Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold101
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: 827217
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.34
Warning! 25308 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:160903 original size:21 final size:21
Alignment explanation
Indices: 160877--160946 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 21
160867 CTTTAAAAGG
160877 ATGCCACGAAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
*
160898 ATGCCACGGAGTTGTGGACTT
1 ATGCCACGAAGTTGTGGACTT
160919 AAAAGGGTGCCACGAAGTTGTGGACTT
1 ---A---TGCCACGAAGTTGTGGACTT
160946 A
1 A
160947 AAATGGTGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 20 0.49
24 2 0.05
27 19 0.46
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (21 bp):
ATGCCACGAAGTTGTGGACTT
Found at i:162365 original size:10 final size:10
Alignment explanation
Indices: 162350--162377 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
162340 GTGAAAAGGT
162350 TTTTTTTTTG
1 TTTTTTTTTG
162360 TTTTTTTTTG
1 TTTTTTTTTG
162370 TTTTTTTT
1 TTTTTTTT
162378 AGGATTGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:167836 original size:21 final size:22
Alignment explanation
Indices: 167791--167844 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
167781 TGGACATGTT
167791 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
167813 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
167834 AAAAATGCATG
1 AAAAATGCATG
167845 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:168806 original size:20 final size:20
Alignment explanation
Indices: 168759--168833 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
168749 AAAAAGACAT
*
168759 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
168778 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
168799 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
168819 AATGTATCGATACAT
1 AATGTATCGATACAT
168834 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:168827 original size:40 final size:39
Alignment explanation
Indices: 168756--168833 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
168746 GGTAAAAAGA
* *
168756 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
168795 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
168834 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:169272 original size:65 final size:65
Alignment explanation
Indices: 169199--169321 Score: 246
Period size: 65 Copynumber: 1.9 Consensus size: 65
169189 TATATGTATT
169199 ATTATTTTTTAAATCTAATTATAAATATTAATATAAAAATAATTTTTATTTTTAAATAATAACAA
1 ATTATTTTTTAAATCTAATTATAAATATTAATATAAAAATAATTTTTATTTTTAAATAATAACAA
169264 ATTATTTTTTAAATCTAATTATAAATATTAATATAAAAATAATTTTTATTTTTAAATA
1 ATTATTTTTTAAATCTAATTATAAATATTAATATAAAAATAATTTTTATTTTTAAATA
169322 TTATTTTAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (65 bp):
ATTATTTTTTAAATCTAATTATAAATATTAATATAAAAATAATTTTTATTTTTAAATAATAACAA
Found at i:169289 original size:24 final size:24
Alignment explanation
Indices: 169199--169289 Score: 63
Period size: 24 Copynumber: 4.1 Consensus size: 24
169189 TATATGTATT
169199 ATTATTTTTTAAATCTAATTATAA
1 ATTATTTTTTAAATCTAATTATAA
* * **
169223 A-TATTAATATAAAAATAATT-T--
1 ATTATT-TTTTAAATCTAATTATAA
* *
169244 -TTA-TTTTTAAA--TAATAACAA
1 ATTATTTTTTAAATCTAATTATAA
169264 ATTATTTTTTAAATCTAATTATAA
1 ATTATTTTTTAAATCTAATTATAA
169288 AT
1 AT
169290 ATTAATATAA
Statistics
Matches: 48, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
17 4 0.08
19 5 0.10
20 1 0.02
21 5 0.10
22 8 0.17
23 5 0.10
24 20 0.42
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTATTTTTTAAATCTAATTATAA
Found at i:170938 original size:18 final size:17
Alignment explanation
