTATTTTAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAAATATTTAAAACTTTTATTTTT
AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTAAAA
Found at i:25235066 original size:59 final size:58
Alignment explanation
Indices: 25234800--25235226 Score: 432
Period size: 60 Copynumber: 7.3 Consensus size: 58
25234790 ATTTGAAAGT
* * *
25234800 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCT-TAAAATGT-TTTTCTTGATAAT
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTT-TT-A-AAA
* * *
25234859 TTTTATTTTTAA-AGAAAATTGGTACTTCCAACTTTTCCTC-AAAATATTTTTTTTCTAAAA
1 TTTTA-TTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TATTTTT-TAAAA
**
25234919 TTTTAATTTTAA-AGAAAATTGATACTTTCAACTTTTTTTCAAAAA-ATA---TTTAGAAA
1 TTTT-ATTTTAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTA-AAA
25234975 TTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAGAAA
1 TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTA-AAA
* * * *
25235035 TTTTATTTTAAAAAAAATTAATACTTTCAACTTTT-CTCTAAAA-GTATTTTTTAAAA
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAAAA
* * *
25235091 CCTTTTTATTTTCAAGAGAAATTGATAGTTTCAAC-TTT-CTCAAAAAAATATTTTTTTAAAA
1 ---TTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATA-TTTTTTAAAA
*
25235152 TTTTATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTCAAAAATAT-TTTTTTAAGAA
1 TTTTATTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAA-AA
*
25235211 TTTTATTTTAGGAAAA
1 TTTTATTTTAAGAAAA
25235227 TCATTTAAAA
Statistics
Matches: 318, Mismatches: 26, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
55 3 0.01
56 47 0.15
57 13 0.04
58 50 0.16
59 68 0.21
60 114 0.36
61 18 0.06
62 5 0.02
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.47
Consensus pattern (58 bp):
TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTAAAA
Found at i:25235085 original size:176 final size:172
Alignment explanation
Indices: 25234758--25235220 Score: 504
Period size: 176 Copynumber: 2.7 Consensus size: 172
25234748 TTTGTACAAT
* **
25234758 GAAAATTGATACTTTCAACATTTTCTT---AAAGCATTT-GAAAGTTTT-TATTTTAAGAAAAAT
1 GAAAATTGATACTTTCAAC-TTTTTTTCAAAAAATATTTAGAAA-TTTTAT-TTTTAAGAAAAAT
* * * * **
25234818 TGATACTTTCAACTTTTCCT-TAAAATGTTTTTCTT-GATAATTTTTATTTTTAAAGAAAATTGG
63 TGATACTTTCAACTTTTCCTCAAAAATATTTTT-TTAGAGAA-TTTTA-TTTTAAAAAAAATTAA
25234881 TACTTCCAACTTTTCCTCAAAATATTTTTTTTCTAAAA-TTTTAATTTTAAA
125 TACTTCCAACTTTTCCTCAAAATA---TTTTT-TAAAACTTTTAATTTTAAA
25234932 GAAAATTGATACTTTCAACTTTTTTTCAAAAAATATTTAGAAATTTTATTTTTAAGAAAAATTGA
1 GAAAATTGATACTTTCAACTTTTTTTCAAAAAATATTTAGAAATTTTATTTTTAAGAAAAATTGA
25234997 TACTTTCAACTTTTCCTCAAAAATATATTTTTTAGA-AATTTTATTTTAAAAAAAATTAATACTT
66 TACTTTCAACTTTTCCTCAAAAATAT-TTTTTTAGAGAATTTTATTTTAAAAAAAATTAATACTT
* * *
25235061 TCAACTTTT-CTCTAAAAGTATTTTTTAAAACCTTTTTATTTTCAA
130 CCAACTTTTCCTC-AAAA-TATTTTTTAAAA-CTTTTAATTTTAAA
* * *
25235106 GAGAAATTGATAGTTTCAAC--TTTCTCAAAAAAATATTTTTTTA-AAATTTTATTTTCAAGAAA
1 GA-AAATTGATACTTTCAACTTTTTTTC-AAAAAATA----TTTAGAAATTTTATTTTTAAGAAA
*
25235168 AATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTA-AGAATTTTATTTTA
60 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAGAATTTTATTTTA
25235221 GGAAAATCAT
Statistics
Matches: 255, Mismatches: 15, Indels: 36
0.83 0.05 0.12
Matches are distributed among these distances:
172 5 0.02
173 16 0.06
174 43 0.17
175 47 0.18
176 70 0.27
177 64 0.25
178 10 0.04
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (172 bp):
GAAAATTGATACTTTCAACTTTTTTTCAAAAAATATTTAGAAATTTTATTTTTAAGAAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAGAATTTTATTTTAAAAAAAATTAATACTTC
CAACTTTTCCTCAAAATATTTTTTAAAACTTTTAATTTTAAA
Found at i:25236392 original size:44 final size:44
Alignment explanation
Indices: 25236340--25236685 Score: 327
Period size: 45 Copynumber: 8.0 Consensus size: 44
25236330 AAATTTTGAT
*
25236340 TAAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTGAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAA
* * *
25236384 TAATGCTCCTCTAATCAGAAGCTCAACAAC-TTTGAAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTG-AAAAATAAA
* * ***
25236428 -AAAGCT-CTCTAATCAGAGGCTCAACGACTTCAAAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAA
* * ** *
25236470 TAAAACTCCTATAAACAGAGGCTCAATGACTTTTAAAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTT-GAAAAATAAA
* * * * *
25236515 CAAAGCTCTTCTAAACATAGGCTCAACGACTTTGGAGAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGA-AAAATAAA
* * * *
25236560 CAAAGCTCCTCTAAACAGAGGTTTAACGACTTTTGAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAA
* * **
25236604 T--TGCTCCTCTAAACAGAGGCACCCCAA-TTTTGAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAA
*
25236645 T---GCTCTTCTAAACAGAGGCATC-ACAA-TTTTGAAAAATAAA
1 TAAAGCTCCTCTAAACAGAGGC-TCAACAACTTTTGAAAAATAAA
25236685 T
1 T
25236686 GCTCATTGAC
Statistics
Matches: 256, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
40 35 0.14
41 16 0.06
42 48 0.19
43 15 0.06
44 66 0.26
45 76 0.30
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (44 bp):
TAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAA
Found at i:25236494 original size:86 final size:88
Alignment explanation
Indices: 25236341--25236603 Score: 289
Period size: 86 Copynumber: 3.0 Consensus size: 88
25236331 AATTTTGATT
* * *** * * *
25236341 AAAGCTCCTCTAAGCAGAGGCTCAACAACTTTTGAAAAATAAATAATGCTCCTCTAATCAGAAGC
1 AAAGCT-CTCTAAACAGAGGCTCAACGACTTCAAAAAAATAAATAAAGCTCCTCTAAACAGAGGC
*
25236406 TCAACAAC-TTTGAAAAAATAAA-
65 TCAACGACTTTTGAAAAAATAAAC
* * *
25236428 AAAGCTCTCTAATCAGAGGCTCAACGACTTCAAAAAAATAAATAAAACTCCTATAAACAGAGGCT
1 AAAGCTCTCTAAACAGAGGCTCAACGACTTCAAAAAAATAAATAAAGCTCCTCTAAACAGAGGCT
* *
25236493 CAATGACTTTTAAAAAAATAAAC
66 CAACGACTTTTGAAAAAATAAAC
* ** * *
25236516 AAAGCTCTTCTAAACATAGGCTCAACGACTTTGGAGAAAATAAACAAAGCTCCTCTAAACAGAGG
1 AAAGCTC-TCTAAACAGAGGCTCAACGAC-TTCAAAAAAATAAATAAAGCTCCTCTAAACAGAGG
* *
25236581 TTTAACGACTTTTG-AAAAATAAA
64 CTCAACGACTTTTGAAAAAATAAA
25236604 TTGCTCCTCT
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
86 54 0.37
87 19 0.13
88 7 0.05
89 28 0.19
90 39 0.27
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (88 bp):
AAAGCTCTCTAAACAGAGGCTCAACGACTTCAAAAAAATAAATAAAGCTCCTCTAAACAGAGGCT
CAACGACTTTTGAAAAAATAAAC
Found at i:25236660 original size:40 final size:40
Alignment explanation
Indices: 25236590--25236689 Score: 164
Period size: 40 Copynumber: 2.5 Consensus size: 40
25236580 GTTTAACGAC
*
25236590 TTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCCCAA
1 TTTTGAAAAATAAA-TGCTCCTCTAAACAGAGGCACCACAA
* *
25236631 TTTTGAAAAATAAATGCTCTTCTAAACAGAGGCATCACAA
1 TTTTGAAAAATAAATGCTCCTCTAAACAGAGGCACCACAA
25236671 TTTTGAAAAATAAATGCTC
1 TTTTGAAAAATAAATGCTC
25236690 ATTGACAATC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 42 0.75
41 14 0.25
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (40 bp):
TTTTGAAAAATAAATGCTCCTCTAAACAGAGGCACCACAA
Found at i:25237369 original size:22 final size:22
Alignment explanation
Indices: 25237325--25237383 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
25237315 GACTTCACAC
* **
25237325 CTCAAAGATTCTTATTTTGAAA
1 CTCAAAGATTCTCATTTAAAAA
*
25237347 CTCAAAGATTCTCCTTTAAAAA
1 CTCAAAGATTCTCATTTAAAAA
*
25237369 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
25237384 CAAAATATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTAAAAA
Found at i:25238922 original size:13 final size:13
Alignment explanation
Indices: 25238906--25238930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25238896 TTTTACGATT
25238906 CTTTTTTTTTTAC
1 CTTTTTTTTTTAC
25238919 CTTTTTTTTTTA
1 CTTTTTTTTTTA
25238931 AAAAAAATGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTTTAC
Found at i:25244538 original size:60 final size:58
Alignment explanation
Indices: 25244469--25244895 Score: 531
Period size: 60 Copynumber: 7.2 Consensus size: 58
25244459 ATTTGGAAGT
*
25244469 TTTTATTTTAAGAAAAATTGATACTTTCAA-TTTTTCCTTAAAATA-TTTTTCTTGATAA
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTT-CTCAAAATATTTTTTCTTGA-AA
* * * *
25244527 TTTTTATTTTTAAGAAAAATTGGTACTTTCAACTTTTTCTCAAAATGTTCTTTTTTTAAAA
1 -TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATT-TTTTCTTGAAA
* *
25244588 TTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTTCTTGAAA
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTTCTTGAAA
* * *
25244647 TTTTATCTTTAAGAAAAATTGATAATTTCAACTTTTCCTCAAAA-ATTTTTTTTTGAAAA
1 TTTTAT-TTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTCTTG-AAA
* *
25244706 TTTTATTTAAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTTTCTTGAAA
1 TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATA--TTTTTTCTTGAAA
*
25244766 TTTTATTTTTAAGAAAAATTGATACATTCAACTTTTTCTCAAAAATATATTTTT-TTGAAA
1 TTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAATAT-TTTTTCTTGAAA
* * * *
25244826 TTTTATTTTAAAAGAAAATTGATACTTTCAATTTTTTCTCAAAAATAGTTTTT-TAGAAA
1 TTTTATTTTAAGA-AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTCTTGAAA
25244885 TTTTATTTTAA
1 TTTTATTTTAA
25244896 AAATTTTATT
Statistics
Matches: 325, Mismatches: 29, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
58 42 0.13
59 95 0.29
60 122 0.38
61 53 0.16
62 13 0.04
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (58 bp):
TTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTCTTGAAA
Found at i:25244614 original size:119 final size:117
Alignment explanation
Indices: 25244469--25245083 Score: 609
Period size: 119 Copynumber: 5.1 Consensus size: 117
25244459 ATTTGGAAGT
* *
25244469 TTTTATTTTAAGAAAAATTGATACTTTCAA-TTTTTCCTTAAAATA-TTTTTCTTGATAATTTTT
1 TTTTATTTTAAAAAAAATTGATACTTTCAACTTTTT-CTCAAAATATTTTTTCTTGA-AA-TTTT
*
25244532 ATTTTTAAGAAAAATTGGTACTTTCAACTTTTTCTC-AAAATGTTCTTTTTTTAAAA
63 ATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT-TT-TTTTTTTAAAA
* * *
25244588 TTTAATTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTTCTTGAAATTTTAT
1 TTTTATTTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATA-TTTTTTCTTGAAATTTTAT
* * * *
25244653 CTTTAAGAAAAATTGATAATTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAA
65 TTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATTTTTTTTTTAAAA
*
25244706 TTTTATTTAAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATACTTTTTTTCTTGAAATTTTA
1 TTTTATTTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATA--TTTTTTCTTGAAATTTTA
* * *
25244771 TTTTTAAGAAAAATTGATACATTCAACTTTTTCTCAAAAATATATTTTTTTGAAA
64 TTTTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAT-TTTTTTTTTAAAA
* * *
25244826 TTTTATTTTAAAAGAAAATTGATACTTTCAATTTTTTCTCAAAAATAGTTTTT-TAGAAATTTTA
1 TTTTATTTTAAAA-AAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTCTTG-AA----A
* * *
25244890 TTTTAAAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTTTC-CTTAAAATATATTTTTTA
59 TTTT----A---T-TTTTAAGAAAAATTGATACTTTCAACTTTTTCTC-AAAAATTTTTTTTTTA
*
25244954 AACCT
115 AA--A
*** * *
25244959 TTTTATTTTCAAGGGAAATTGATACTTTCAACTTTCTC-CAAAA-ATATTTT-TT-AAATTTTAT
1 TTTTATTTT-AAAAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTCTTGAAATTTTAT
* * * * * * *
25245020 TTTCAAGAAAAATTGATACTTTCAAAATTTTCCTTAAAAATATTTTTTTGAGAA
65 TTTTAAGAAAAATTGATACTTTC-AACTTTTTCTCAAAAATTTTTTTTTTAAAA
25245074 TTTTATTTTA
1 TTTTATTTTA
25245084 GGAAAATCAT
Statistics
Matches: 422, Mismatches: 47, Indels: 59
0.80 0.09 0.11
Matches are distributed among these distances:
114 1 0.00
115 9 0.02
116 22 0.05
117 22 0.05
118 52 0.12
119 131 0.31
120 42 0.10
121 35 0.08
122 6 0.01
124 10 0.02
128 3 0.01
130 6 0.01
131 14 0.03
132 37 0.09
133 30 0.07
134 2 0.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (117 bp):
TTTTATTTTAAAAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTCTTGAAATTTTATT
TTTAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATTTTTTTTTTAAAA
Found at i:25244893 original size:14 final size:14
Alignment explanation
Indices: 25244876--25244913 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
25244866 AAAAATAGTT
25244876 TTTTAGAAATTTTA
1 TTTTAGAAATTTTA
*
25244890 TTTTAAAAATTTTA
1 TTTTAGAAATTTTA
25244904 TTTTAAGAAA
1 TTTT-AGAAA
25244914 AATTGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (14 bp):
TTTTAGAAATTTTA
Found at i:25244921 original size:132 final size:128
Alignment explanation
Indices: 25244763--25245022 Score: 355
Period size: 132 Copynumber: 2.0 Consensus size: 128
25244753 TTTTTTCTTG
25244763 AAATTTTATTTTTAAGAAAAATTGATACATTCAACTTTTT-CTCAAAAATATATTTTTTTGAAA-
1 AAATTTTATTTTTAAGAAAAATTGATACATTCAACTTTTTCCT-AAAAATATA-TTTTTT-AAAC
* *
25244826 TTTTATTTTAAAAGAAAATTGATACTTTCAATTTTTTCTCAAAAATAGTTTTTTAGAAATTTTAT
63 TTTTATTTTAAAAGAAAATTGATACTTTCAACTTTCTC-CAAAAATA-TTTTTT--AAATTTTAT
25244891 TTTAA
124 TTTAA
* *
25244896 AAATTTTA-TTTTAAGAAAAATTGATACTTTCAACTTTTTCCTTAAAATATATTTTTTAAACCTT
1 AAATTTTATTTTTAAGAAAAATTGATACATTCAACTTTTTCCTAAAAATATATTTTTTAAA-C-T
* * *
25244960 TTTATTTTCAAGGGAAATTGATACTTTCAACTTTCTCCAAAAATATTTTTTAAATTTTATTTT
64 TTTATTTTAAAAGAAAATTGATACTTTCAACTTTCTCCAAAAATATTTTTTAAATTTTATTTT
25245023 CAAGAAAAAT
Statistics
Matches: 116, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
129 12 0.10
130 3 0.03
131 12 0.10
132 46 0.40
133 43 0.37
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (128 bp):
AAATTTTATTTTTAAGAAAAATTGATACATTCAACTTTTTCCTAAAAATATATTTTTTAAACTTT
TATTTTAAAAGAAAATTGATACTTTCAACTTTCTCCAAAAATATTTTTTAAATTTTATTTTAA
Found at i:25244934 original size:55 final size:56
Alignment explanation
Indices: 25244874--25245082 Score: 192
Period size: 60 Copynumber: 3.6 Consensus size: 56
25244864 TCAAAAATAG
25244874 TTTT-TTAGAAATTTTATTTTAAAAATTTTATTTT-AAGAAAAATTGATACTTTCAAC
1 TTTTCTTA-AAATTTT-TTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAAC
** **
25244930 TTTTTCCTTAAAATATATTTTTTAAACCTTTTTATTTTCAAGGGAAATTGATACTTTCAAC
1 -TTTT-CTTAAAAT-T-TTTTTTAAA-AATTTTATTTTCAAGAAAAATTGATACTTTCAAC
** * *
25244991 TTTCTCCAAAAATATTTTTT--AAATTTTATTTTCAAGAAAAATTGATACTTTCAAAA
1 TTT-TCTTAAAATTTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTC-AAC
* *
25245047 TTTTCCTTAAAAATATTTTTTTGAGAATTTTATTTT
1 TTTT-CTT-AAAAT-TTTTTTTAAAAATTTTATTTT
25245083 AGGAAAATCA
Statistics
Matches: 123, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
55 28 0.23
56 7 0.06
57 9 0.07
58 16 0.13
59 11 0.09
60 31 0.25
61 21 0.17
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.50
Consensus pattern (56 bp):
TTTTCTTAAAATTTTTTTTAAAAATTTTATTTTCAAGAAAAATTGATACTTTCAAC
Found at i:25245124 original size:16 final size:15
Alignment explanation
Indices: 25245096--25245135 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
25245086 AAAATCATTG
*
25245096 AAAAAAAAGAAAAAT
1 AAAAAAAATAAAAAT
25245111 AAAATAAAATAAAAAT
1 AAAA-AAAATAAAAAT
25245127 AAAAAAAAT
1 AAAAAAAAT
25245136 TAAGGAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:25246086 original size:3 final size:3
Alignment explanation
Indices: 25246080--25246117 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
25246070 ATTATTATTA
25246080 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25246118 GGAACCAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25253032 original size:19 final size:20
Alignment explanation
Indices: 25252991--25253034 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
25252981 TATATTTATA
*
25252991 TATTTAATAAAATTAATTTT
1 TATTTAATAAAATTAACTTT