Indices: 170917--170960 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
170907 ATTACACAAA
170917 AATATTAATTAAAAAAAT
1 AATATTAA-TAAAAAAAT
*
170935 AATA-TAATATAAAAAT
1 AATATTAATAAAAAAAT
*
170951 AATATAAATA
1 AATATTAATA
170961 TGAATGTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.52
17 7 0.30
18 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATTAATAAAAAAAT
Found at i:171587 original size:11 final size:11
Alignment explanation
Indices: 171571--171616 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
171561 TTAATGGTTT
*
171571 TAAATATTATA
1 TAAATATAATA
171582 TAAATATAATA
1 TAAATATAATA
171593 -AAA-ATAAT-
1 TAAATATAATA
171601 TAAAATATAATA
1 T-AAATATAATA
171613 TAAA
1 TAAA
171617 ATATGATATG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 5 0.17
10 6 0.20
11 18 0.60
12 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAATATAATA
Found at i:171637 original size:40 final size:40
Alignment explanation
Indices: 171592--171667 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
171582 TAAATATAAT
*
171592 AAAAATAA-TTAAAATATAATATAAA-ATATGATATGTTACA
1 AAAAATAACATAAAA-ATAATATAAATATATGA-ATGTTACA
*
171632 AAAAATAACATGAAAATAATATAAATATATGAATGT
1 AAAAATAACATAAAAATAATATAAATATATGAATGT
171668 ATTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 22 0.69
41 10 0.31
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (40 bp):
AAAAATAACATAAAAATAATATAAATATATGAATGTTACA
Found at i:172389 original size:18 final size:18
Alignment explanation
Indices: 172362--172401 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
172352 TATGTAAATG
172362 AATTTAAAATCAAAATTA
1 AATTTAAAATCAAAATTA
* * *
172380 AATTTGAAATTAAAATTG
1 AATTTAAAATCAAAATTA
172398 AATT
1 AATT
172402 ATTATAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTTAAAATCAAAATTA
Found at i:173101 original size:15 final size:14
Alignment explanation
Indices: 173081--173110 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
173071 AGAAACAGAT
173081 ATAAAAATAATATAA
1 ATAAAAATAAT-TAA
173096 ATAAAAATAATTAA
1 ATAAAAATAATTAA
173110 A
1 A
173111 ACACGTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAAAATAATTAA
Found at i:173232 original size:11 final size:11
Alignment explanation
Indices: 173218--173276 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
173208 TATTTTAATT
173218 ATATAAAAATA
1 ATATAAAAATA
* *
173229 ATATAAATATG
1 ATATAAAAATA
173240 ATATAAAAATTA
1 ATATAAAAA-TA
173252 AT-TAAAATATA
1 ATATAAAA-ATA
173263 ATATAAAAAATA
1 ATAT-AAAAATA
173275 AT
1 AT
173277 TATGATCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 26 0.65
12 10 0.25
13 4 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:173253 original size:23 final size:22
Alignment explanation
Indices: 173218--173278 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
173208 TATTTTAATT
*
173218 ATATAAAAATAA-TATAAATATG
1 ATATAAAAATAATTA-AAATATA
173240 ATATAAAAATTAATTAAAATATA
1 ATATAAAAA-TAATTAAAATATA
173263 ATATAAAAAATAATTA
1 ATAT-AAAAATAATTA
173279 TGATCCTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
22 9 0.26
23 19 0.54
24 7 0.20
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATAAAAATAATTAAAATATA
Found at i:173407 original size:13 final size:13
Alignment explanation
Indices: 173389--173457 Score: 66
Period size: 13 Copynumber: 5.1 Consensus size: 13
173379 ATACATAAAT
173389 TTTTATTTCTTTC
1 TTTTATTTCTTTC
*
173402 TTTTATTTTTTTC
1 TTTTATTTCTTTC
* *
173415 TTTCACTTTTTTTC
1 TTTTA-TTTCTTTC
*
173429 TTTATCTTTCCTTTC
1 TTT-TATTT-CTTTC
*
173444 TTTTCTTTCTTTC
1 TTTTATTTCTTTC
173457 T
1 T
173458 CTCCTCTCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
13 22 0.46
14 19 0.40
15 7 0.15
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTCTTTC
Found at i:173425 original size:20 final size:18
Alignment explanation
Indices: 173388--173456 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
173378 AATACATAAA
*
173388 TTTTTATTTCTTT-CTTT
1 TTTTTTTTTCTTTCCTTT
*
173405 TATTTTTTTCTTTCACTTT
1 TTTTTTTTTCTTTC-CTTT
*
173424 TTTTCTTTATCTTTCCTTT
1 TTTT-TTTTTCTTTCCTTT
* *
173443 CTTTTCTTTCTTTC
1 TTTTTTTTTCTTTC
173457 TCTCCTCTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
17 11 0.26
18 8 0.19
19 14 0.33
20 9 0.21
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTTTTCTTTCCTTT
Found at i:173787 original size:29 final size:28
Alignment explanation
Indices: 173753--173820 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
173743 TTTATTTACT
*
173753 TTTTAATATTTATTCATATTTAGGTTTGA
1 TTTTAATATTTATTAATATTTA-GTTTGA
* * * *
173782 TTTTAATTTTTTTTAATTTTTATTTTGA
1 TTTTAATATTTATTAATATTTAGTTTGA
*
173810 TTTTAAAATTT
1 TTTTAATATTT
173821 TTTTATGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.26, C:0.01, G:0.06, T:0.66
Consensus pattern (28 bp):
TTTTAATATTTATTAATATTTAGTTTGA
Found at i:174147 original size:33 final size:32
Alignment explanation
Indices: 174110--174191 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
174100 CATAATTATA
174110 TTTAAAAAAATTTATATTTATATAATATAAAAT
1 TTTAAAAAAATTTATATTTATATAATAT-AAAT
* * * *
174143 TTT-AATATATTAATAATTTATATTATATAAAT
1 TTTAAAAAAATTTAT-ATTTATATAATATAAAT
174175 TTTAAAAAAATTATATA
1 TTTAAAAAAATT-TATA
174192 CATATTTTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
32 15 0.38
33 22 0.56
34 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
TTTAAAAAAATTTATATTTATATAATATAAAT
Found at i:174150 original size:24 final size:23
Alignment explanation
Indices: 174115--174159 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
174105 TTATATTTAA
174115 AAAAATTTATAT-TTATATAATAT
1 AAAAATTTATATATTA-ATAATAT
*
174138 AAAATTTTAATATATTAATAAT
1 AAAAATTT-ATATATTAATAAT
174160 TTATATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 9 0.47
25 3 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AAAAATTTATATATTAATAATAT
Found at i:174169 original size:18 final size:17
Alignment explanation
Indices: 174125--174170 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
174115 AAAAATTTAT
*
174125 ATTTATATAATA-TAAA
1 ATTTATATTATATTAAA
*
174141 ATTT-TAATATATTAATA
1 ATTTATATTATATTAA-A
174158 ATTTATATTATAT
1 ATTTATATTATAT
174171 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 5 0.21
18 7 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTTATATTATATTAAA
Found at i:174426 original size:2 final size:2
Alignment explanation
Indices: 174421--174450 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
174411 AAAAAAATAC
*
174421 CT CT CT CT CC CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
174451 TAAAATTATT
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:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:185513 original size:1 final size:1
Alignment explanation
Indices: 185507--185531 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
185497 GCTTCAAATG
185507 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
185532 TTCTTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:189437 original size:18 final size:17
Alignment explanation
Indices: 189415--189476 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 17
189405 TTTAAATCGT
189415 TATTTAATTAATAAAAA
1 TATTTAATTAATAAAAA
189432 TTATTTAAATTTAATAATAAA
1 -TATTT-AA-TTAATAA-AAA
189453 TA-TTAA-T-ATAAAAA
1 TATTTAATTAATAAAAA
189467 TATTTAATTA
1 TATTTAATTA
189477 TTTTTAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
14 5 0.13
15 8 0.21
16 2 0.05
18 7 0.18
19 4 0.11
20 9 0.24
21 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTTAATTAATAAAAA
Found at i:189464 original size:24 final size:24
Alignment explanation
Indices: 189416--189464 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
189406 TTAAATCGTT
*
189416 ATTTAATTAATAAAAATTATTTAA
1 ATTTAATTAATAAAAATTATATAA
*
189440 ATTTAA-TAATAAATATTAATATAA
1 ATTTAATTAATAAAAATT-ATATAA
189464 A
1 A
189465 AATATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTTAATTAATAAAAATTATATAA
Found at i:194118 original size:22 final size:21
Alignment explanation
Indices: 194092--194133 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
194082 AATTAAAAAA
194092 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
194112 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
194133 A
1 A
194134 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:195061 original size:3 final size:3
Alignment explanation
Indices: 195049--195085 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
195039 TTCCTTTTTC
*
195049 CTT C-T CTT CTT CTT CTT CTT CTT CTT CTT CGT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
195086 CCATTTTCGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:196288 original size:2 final size:2
Alignment explanation
Indices: 196281--196317 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
196271 TTTTCTTCAT
196281 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
196318 GTTCTTACTG
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:197709 original size:21 final size:22
Alignment explanation
Indices: 197681--197739 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
197671 TAAAAATATC
197681 TAAA-ATATATTAAT-TAATAA
1 TAAATATATATTAATATAATAA
* *
197701 TAAATATATAATAATATATTAA
1 TAAATATATATTAATATAATAA
*
197723 -AAATTTATA-TAATATAA
1 TAAATATATATTAATATAA
197740 ATTATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 11 0.33
21 17 0.52
22 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATATATATTAATATAATAA
Found at i:197723 original size:19 final size:19
Alignment explanation
Indices: 197663--197738 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
197653 ATTAGTAAAA
* * *
197663 AAATAATATAAAAATATCTA
1 AAAT-ATATAATAATATATT
197683 AAATATATTAATTAATA-A-T
1 AAATATA-TAA-TAATATATT
197702 AAATATATAATAATATATT
1 AAATATATAATAATATATT
* *
197721 AAAAATTTATATAATATA
1 AAATATATA-ATAATATA
197739 AATTATTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
17 5 0.11
18 4 0.09
19 18 0.39
20 15 0.33
21 4 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATATATAATAATATATT
Found at i:197741 original size:15 final size:15
Alignment explanation
Indices: 197723--197782 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
197713 AATATATTAA
197723 AAATTTATATAATAT
1 AAATTTATATAATAT
*
197738 AAA-TTATTATATTA-
1 AAATTTA-TATAATAT
197752 AAATTTATATAAATAT
1 AAATTTATAT-AATAT
197768 AAAATTT-T-TAATAT
1 -AAATTTATATAATAT
197782 A
1 A
197783 TTATTATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 1 0.03
14 14 0.37
15 16 0.42
16 1 0.03
17 6 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTATATAATAT
Found at i:197780 original size:14 final size:16
Alignment explanation
Indices: 197722--197782 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 16
197712 TAATATATTA
197722 AAAATTTATATAATAT
1 AAAATTTATATAATAT
197738 -AAA-TTAT-T-ATATT
1 AAAATTTATATAATA-T
197751 AAAATTTATATAAATAT
1 AAAATTTATAT-AATAT
197768 AAAATTT-T-TAATAT
1 AAAATTTATATAATAT
197782 A
1 A
197783 TTATTATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.08
13 2 0.05
14 13 0.33
15 8 0.21
16 2 0.05
17 8 0.21
18 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATTTATATAATAT
Found at i:198130 original size:21 final size:21
Alignment explanation
Indices: 198090--198145 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 21
198080 CTTGGGAACG