*
25253011 TATTTAATAATA-TAACTTT
1 TATTTAATAAAATTAACTTT
25253030 TATTT
1 TATTT
25253035 TTTATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTAATAAAATTAACTTT
Found at i:25253072 original size:18 final size:19
Alignment explanation
Indices: 25253051--25253089 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
25253041 AATTTGAACT
25253051 AATATAT-TTATATTTA-AA
1 AATATATATT-TATTTACAA
25253069 AATATATATTTATTTACAA
1 AATATATATTTATTTACAA
25253088 AA
1 AA
25253090 AAAATTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATATTTATTTACAA
Found at i:25253089 original size:20 final size:20
Alignment explanation
Indices: 25253052--25253090 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25253042 ATTTGAACTA
*
25253052 ATATATTTATATTTAAAAAT
1 ATATATTTATATTCAAAAAT
25253072 ATATATTTAT-TTACAAAAA
1 ATATATTTATATT-CAAAAA
25253091 AAATTACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATATTTATATTCAAAAAT
Found at i:25259561 original size:2 final size:2
Alignment explanation
Indices: 25259554--25259591 Score: 60
Period size: 2 Copynumber: 19.0 Consensus size: 2
25259544 TTTTCCACAG
25259554 TA TA TA TA TGA -A TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25259592 AAGAAGTAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25265139 original size:7 final size:7
Alignment explanation
Indices: 25265127--25265170 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
25265117 TCCTTAAAAA
25265127 TTATAAT
1 TTATAAT
25265134 TTATAAT
1 TTATAAT
25265141 TTATAAT
1 TTATAAT
25265148 TT-TAAT
1 TTATAAT
25265154 TT-TAAT
1 TTATAAT
25265160 ACTTATAAT
1 --TTATAAT
25265169 TT
1 TT
25265171 TTTATTCTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 10 0.29
7 18 0.53
8 2 0.06
9 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (7 bp):
TTATAAT
Found at i:25265168 original size:15 final size:13
Alignment explanation
Indices: 25265125--25265171 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
25265115 CATCCTTAAA
*
25265125 AATTATAATTTAT
1 AATTTTAATTTAT
25265138 AATTTATAATTT-T
1 AATTT-TAATTTAT
25265151 AATTTTAATACTTAT
1 AATTTTAAT--TTAT
25265166 AATTTT
1 AATTTT
25265172 TTATTCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 10 0.34
14 8 0.28
15 7 0.24
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTTTAATTTAT
Found at i:25265631 original size:23 final size:22
Alignment explanation
Indices: 25265605--25265663 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
25265595 GTATCCGACC
25265605 TAAAATTAATAAAATATTATTTT
1 TAAAATT-ATAAAATATTATTTT
25265628 TAAAA-TATAAAATATTATTTT
1 TAAAATTATAAAATATTATTTT
*
25265649 TTAAA-TAT-AAATATT
1 TAAAATTATAAAATATT
25265664 TAAAAATATC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 7 0.20
21 22 0.63
22 1 0.03
23 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAAATTATAAAATATTATTTT
Found at i:25265639 original size:21 final size:21
Alignment explanation
Indices: 25265613--25265663 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
25265603 CCTAAAATTA
25265613 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
25265634 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
25265655 AT-AAATATT
1 ATAAAATATT
25265664 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 7 0.24
21 22 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:25265671 original size:30 final size:30
Alignment explanation
Indices: 25265636--25265696 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25265626 TTTAAAATAT
* * * *
25265636 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATAATTA
*
25265666 AAAATATCATTATATAAATATATATAATTA
1 AAAATATCATTATATAAATATAAATAATTA
25265696 A
1 A
25265697 TTAATTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATAATTA
Found at i:25266228 original size:21 final size:22
Alignment explanation
Indices: 25266195--25266238 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
25266185 ATTCAACATA
* *
25266195 TTAAAATATAATTAGAT-AAAT
1 TTAAAATAAAATTAAATCAAAT
*
25266216 TTAATATAAAATTAAATCAAAT
1 TTAAAATAAAATTAAATCAAAT
25266238 T
1 T
25266239 CACGTAATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TTAAAATAAAATTAAATCAAAT
Found at i:25270617 original size:11 final size:11
Alignment explanation
Indices: 25270596--25270629 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25270586 TTAATTAAAT
25270596 AATTAATTATTA
1 AATT-ATTATTA
25270608 AATTATTATTA
1 AATTATTATTA
*
25270619 AATTATAATTA
1 AATTATTATTA
25270630 TTGAATAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AATTATTATTA
Found at i:25274166 original size:21 final size:21
Alignment explanation
Indices: 25274134--25274176 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
25274124 TTAAATAAGG
* *
25274134 TTATTTGATAAACAACTAAAA
1 TTATTTGATAAAAAAATAAAA
25274155 TTATTT-ATTAAAAAAATAAAA
1 TTATTTGA-TAAAAAAATAAAA
25274176 T
1 T
25274177 CCACATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TTATTTGATAAAAAAATAAAA
Found at i:25274313 original size:21 final size:21
Alignment explanation
Indices: 25274289--25274328 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25274279 TAATTTGTAA
*
25274289 TTAAAAGAAACTATCTTATTT
1 TTAAAAAAAACTATCTTATTT
*
25274310 TTAAAAAAAATTATCTTAT
1 TTAAAAAAAACTATCTTAT
25274329 GTATAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (21 bp):
TTAAAAAAAACTATCTTATTT
Found at i:25275442 original size:13 final size:16
Alignment explanation
Indices: 25275410--25275445 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 16
25275400 GTGTGTTCAC
25275410 TAAATTATTATAATTT
1 TAAATTATTATAATTT
25275426 TAAATT-TTA-AA-TT
1 TAAATTATTATAATTT
25275439 TAAATTA
1 TAAATTA
25275446 AATTGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.42
14 2 0.11
15 3 0.16
16 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAAATTATTATAATTT
Found at i:25278468 original size:27 final size:27
Alignment explanation
Indices: 25278419--25278478 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
25278409 ACTTTTAAAT
25278419 ATAAATATAAAAATAGATATAAT-TAA
1 ATAAATATAAAAATAGATATAATATAA
** * *
25278445 ATAAATGATAAAAATATTTTTAATATAT
1 ATAAAT-ATAAAAATAGATATAATATAA
25278473 ATAAAT
1 ATAAAT
25278479 CAAAACGAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 14 0.50
28 8 0.29
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (27 bp):
ATAAATATAAAAATAGATATAATATAA
Found at i:25280060 original size:2 final size:2
Alignment explanation
Indices: 25280048--25280077 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25280038 CATTAACTGA
25280048 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25280078 AATCGGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:25286285 original size:8 final size:8
Alignment explanation
Indices: 25286274--25286310 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
25286264 TTTTTATTTA
25286274 TATATATT
1 TATATATT
*
25286282 TATATAAT
1 TATATATT
25286290 TATATATT
1 TATATATT
*
25286298 TAAATATT
1 TATATATT
25286306 TATAT
1 TATAT
25286311 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TATATATT
Found at i:25286295 original size:16 final size:15
Alignment explanation
Indices: 25286274--25286315 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
25286264 TTTTTATTTA
*
25286274 TATATATTTATATAAT
1 TATATATTTAAAT-AT
25286290 TATATATTTAAATAT
1 TATATATTTAAATAT
25286305 T-TATATTTAAA
1 TATATATTTAAA
25286316 AATAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 3 0.12
16 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATTTAAATAT
Found at i:25286314 original size:14 final size:16
Alignment explanation
Indices: 25286274--25286327 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 16