198090 ATAATTTTAAAATGATAATAATAA
1 ATAA-TTT-AAATGATAAT-ATAA
198114 ATAATTTAAAT-ATAATATAA
1 ATAATTTAAATGATAATATAA
*
198134 ATATATTAAAAT
1 ATA-ATTTAAAT
198146 TTATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 7 0.23
21 12 0.40
22 4 0.13
23 3 0.10
24 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAATTTAAATGATAATATAA
Found at i:199063 original size:20 final size:20
Alignment explanation
Indices: 199022--199059 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
199012 AGATATATTA
*
199022 TTAAAATAATAATATTATAT
1 TTAAAATAATAATATGATAT
*
199042 TTAATATAATAAT-TGATA
1 TTAAAATAATAATATGATA
199060 ATTTTAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (20 bp):
TTAAAATAATAATATGATAT
Found at i:201285 original size:14 final size:16
Alignment explanation
Indices: 201254--201285 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
201244 TTATATTTAA
201254 TTTAAGTTTAATTCAT
1 TTTAAGTTTAATTCAT
201270 TTTAAG-TTAA-TCAT
1 TTTAAGTTTAATTCAT
201284 TT
1 TT
201286 GTGTTCGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAGTTTAATTCAT
Found at i:201568 original size:11 final size:11
Alignment explanation
Indices: 201552--201589 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
201542 GATACATTTA
201552 TATATTTATGT
1 TATATTTATGT
201563 TATATTTATGT
1 TATATTTATGT
* *
201574 AATTTTTATGT
1 TATATTTATGT
201585 TATAT
1 TATAT
201590 CATATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (11 bp):
TATATTTATGT
Found at i:203976 original size:2 final size:2
Alignment explanation
Indices: 203969--204016 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
203959 TCATTCATGC
203969 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
204011 AT AT AT
1 AT AT AT
204017 GTTTACTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:204925 original size:2 final size:2
Alignment explanation
Indices: 204918--204945 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
204908 TGGTATTTAT
204918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
204946 GACACTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:205090 original size:15 final size:15
Alignment explanation
Indices: 205069--205106 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
205059 CAAATAAATA
205069 ATATTAAAAAAATGTT
1 ATATTAAAAAAAT-TT
*
205085 -TATTAATAAAATTT
1 ATATTAAAAAAATTT
205099 ATATTAAA
1 ATATTAAA
205107 GTTTATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATATTAAAAAAATTT
Found at i:205203 original size:20 final size:20
Alignment explanation
Indices: 205166--205205 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
205156 TATAAGTTTT
205166 AATTTTTAATTTATTAAATA
1 AATTTTTAATTTATTAAATA
* *
205186 AATTATTTATTTTATAAAAT
1 AATT-TTTAATTTATTAAAT
205206 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAATTTATTAAATA
Found at i:205587 original size:20 final size:21
Alignment explanation
Indices: 205508--205599 Score: 90
Period size: 18 Copynumber: 4.6 Consensus size: 21
205498 TATATTTTAC
205508 ATAAA-TATATTTA-AT-TTT
1 ATAAATTATATTTATATATTT
*
205526 ATAAA-AATATTTCATATATTT
1 ATAAATTATATTT-ATATATTT
205547 ATAAAATTATATTTA-AT-TTT
1 AT-AAATTATATTTATATATTT
*
205567 ATAAATT-TTTTTATATATTT
1 ATAAATTATATTTATATATTT
205587 ATAAAATTATATT
1 AT-AAATTATATT
205600 CTCATATTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
18 16 0.26
19 8 0.13
20 12 0.20
21 12 0.20
22 7 0.11
23 6 0.10
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
ATAAATTATATTTATATATTT
Found at i:205594 original size:40 final size:40
Alignment explanation
Indices: 205496--205625 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
205486 TAAATATAAA
* * *
205496 TATATATTT-TACATAAATATATTTAATTTTATAAAAATATTT
1 TATATATTTATA-A-AATTATATTTAATTTTAT-AAATTTTTT
*