25286264 TTTTTATTTA
*
25286274 TATATATTTATATAAT
1 TATATATTTAAATAAT
25286290 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
25286305 T-TATATTTAAA-AAT
1 TATATATTTAAATAAT
*
25286319 AATA-ATTTA
1 TATATATTTA
25286328 TTAAATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.50
15 5 0.15
16 12 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:25287284 original size:18 final size:18
Alignment explanation
Indices: 25287231--25287314 Score: 52
Period size: 18 Copynumber: 4.8 Consensus size: 18
25287221 AAATATTTTT
25287231 TATATCGATATAAATTATAA
1 TATAT-GATATAAA-TATAA
* * * **
25287251 TACATAATTTTTATATAA
1 TATATGATATAAATATAA
25287269 TATATGATATAAATATAA
1 TATATGATATAAATATAA
**
25287287 -AT-T-AT-T-AATATTT
1 TATATGATATAAATATAA
25287300 TATATGATATAAATA
1 TATATGATATAAATA
25287315 CATAAATTAA
Statistics
Matches: 47, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
13 5 0.11
14 3 0.06
15 3 0.06
16 3 0.06
17 3 0.06
18 22 0.47
19 4 0.09
20 4 0.09
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TATATGATATAAATATAA
Found at i:25287333 original size:31 final size:31
Alignment explanation
Indices: 25287269--25287331 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
25287259 TTTTATATAA
*
25287269 TATATGATATAAATATAAATTATTAATATTT
1 TATATGATATAAATATAAATTAATAATATTT
25287300 TATATGATATAAATACATAAATTAAT-ATATTT
1 TATATGATATAAAT--ATAAATTAATAATATTT
25287332 ATTTTTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 14 0.48
32 6 0.21
33 9 0.31
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (31 bp):
TATATGATATAAATATAAATTAATAATATTT
Found at i:25290046 original size:36 final size:36
Alignment explanation
Indices: 25289999--25290071 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
25289989 AGTAAACTTC
25289999 ATAACTTAAACTCTGAAACTATCCTGCTCAAGTATT
1 ATAACTTAAACTCTGAAACTATCCTGCTCAAGTATT
25290035 ATAACTTAAACTCTGAAACTATCCTGCTCAAGTATT
1 ATAACTTAAACTCTGAAACTATCCTGCTCAAGTATT
25290071 A
1 A
25290072 CAGCCAAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (36 bp):
ATAACTTAAACTCTGAAACTATCCTGCTCAAGTATT
Found at i:25293046 original size:18 final size:18
Alignment explanation
Indices: 25293023--25293059 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25293013 TCGAAGTGGG
25293023 ACAAACAAATTGATTGAT
1 ACAAACAAATTGATTGAT
25293041 ACAAACAAATTGATTGAT
1 ACAAACAAATTGATTGAT
25293059 A
1 A
25293060 AGTTTAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
ACAAACAAATTGATTGAT
Found at i:25295970 original size:11 final size:11
Alignment explanation
Indices: 25295954--25295998 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
25295944 CATTTAAAAT
25295954 TTATTCGTTTA
1 TTATTCGTTTA
*
25295965 TTATTCGTTTG
1 TTATTCGTTTA
25295976 TTATTCGTTTA
1 TTATTCGTTTA
* *
25295987 TTGTTTGTTTA
1 TTATTCGTTTA
25295998 T
1 T
25295999 AATAATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (11 bp):
TTATTCGTTTA
Found at i:25298173 original size:12 final size:12
Alignment explanation
Indices: 25298146--25298178 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
25298136 AATTATCTAG
25298146 ATTTTT-TTTTA
1 ATTTTTATTTTA
25298157 A-TTTTATTTTA
1 ATTTTTATTTTA
25298168 ATTTTTATTTT
1 ATTTTTATTTT
25298179 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 7 0.35
12 9 0.45
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:25298482 original size:27 final size:26
Alignment explanation
Indices: 25298434--25298487 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
25298424 TGGCAGTGAG
*
25298434 AAAAATTTTTTAGAAAAATTTGGCGAA
1 AAAAATTTTCTAGAAAAATTTGG-GAA
* **
25298461 AAAAATTTTCTGGAAATTTTTGGGAA
1 AAAAATTTTCTAGAAAAATTTGGGAA
25298487 A
1 A
25298488 TTTCCAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (26 bp):
AAAAATTTTCTAGAAAAATTTGGGAA
Found at i:25298531 original size:31 final size:31
Alignment explanation
Indices: 25298496--25298566 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
25298486 AATTTCCAGA
*
25298496 TTCCGGCGAAAATTCCGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
25298527 TTCCGGCCACAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
25298558 TTCCGGCGA
1 TTCCGGCGA
25298567 CAGACCCAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 33 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:25298654 original size:19 final size:19
Alignment explanation
Indices: 25298625--25298674 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
25298615 CAACTTCCGG
25298625 CAGATTTCCGGCGAAATTCC
1 CAGA-TTCCGGCGAAATTCC
* *
25298645 CAGATTCCGGCGAATTTTC
1 CAGATTCCGGCGAAATTCC
*
25298664 CAGAATCCGGC
1 CAGATTCCGGC
25298675 ACCGGCGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (19 bp):
CAGATTCCGGCGAAATTCC
Found at i:25298904 original size:5 final size:5
Alignment explanation
Indices: 25298894--25298921 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
25298884 TTCAGCCCCT
25298894 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG
25298922 CGATCCGAGC
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:0.43, G:0.39, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:25299438 original size:159 final size:159
Alignment explanation
Indices: 25298997--25299600 Score: 1088
Period size: 159 Copynumber: 3.8 Consensus size: 159
25298987 ATTTTTTTTC
* *
25298997 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTTTTTCTTGCATAC
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAGTTTTTCTTGCATAC
25299062 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
65 TCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTC
25299127 CGATAATTAATTACTTGGCTGATTTTGATTT
130 CGATAATTAATTACTTGGCTGATTTTGA-TT
25299158 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
25299223 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
25299288 GATAATTAATTACTTGGCTGATTTTGATT
131 GATAATTAATTACTTGGCTGATTTTGATT
25299317 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
25299382 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* * *
25299447 GATAATTAATTAATTGGTTGATCTTGA--
131 GATAATTAATTACTTGGCTGATTTTGATT
* *
25299474 -TTTTTCTTTAAATAATCCGACGACAGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
25299538 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
66 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
25299601 TCAACAACTA
Statistics
Matches: 434, Mismatches: 9, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
156 124 0.29
159 155 0.36
160 116 0.27
161 39 0.09
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.39
Consensus pattern (159 bp):
TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
GATAATTAATTACTTGGCTGATTTTGATT
Found at i:25305622 original size:9 final size:8
Alignment explanation
Indices: 25305607--25305662 Score: 51
Period size: 9 Copynumber: 6.6 Consensus size: 8
25305597 ACTATGCTTG
25305607 AAAAAAAT
1 AAAAAAAT
25305615 ACAAAAAA-
1 A-AAAAAAT
25305623 AAAAAAAT
1 AAAAAAAT
25305631 AAAAAAAAT
1 -AAAAAAAT
*
25305640 GAAAAAAT
1 AAAAAAAT
*
25305648 GGAAAAAAT
1 -AAAAAAAT
25305657 GAAAAA
1 -AAAAA
25305663 TGATGAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
7 6 0.14
8 9 0.21
9 27 0.64
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:25305628 original size:16 final size:15
Alignment explanation
Indices: 25305607--25305638 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
25305597 ACTATGCTTG
25305607 AAAAAAATACAAAAAA
1 AAAAAAATA-AAAAAA
25305623 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
25305638 A
1 A
25305639 TGAAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.91, C:0.03, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAAAATAAAAAAA
Found at i:25305644 original size:17 final size:17
Alignment explanation
Indices: 25305608--25305710 Score: 79
Period size: 17 Copynumber: 6.1 Consensus size: 17
25305598 CTATGCTTGA
25305608 AAAAAATACAAAAAAA--
1 AAAAAATA-AAAAAAATG
25305624 AAAAAATAAAAAAAATG
1 AAAAAATAAAAAAAATG
**
25305641 AAAAAATGGAAAAAATG
1 AAAAAATAAAAAAAATG
**
25305658 -AAAAATGATGAAAAATGG
1 AAAAAAT-AAAAAAAAT-G
**
25305676 AAAAAATGGAAAAAATG
1 AAAAAATAAAAAAAATG
* *
25305693 GAAAAA-AAAAAAAGTG
1 AAAAAATAAAAAAAATG
25305709 AA
1 AA
25305711 CGAAAAAGGA
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
15 7 0.10
16 22 0.32
17 27 0.39
18 7 0.10
19 6 0.09
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.11
Consensus pattern (17 bp):
AAAAAATAAAAAAAATG
Found at i:25305680 original size:9 final size:9
Alignment explanation
Indices: 25305633--25305699 Score: 88
Period size: 9 Copynumber: 7.7 Consensus size: 9
25305623 AAAAAAATAA
25305633 AAAAAAT-G
1 AAAAAATGG
25305641 AAAAAATGG
1 AAAAAATGG
25305650 AAAAAAT-G
1 AAAAAATGG
25305658 -AAAAAT-G
1 AAAAAATGG
25305665 ATGAAAAATGG
1 A--AAAAATGG
25305676 AAAAAATGG
1 AAAAAATGG
25305685 AAAAAATGG
1 AAAAAATGG
25305694 AAAAAA
1 AAAAAA
25305700 AAAAAAGTGA
Statistics
Matches: 54, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.13
8 8 0.15
9 31 0.57
10 6 0.11
11 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (9 bp):
AAAAAATGG
Found at i:25306805 original size:41 final size:41
Alignment explanation
Indices: 25306728--25307052 Score: 473
Period size: 41 Copynumber: 8.0 Consensus size: 41
25306718 GTCTAGGAGT
*
25306728 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
25306768 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
25306809 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
*
25306849 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
25306890 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
*
25306931 ATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
25306973 ATTTACTTTCCAAAGTCCGT--TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTCCAAAGT-CGTGGTGCCTCTGTTTAGAGGAGCA
* * * *
25307013 ATTTACTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
25307053 TTCGGCAAAA
Statistics
Matches: 266, Mismatches: 10, Indels: 17
0.91 0.03 0.06
Matches are distributed among these distances:
39 11 0.04
40 82 0.31
41 126 0.47
42 47 0.18
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:25306826 original size:81 final size:81
Alignment explanation
Indices: 25306728--25307052 Score: 526
Period size: 81 Copynumber: 4.0 Consensus size: 81
25306718 GTCTAGGAGT
*
25306728 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
25306793 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
25306809 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
25306874 TCTGTTTAGAGGAGCA
66 TCTGTTTAGAGGAGCA
*
25306890 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGT
*
25306954 GCCTCTGTTGAGAGGAGCA
63 GCCTCTGTTTAGAGGAGCA
* * * * * *
25306973 ATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAAGTCGTTGAGTC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
25307038 TCTGTTTAGAGGAGC
66 TCTGTTTAGAGGAGC
25307053 TTCGGCAAAA
Statistics
Matches: 227, Mismatches: 13, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
80 4 0.02
81 123 0.54
82 50 0.22
83 47 0.21
84 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (81 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCA
Found at i:25306997 original size:164 final size:162
Alignment explanation
Indices: 25306728--25307052 Score: 528
Period size: 164 Copynumber: 2.0 Consensus size: 162
25306718 GTCTAGGAGT
*
25306728 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
* * *
25306793 TCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
66 TCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TT
*
25306858 TC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
130 TCAAAAGTCGTGGAGCCTCTGTTTAGAGGAGCA
25306890 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTGAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGT
*
25306954 GCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
63 ACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
* *
25307019 TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
128 TTTCAAAAGTCGTGGAGCCTCTGTTTAGAGGAGC
25307053 TTCGGCAAAA
Statistics
Matches: 151, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
161 4 0.03
162 15 0.10
163 29 0.19
164 103 0.68
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (162 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
TCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTACTTT
CAAAAGTCGTGGAGCCTCTGTTTAGAGGAGCA
Found at i:25307065 original size:1 final size:1
Alignment explanation
Indices: 25307059--25307186 Score: 112
Period size: 1 Copynumber: 128.0 Consensus size: 1
25307049 GAGCTTCGGC
* * * * * *
25307059 AAAAAAAAAAAAAAAAACAAAAAAAACAAAAAAAAAACAAAAAAAAAACAAAAAAAACAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * *** ** *
25307124 AAAACAAAAACAAAAAAACAAAAAAAACAAAAATTTAAAAAAAAAAAAATCAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25307187 TGTTGAGTTG
Statistics
Matches: 100, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 100 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Found at i:25307093 original size:23 final size:23
Alignment explanation
Indices: 25307059--25307186 Score: 149
Period size: 23 Copynumber: 5.7 Consensus size: 23
25307049 GAGCTTCGGC
25307059 AAAA-AAAAAAAAAAAAACAAAA
1 AAAACAAAAAAAAAAAAACAAAA
*
25307081 AAAACAAAAAAAAAACAA-AAAA
1 AAAACAAAAAAAAAAAAACAAAA
*
25307103 AAAAC--AAAAAAAACAACAAAA
1 AAAACAAAAAAAAAAAAACAAAA
*
25307124 AAAACAAAAACAAAAAAACAAAA
1 AAAACAAAAAAAAAAAAACAAAA
**
25307147 AAAACAAAAATTTAAAAAA-AAAA
1 AAAACAAAAA-AAAAAAAACAAAA
* *
25307170 AAATCAAAAAATAAAAA
1 AAAACAAAAAAAAAAAA
25307187 TGTTGAGTTG
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
20 11 0.12
21 9 0.10
22 19 0.20
23 49 0.52
24 6 0.06
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.04
Consensus pattern (23 bp):
AAAACAAAAAAAAAAAAACAAAA
Found at i:25307407 original size:35 final size:35
Alignment explanation
Indices: 25307368--25307467 Score: 98
Period size: 39 Copynumber: 2.8 Consensus size: 35
25307358 TCTTTTGTAT
*
25307368 TTTATGTATTTATTATTATTATTATTATGTATATA
1 TTTATATATTTATTATTATTATTATTATGTATATA
* *
25307403 TTTATTTATTTTTTATTAGATTAGATT-TATATGTATATA
1 TTTATATATTTATTATT--ATT--ATTAT-TATGTATATA
*
25307442 GTTATATA-TTATTATTA-TATTATTAT
1 TTTATATATTTATTATTATTATTATTAT
25307468 TCTTATCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
33 6 0.11
34 1 0.02
35 16 0.30
36 1 0.02
37 3 0.06
38 8 0.15
39 19 0.35
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (35 bp):
TTTATATATTTATTATTATTATTATTATGTATATA
Found at i:25307418 original size:23 final size:22
Alignment explanation
Indices: 25307365--25307418 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
25307355 TCTTCTTTTG
*
25307365 TATTTTATGTATTTATTATTAT
1 TATTTTATGTATATATTATTAT
25307387 TATTATTATGTATATATTTATTTAT
1 TATT-TTATGTATATA-TTA-TTAT
25307412 T-TTTTAT
1 TATTTTAT
25307419 TAGATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.14
23 14 0.50
24 5 0.18
25 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.69
Consensus pattern (22 bp):
TATTTTATGTATATATTATTAT
Found at i:25307585 original size:11 final size:12
Alignment explanation
Indices: 25307564--25307597 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
25307554 AATTATCTAG
*
25307564 ATTTTTTTTTTA
1 ATTTTTATTTTA
25307576 A-TTTTATTTTA
1 ATTTTTATTTTA
25307587 ATTTTTATTTT
1 ATTTTTATTTT
25307598 GGAGGGCTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTA
Found at i:25308060 original size:19 final size:19
Alignment explanation
Indices: 25308031--25308080 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
25308021 CAACTTCCGG
25308031 CAGATTTCCGGCGAAATTCC
1 CAGA-TTCCGGCGAAATTCC
* *
25308051 CAGATTCCGGCGAATTTTC
1 CAGATTCCGGCGAAATTCC
*
25308070 CAGAATCCGGC
1 CAGATTCCGGC
25308081 ACCGGCGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (19 bp):
CAGATTCCGGCGAAATTCC
Found at i:25308310 original size:5 final size:5
Alignment explanation
Indices: 25308300--25308341 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
25308290 TTCAGCCCCT
*
25308300 CCGAG CCGAG CCGAG CCGAG CCGAAG CCG-G -CGAT CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCGAG CCG
25308342 CTCCAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 1 0.03
5 24 0.75
6 5 0.16
ACGTcount: A:0.19, C:0.40, G:0.38, T:0.02
Consensus pattern (5 bp):
CCGAG
Found at i:25308656 original size:161 final size:161
Alignment explanation
Indices: 25308391--25309009 Score: 1090
Period size: 161 Copynumber: 3.9 Consensus size: 161
25308381 ATTTTGATCT
* *
25308391 TGATTTT--TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
25308454 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
25308519 TTGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTACTTGGC
25308552 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
25308617 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
25308682 GAGAATAATTTCCGATAATTAATTACTTGGC
131 GAGAATAATTTCCGATAATTAATTACTTGGC
25308713 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
25308778 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* * *
25308843 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTACTTGGC
* * *
25308874 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACAGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
*
25308934 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
25308999 GAGAATAATTT
131 GAGAATAATTT
25309010 TCAACAACTA
Statistics
Matches: 447, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
156 124 0.28
161 280 0.63
162 39 0.09
163 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTACTTGGC
Found at i:25309001 original size:317 final size:318
Alignment explanation
Indices: 25308391--25309009 Score: 1082
Period size: 317 Copynumber: 1.9 Consensus size: 318
25308381 ATTTTGATCT
25308391 TGATTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTT
1 TGATTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTT
25308456 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* * *
25308521 GAGAATAATTTCCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTCTTTAATTAATCCGA
131 GAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGA----TTTTTTCTTTAAATAATCCGA
*
25308586 CGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCT
192 CGACAGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCT
25308651 CAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGATAATTAATTACTTGGC
257 CAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGATAATTAATTACTTGGC
* *
25308713 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
1 TGATTTT--TTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
25308776 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
* *
25308841 TTGAGAATAATTTTCGATAATTAATTAATTGGTTGATCTTGA-TTTTTCTTTAAATAATCCGACG
129 TTGAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGATTTTTTCTTTAAATAATCCGACG
*
25308905 ACAGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCA
194 ACAGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCA
25308970 ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
259 ATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTT
25309010 TCAACAACTA
Statistics
Matches: 286, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
317 124 0.43
322 119 0.42
323 39 0.14
324 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.40
Consensus pattern (318 bp):
TGATTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGCTGATCTTGATTTTTTCTTTAAATAATCCGACGAC
AGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAAT
TTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCCGATAATTAATTACTTGGC
Found at i:25310591 original size:79 final size:79
Alignment explanation
Indices: 25310491--25310767 Score: 267
Period size: 79 Copynumber: 3.5 Consensus size: 79
25310481 CTAATTCTAA
* * * * *
25310491 AAAATATGGTGAAGCTAATATTTTATCAATAAAATTTAACCGAGCTGAGTTCTTTTAGCTGAGAT
1 AAAATATGATGAAACTAATATTTTATCAATAAAATTTGATCGAGCTGAGTTCTTTTAGCAGAGAT
25310556 AATCTTTTATTAAG
66 AATCTTTTATTAAG
* * * * *
25310570 AAAATATGATAAAACTAATATTTTATCAATAAAATTTGGTTGAACTGAGCTT-TTTTGGCAGA-A
1 AAAATATGATGAAACTAATATTTTATCAATAAAATTTGATCGAGCTGAG-TTCTTTTAGCAGAGA
* * *
25310633 CTGATCCTTTATTAGG
65 -TAATCTTTTATTAAG
* * * * * * * *
25310649 GAAATATGATGAAACTAATACTTTATCAATGACATTTGATCAAGCTGAGCTCTTTTAACCA-AGC
1 AAAATATGATGAAACTAATATTTTATCAATAAAATTTGATCGAGCTGAGTTCTTTT-AGCAGAGA
25310713 TAATCATTTTATTTAAG
65 TAATC-TTTTA-TTAAG
* *
25310730 -AAATATGACGAAACTAA-ATCTTATCAATAAAATTTGAT
1 AAAATATGATGAAACTAATATTTTATCAATAAAATTTGAT
25310768 TGAATTAATC
Statistics
Matches: 157, Mismatches: 34, Indels: 14
0.77 0.17 0.07
Matches are distributed among these distances:
78 2 0.01
79 127 0.81
80 24 0.15
81 4 0.03
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (79 bp):
AAAATATGATGAAACTAATATTTTATCAATAAAATTTGATCGAGCTGAGTTCTTTTAGCAGAGAT
AATCTTTTATTAAG
Found at i:25310784 original size:158 final size:158
Alignment explanation
Indices: 25310492--25310785 Score: 358
Period size: 158 Copynumber: 1.9 Consensus size: 158
25310482 TAATTCTAAA
* * * * * * **
25310492 AAATATGGTGAAGCTAATATTTTATCAATAAAATTTAACCGAGCTGAGTTCTTTTAGCTGAGATA
1 AAATATGATGAAACTAATACTTTATCAATAAAATTTAACCAAGCTGAGCTCTTTTAACCAAGATA
* * * * **
25310557 ATCTTTTATTAAGAAAATATGATAAAACTAATATTTTATCAATAAAATTTGGTTGAACTGAGCTT
66 ATCTTTTATTAAGAAAATATGACAAAACTAATATCTTATCAATAAAATTTGATTGAACTAAGCAC
25310622 TTTTGGCAGAACTGATCCTTTATTAGGG
131 TTTTGGCAGAACTGATCCTTTATTAGGG
* * * * *
25310650 AAATATGATGAAACTAATACTTTATCAATGACATTTGATCAAGCTGAGCTCTTTTAACCAAGCTA
1 AAATATGATGAAACTAATACTTTATCAATAAAATTTAACCAAGCTGAGCTCTTTTAACCAAGATA
* * *
25310715 ATCATTTTATTTAAG-AAATATGACGAAACTAA-ATCTTATCAATAAAATTTGATTGAATTAATC
66 ATC-TTTTA-TTAAGAAAATATGACAAAACTAATATCTTATCAATAAAATTTGATTGAACTAAGC
25310778 ACTTTTGG
129 ACTTTTGG
25310786 ATGAGTTCAT
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
158 87 0.78
159 20 0.18
160 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (158 bp):
AAATATGATGAAACTAATACTTTATCAATAAAATTTAACCAAGCTGAGCTCTTTTAACCAAGATA
ATCTTTTATTAAGAAAATATGACAAAACTAATATCTTATCAATAAAATTTGATTGAACTAAGCAC
TTTTGGCAGAACTGATCCTTTATTAGGG
Found at i:25311111 original size:17 final size:17
Alignment explanation
Indices: 25311081--25311134 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
25311071 GTCATAAATA
25311081 ATAT-TTATTATTATTTT
1 ATATATTATT-TTATTTT
*
25311098 ATATATTATTTTATTCT
1 ATATATTATTTTATTTT
*
25311115 ATA-ATAAATTTT-TTTT
1 ATATAT-TATTTTATTTT
25311131 ATAT
1 ATAT
25311135 TTTTAATGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
16 8 0.26
17 18 0.58
18 5 0.16
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTATTTTATTTT
Found at i:25314977 original size:11 final size:11
Alignment explanation
Indices: 25314963--25315007 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
25314953 CATTTAAAAT
*
25314963 TTATTTGTTTA
1 TTATTTATTTA
*
25314974 TTATTTATTTG
1 TTATTTATTTA
* *
25314985 TTATTCATTTG
1 TTATTTATTTA
25314996 TTATTTATTTA
1 TTATTTATTTA
25315007 T
1 T
25315008 AATAATACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:25315408 original size:23 final size:22