205538 CATATATTTATAAAATTATATTTAATTTTATAAATTTTTT
1 TATATATTTATAAAATTATATTTAATTTTATAAATTTTTT
* * **
205578 TATATATTTATAAAATTATATTCTCATATT-TAAATTTGAT
1 TATATATTTATAAAATTATATT-TAATTTTATAAATTTTTT
205618 TATATATT
1 TATATATT
205626 AAAATATAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
40 44 0.57
41 22 0.29
42 9 0.12
43 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.55
Consensus pattern (40 bp):
TATATATTTATAAAATTATATTTAATTTTATAAATTTTTT
Found at i:205640 original size:14 final size:14
Alignment explanation
Indices: 205621--205657 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
205611 ATTTGATTAT
205621 ATATTAAAATATAA
1 ATATTAAAATATAA
205635 ATATT-AAATATAA
1 ATATTAAAATATAA
205648 ATACTTAAAA
1 ATA-TTAAAA
205658 AATATTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.52
14 7 0.33
15 3 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATTAAAATATAA
Found at i:209847 original size:32 final size:36
Alignment explanation
Indices: 209797--209870 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 36
209787 TATTTTAAAA
*
209797 AATTATATATTTATATAAA-TTTAA-ATATATTA-AT
1 AATTATATATTTAAATAAATTTTAACATAT-TTATAT
209831 AATT-TAT-TTTAAATAAATTTTAACATATTTATAT
1 AATTATATATTTAAATAAATTTTAACATATTTATAT
209865 AATTAT
1 AATTAT
209871 GTTATATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
32 9 0.26
33 11 0.31
34 14 0.40
35 1 0.03
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (36 bp):
AATTATATATTTAAATAAATTTTAACATATTTATAT
Found at i:210349 original size:26 final size:28
Alignment explanation
Indices: 210319--210371 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
210309 TATTAAAAAA
210319 TATTTTTGATTCATA-T-TTATTTATTT
1 TATTTTTGATTCATATTATTATTTATTT
*
210345 TATTTTTGATTTATATTATTATTTATT
1 TATTTTTGATTCATATTATTATTTATT
210372 AATAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 1 0.04
28 9 0.38
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (28 bp):
TATTTTTGATTCATATTATTATTTATTT
Found at i:210691 original size:18 final size:18
Alignment explanation
Indices: 210668--210706 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
210658 AATACGTAGA
*
210668 TTAAAATTTTATTTACTT
1 TTAAAATTATATTTACTT
*
210686 TTAAAATTATATTTATTT
1 TTAAAATTATATTTACTT
210704 TTA
1 TTA
210707 TATTATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAAAATTATATTTACTT
Found at i:211468 original size:15 final size:15
Alignment explanation
Indices: 211450--211483 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
211440 AATAAAAAGA
*
211450 TAAATATTAAATTAT
1 TAAAGATTAAATTAT
*
211465 TAAAGATTAAATTTT
1 TAAAGATTAAATTAT
211480 TAAA
1 TAAA
211484 AAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TAAAGATTAAATTAT
Found at i:212587 original size:16 final size:17
Alignment explanation
Indices: 212566--212604 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
212556 TTTTAAGTAA
212566 AATATAAATATAAAAT-
1 AATATAAATATAAAATG
*
212582 AATATAAATATAACATG
1 AATATAAATATAAAATG
212599 AATATA
1 AATATA
212605 TAAACTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
AATATAAATATAAAATG
Found at i:216170 original size:15 final size:16
Alignment explanation
Indices: 216145--216190 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
216135 TTTTTTGATA
*
216145 TAAATATATTTAAATT
1 TAAATAAATTTAAATT
216161 T-AATAAATTT-AATT
1 TAAATAAATTTAAATT
216175 TAAAGTAAA-TTAAATT
1 TAAA-TAAATTTAAATT
216191 ATTAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 12 0.46
16 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TAAATAAATTTAAATT
Found at i:218127 original size:4 final size:4
Alignment explanation
Indices: 218118--218147 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
218108 TTGTGACTAG