Alignment explanation
Indices: 25315380--25315422 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
25315370 ATATTTCATC
*
25315380 TATAATTATTTTTATTATAATTT
1 TATAATTA-TTTAATTATAATTT
25315403 TATAATTATTTAATTATAAT
1 TATAATTATTTAATTATAAT
25315423 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAATTATTTAATTATAATTT
Found at i:25315515 original size:21 final size:21
Alignment explanation
Indices: 25315458--25315521 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
25315448 TTATAAATAC
25315458 AAATT-TAATATAA-AATTTT
1 AAATTATAATATAATAATTTT
*
25315477 -AA-TA-AATCTCATATAATTTT
1 AAATTATAATAT-A-ATAATTTT
*
25315497 AAATTATAATATAATAATTAT
1 AAATTATAATATAATAATTTT
25315518 AAAT
1 AAAT
25315522 GATATACTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
17 5 0.14
18 3 0.09
19 1 0.03
20 6 0.17
21 13 0.37
22 3 0.09
23 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTATAATATAATAATTTT
Found at i:25317874 original size:29 final size:29
Alignment explanation
Indices: 25317836--25317906 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
25317826 AGCCTTTACA
* *
25317836 AAAGAAATTTGACTAAGCTAATCATTTAT
1 AAAGAAATTTGACCAAACTAATCATTTAT
* *
25317865 TAAGAAATTTAACCAAACTAATCATTTAT
1 AAAGAAATTTGACCAAACTAATCATTTAT
25317894 AAAGACAATTTGA
1 AAAGA-AATTTGA
25317907 TCGAGCTGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAGAAATTTGACCAAACTAATCATTTAT
Found at i:25318140 original size:79 final size:78
Alignment explanation
Indices: 25318050--25318228 Score: 184
Period size: 79 Copynumber: 2.3 Consensus size: 78
25318040 AAATATTGAG
*
25318050 AAGCTAATATTTTATCAATGAAATTAGGCCTGACTAAGCTCTTTTGGCTGAGA-TAATACTTTAT
1 AAGCTAATATTTTATCAATGAAATT-GG-CTGAATAAGCTCTTTTGGCTGAGACTAATACTTTAT
25318114 TAAGGAAATATGACA
64 TAAGGAAATATGACA
* * * * * * * * * *
25318129 AAGCTAATATTTTATCAATAAAATTTGGTTGAGATGAGTTTTTTTTGC-CAAATTAATCCTTTAT
1 AAGCTAATATTTTATCAATGAAA-TTGGCTGA-ATAAGCTCTTTTGGCTGAGACTAATACTTTAT
*
25318193 TAAGGAAATATGATGA
64 TAAGGAAATATGA-CA
25318209 AA-CTAATATTTTATCAATGA
1 AAGCTAATATTTTATCAATGA
25318229 CATTTGATCA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
78 5 0.06
79 74 0.88
80 5 0.06
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (78 bp):
AAGCTAATATTTTATCAATGAAATTGGCTGAATAAGCTCTTTTGGCTGAGACTAATACTTTATTA
AGGAAATATGACA
Found at i:25326869 original size:18 final size:19
Alignment explanation
Indices: 25326817--25326869 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
25326807 ATAAATTTCA
**
25326817 TATT-TATAAATAATGAAT
1 TATTATATAAATAATTTAT
*
25326835 TATTATATAAAT-TTTTAT
1 TATTATATAAATAATTTAT
25326853 TATTAT-TAAATAATTTA
1 TATTATATAAATAATTTA
25326870 AAAATTATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.17
18 17 0.59
19 7 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TATTATATAAATAATTTAT
Found at i:25327741 original size:17 final size:18
Alignment explanation
Indices: 25327710--25327748 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
25327700 AAGATATTCT
25327710 AAAAAAGAAAGATAAACA
1 AAAAAAGAAAGATAAACA
* *
25327728 AAAAAATAAA-ATAAATA
1 AAAAAAGAAAGATAAACA
25327745 AAAA
1 AAAA
25327749 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAAAGAAAGATAAACA
Found at i:25333611 original size:18 final size:19
Alignment explanation
Indices: 25333577--25333612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25333567 AAGGTGAACA
*
25333577 AGTTTGCCTCATAGAGGTC
1 AGTTTGCATCATAGAGGTC
25333596 AGTTTGCATC-TAGAGGT
1 AGTTTGCATCATAGAGGT
25333613 TCATAATGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (19 bp):
AGTTTGCATCATAGAGGTC
Found at i:25341961 original size:4 final size:4
Alignment explanation
Indices: 25341952--25341978 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
25341942 CTCTACTCAT
25341952 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
25341979 TATATATATA
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:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:25342755 original size:78 final size:78
Alignment explanation
Indices: 25342626--25342781 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
25342616 TTGTAAATGT
*
25342626 AATGGCAAAAGTTTATTTACATAACTTGCTTCCCAATATTAGGATTTGTAAAATGGAAGACCTTT
1 AATGGCAAAAGTTTATTTACATAACTTGCTACCCAATATTAGGATTTGTAAAATGGAAGACCTTT
25342691 TATACTTTTCCCC
66 TATACTTTTCCCC
25342704 AATGGCAAAAGTTTATTTACATAACTTGCTACCCAATATTAGGATTTGTAAAATGGAAGACCTTT
1 AATGGCAAAAGTTTATTTACATAACTTGCTACCCAATATTAGGATTTGTAAAATGGAAGACCTTT
25342769 TATACTTTTCCCC
66 TATACTTTTCCCC
25342782 TTCTTCTCAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (78 bp):
AATGGCAAAAGTTTATTTACATAACTTGCTACCCAATATTAGGATTTGTAAAATGGAAGACCTTT
TATACTTTTCCCC
Found at i:25347107 original size:2 final size:2
Alignment explanation
Indices: 25347100--25347129 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
25347090 TCTCATTAAT
*
25347100 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25347130 AATGTAGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25349629 original size:20 final size:20
Alignment explanation
Indices: 25349592--25349630 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
25349582 AAAAAATAAA
*
25349592 AAATCATAAAAAATAATTTT
1 AAATCATAAAAAAGAATTTT
25349612 AAAT-ATAAAAATAGAATTT
1 AAATCATAAAAA-AGAATTT
25349631 GGATGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATCATAAAAAAGAATTTT
Found at i:25350443 original size:14 final size:14
Alignment explanation
Indices: 25350424--25350450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25350414 CACATATCTT
25350424 ATTTTTTTAAATTA
1 ATTTTTTTAAATTA
25350438 ATTTTTTTAAATT
1 ATTTTTTTAAATT
25350451 TTTCATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTTTAAATTA
Found at i:25355650 original size:21 final size:21
Alignment explanation
Indices: 25355626--25355671 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
25355616 AATAAAAAAT
*
25355626 AAATATAAATAAGTCTGTTCA
1 AAATATAAATAAGTCTATTCA
* *
25355647 AAATATAGATAAGTCTATTTA
1 AAATATAAATAAGTCTATTCA
25355668 AAAT
1 AAAT
25355672 GAATAGTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (21 bp):
AAATATAAATAAGTCTATTCA
Found at i:25363681 original size:19 final size:19
Alignment explanation
Indices: 25363659--25363702 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25363649 CTTATGATAC
*
25363659 ATTGGTGATTATTCGGTAG
1 ATTGATGATTATTCGGTAG
**
25363678 ATTGATTTTTATTCGGTAG
1 ATTGATGATTATTCGGTAG
25363697 ATTGAT
1 ATTGAT
25363703 TTCATCAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.48
Consensus pattern (19 bp):
ATTGATGATTATTCGGTAG
Found at i:25363703 original size:19 final size:19
Alignment explanation
Indices: 25363667--25363704 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25363657 ACATTGGTGA
25363667 TTATTCGGTAGATTGATTT
1 TTATTCGGTAGATTGATTT
25363686 TTATTCGGTAGATTGATTT
1 TTATTCGGTAGATTGATTT
25363705 CATCAGTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (19 bp):
TTATTCGGTAGATTGATTT
Found at i:25365036 original size:31 final size:32
Alignment explanation
Indices: 25364976--25365047 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
25364966 TATTCACTTC
** *
25364976 AAATTTAATTTAAATTTATATTTTTAAAA-TT
1 AAATTTAATTTAAATTTATATGATAAAAATTT
*
25365007 AAATTTAATTTAATTTTATATGATAAAAATTT
1 AAATTTAATTTAAATTTATATGATAAAAATTT
*
25365039 AGATTTAAT
1 AAATTTAAT
25365048 CAGATTTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (32 bp):
AAATTTAATTTAAATTTATATGATAAAAATTT
Found at i:25365186 original size:20 final size:19
Alignment explanation
Indices: 25365146--25365196 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
25365136 AAATATATTT
*
25365146 TTAAATATA-AATATAAAA
1 TTAAATATATAATAAAAAA
*
25365164 TTAAATAAATAATAAAAATA
1 TTAAATATATAATAAAAA-A
*
25365184 TTATATATATAAT
1 TTAAATATATAAT
25365197 TTGAGTTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TTAAATATATAATAAAAAA
Found at i:25365374 original size:29 final size:29
Alignment explanation
Indices: 25365316--25365374 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
25365306 CGAACAATGC
* **
25365316 TTGGAGCCTGTGTTTGAGGAAGGTTATTA
1 TTGGAGCCTGTGCTTGAGGAACATTATTA
*
25365345 TTGGAGCCTGTGCTTGAGGAACATTTTTA
1 TTGGAGCCTGTGCTTGAGGAACATTATTA
25365374 T
1 T
25365375 CGATAAAGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.10, G:0.31, T:0.39
Consensus pattern (29 bp):
TTGGAGCCTGTGCTTGAGGAACATTATTA
Found at i:25367967 original size:23 final size:24
Alignment explanation
Indices: 25367916--25367969 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
25367906 ATTATATTTA
*
25367916 ATTTATATATACAAATAATTAATT
1 ATTTTTATATACAAATAATTAATT
*
25367940 ATTTTTATATA-AAATTATTTAATT
1 ATTTTTATATACAAA-TAATTAATT
25367964 -TTTTTA
1 ATTTTTA
25367970 AAATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTTATATACAAATAATTAATT
Found at i:25369159 original size:6 final size:6
Alignment explanation
Indices: 25369138--25369178 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
25369128 ATAAAATTAA
* *
25369138 TATAATT TAAAAT TATAAT TATAAT TATAAT AATAAT TATA
1 TATAA-T TATAAT TATAAT TATAAT TATAAT TATAAT TATA
25369179 TAAAATTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
TATAAT
Found at i:25372278 original size:20 final size:21
Alignment explanation
Indices: 25372253--25372294 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25372243 CCCACTACTG
*
25372253 GAATGGCA-GTAGTATGTCCT
1 GAATGGCATCTAGTATGTCCT
25372273 GAATGGCATCTAGTATGTCCT
1 GAATGGCATCTAGTATGTCCT
25372294 G
1 G
25372295 GATTGTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
GAATGGCATCTAGTATGTCCT
Found at i:25373888 original size:17 final size:17
Alignment explanation
Indices: 25373847--25373889 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
25373837 GAAAAAAATG
**
25373847 AACTTACCCATGTTGGA
1 AACTTACCCATGTCCGA
*
25373864 AACATACCCATGTCCGA
1 AACTTACCCATGTCCGA
*
25373881 CACTTACCC
1 AACTTACCC
25373890 CCAAGGACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (17 bp):
AACTTACCCATGTCCGA
Found at i:25375740 original size:31 final size:31
Alignment explanation
Indices: 25375659--25375742 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 31
25375649 TATTTATATT
*
25375659 ATATAAAATATTTAAATTCATATATTTATATAAAA
1 ATATAAAATA-TT-AATT--TATATTGATATAAAA
* *
25375694 ATTATATATTA-TAATTTATATTGATATAAAA
1 A-TATAAAATATTAATTTATATTGATATAAAA
25375725 ATATAAAATATTAATTTA
1 ATATAAAATATTAATTTA
25375743 ATTAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
30 7 0.17
31 22 0.52
33 4 0.10
34 1 0.02
35 1 0.02
36 7 0.17
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (31 bp):
ATATAAAATATTAATTTATATTGATATAAAA
Found at i:25379480 original size:20 final size:21
Alignment explanation
Indices: 25379455--25379505 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
25379445 TTTGTATTAA
25379455 AATTTGTTTATTTAATTT-TT
1 AATTTGTTTATTTAATTTATT
*
25379475 AATTTGTTGA-TTAATTTATT
1 AATTTGTTTATTTAATTTATT
* *
25379495 TATTTGATTAT
1 AATTTGTTTAT
25379506 GAGTAATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
AATTTGTTTATTTAATTTATT
Found at i:25380538 original size:18 final size:19
Alignment explanation
Indices: 25380515--25380553 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
25380505 TTCTCTATTA
25380515 TTTAATTT-AAATTTTTTT
1 TTTAATTTGAAATTTTTTT
25380533 TTTAATTTGGAAATTTTTTT
1 TTTAATTT-GAAATTTTTTT
25380553 T
1 T
25380554 GCGGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTAATTTGAAATTTTTTT
Found at i:25381937 original size:2 final size:2
Alignment explanation
Indices: 25381928--25381977 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
25381918 GTTTTTTGGA
* *
25381928 AT AT -T AT AT AT AT AT CT AT AT AT CT 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
*
25381969 GT AT AT AT A
1 AT AT AT AT A
25381978 ATCTGACTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25387607 original size:2 final size:2
Alignment explanation
Indices: 25387600--25387635 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
25387590 TTCTGTCTAC
* *
25387600 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25387636 GTAGGCTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25390463 original size:24 final size:25
Alignment explanation
Indices: 25390436--25390502 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
25390426 ATTAATTTTT
25390436 ATTAATTTTTTTAATAATAATCA-A
1 ATTAATTTTTTTAATAATAATCACA
* * *
25390460 ATTAATTTTTTAAATTATAATTACA
1 ATTAATTTTTTTAATAATAATCACA
*
25390485 A-TAATTTTTATTATTAAT
1 ATTAATTTTT-TTAATAAT
25390503 TTTAATTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 28 0.80
25 7 0.20
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAATTTTTTTAATAATAATCACA
Found at i:25400408 original size:23 final size:21
Alignment explanation
Indices: 25400382--25400427 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
25400372 TTTTGCTAAA
*
25400382 ATTTTATATCATATCATTTTTAT
1 ATTTT-TAT-ATATCATTTTCAT
*
25400405 ATTTTTATGTATCATTTTCAT
1 ATTTTTATATATCATTTTCAT
25400426 AT
1 AT
25400428 CATGTATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 13 0.62
22 3 0.14
23 5 0.24
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTTATATATCATTTTCAT
Found at i:25402672 original size:11 final size:9
Alignment explanation
Indices: 25402638--25402670 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
25402628 CTCTTTTTTG
25402638 TTTTTTAAA
1 TTTTTTAAA
25402647 -TTTTTAAA
1 TTTTTTAAA
25402655 TTTTTTATAA
1 TTTTTTA-AA
25402665 TTTTTT
1 TTTTTT
25402671 TAGTCTCGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 6 0.27
10 8 0.36
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:25413290 original size:24 final size:24
Alignment explanation
Indices: 25413263--25413312 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
25413253 GCTTTATCAA
25413263 TTGTTTTTATAT-TTGT-TTAGTGCT
1 TTGTTTTTAT-TCTTGTCTT-GTGCT
25413287 TTGTTTTTATTCTTGTCTTGTGCT
1 TTGTTTTTATTCTTGTCTTGTGCT
25413311 TT
1 TT
25413313 ATGTTGGGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 1 0.04
24 21 0.88
25 2 0.08
ACGTcount: A:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (24 bp):
TTGTTTTTATTCTTGTCTTGTGCT
Found at i:25419176 original size:14 final size:14
Alignment explanation
Indices: 25419157--25419183 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25419147 ATAAAGTTAG
25419157 TTTAGGGTTTAGGA
1 TTTAGGGTTTAGGA
25419171 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
25419184 TAAATGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTAGGA
Found at i:25426256 original size:1 final size:1
Alignment explanation
Indices: 25426250--25426285 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
25426240 TCTTAAGATT
25426250 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25426286 CCTCAACAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:25429352 original size:10 final size:10
Alignment explanation
Indices: 25429337--25429382 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
25429327 TAATATAAAT
*
25429337 ATAAATTTAA
1 ATAAATATAA
25429347 ATAAATAT-A
1 ATAAATATAA
*
25429356 ATATATATAA
1 ATAAATATAA
25429366 ATAACAT-TAA
1 ATAA-ATATAA
25429376 ATAAATA
1 ATAAATA
25429383 ATTAAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAAATATAA
Done.