218118 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
218148 GAAATGTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:218563 original size:2 final size:2
Alignment explanation
Indices: 218556--218595 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
218546 TAATTTTTGA
218556 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
218596 CAAAATTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:219004 original size:23 final size:26
Alignment explanation
Indices: 218969--219020 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
218959 TAAGTTGATT
*
218969 AAAAGATTAATTT-TA-ATTATTTAA
1 AAAAAATTAATTTATATATTATTTAA
218993 AAAAAATT-ATTTATATTATTATTTAA
1 AAAAAATTAATTTATA-TATTATTTAA
219019 AA
1 AA
219021 TTTATTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 9 0.38
26 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AAAAAATTAATTTATATATTATTTAA
Found at i:219107 original size:23 final size:23
Alignment explanation
Indices: 219067--219120 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
219057 ATAAATTGTT
*
219067 ATATAATTTTAATTTATTATGTA
1 ATATAATTTTAATTTATTATATA
*
219090 ATAT-ATTTTATTTATATTATATA
1 ATATAATTTTAATT-TATTATATA
*
219113 ATAAAATT
1 ATATAATT
219121 AAGATCAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 8 0.31
23 15 0.58
24 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATAATTTTAATTTATTATATA
Found at i:219111 original size:18 final size:20
Alignment explanation
Indices: 219065--219112 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
219055 ATATAAATTG
219065 TTATATAATTTTAATTTATTA
1 TTATAT-ATTTTAATTTATTA
219086 TGTAATATATTTT-ATTTA-TA
1 T-T-ATATATTTTAATTTATTA
219106 TTATATA
1 TTATATA
219113 ATAAAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.20
19 1 0.04
20 3 0.12
21 6 0.24
22 6 0.24
23 4 0.16
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTATATATTTTAATTTATTA
Found at i:219319 original size:22 final size:22
Alignment explanation
Indices: 219294--219336 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
219284 GTTAAGTTAT
219294 TTTAAATT-TTTAAATTTTTAAG
1 TTTAAATTATTT-AATTTTTAAG
* *
219316 TTTAGATTATTTTATTTTTAA
1 TTTAAATTATTTAATTTTTAA
219337 ATTAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTAAATTATTTAATTTTTAAG
Found at i:219414 original size:20 final size:16
Alignment explanation
Indices: 219285--219397 Score: 70
Period size: 16 Copynumber: 6.8 Consensus size: 16
219275 TTAATTCGAG
*
219285 TTAAGTTATTTTAAATTT
1 TTAAATTATTTTAAA--T
*
219303 TTAAA-T-TTTTAAGT
1 TTAAATTATTTTAAAT
* **
219317 TTAGATTATTTTATTT
1 TTAAATTATTTTAAAT
*
219333 TTAAATTA-ATTAAAT
1 TTAAATTATTTTAAAT
* *
219348 TTGATATTTAAATTAATAAAT
1 TT-A-AATT--ATT-TTAAAT
219369 TTAAATTATTTTAAAT
1 TTAAATTATTTTAAAT
219385 TTAAATTATTTTA
1 TTAAATTATTTTA
219398 GTTAATTTTA
Statistics
Matches: 73, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
14 5 0.07
15 7 0.10
16 38 0.52
17 7 0.10
18 4 0.05
19 4 0.05
20 1 0.01
21 7 0.10
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (16 bp):
TTAAATTATTTTAAAT
Found at i:225714 original size:20 final size:22
Alignment explanation
Indices: 225689--225731 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
225679 TATAATATTA
225689 ATATATAAT-T-ATTTTAAAAT
1 ATATATAATATAATTTTAAAAT
*
225709 ATATATAATATAATTTTATAAT
1 ATATATAATATAATTTTAAAAT
225731 A
1 A
225732 AATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATATAATATAATTTTAAAAT
Found at i:225729 original size:33 final size:32
Alignment explanation
Indices: 225649--225747 Score: 80
Period size: 33 Copynumber: 3.1 Consensus size: 32
225639 TTATCTTATT
* * *
225649 TATAAGATTACATATATAA-AAA--AATATAAA
1 TATAATATTA-ATATATAATAAATTAAAATATA
**
225679 TATAATATTAATATATAATTATTTTAAAATATA
1 TATAATATTAATATATAA-TAAATTAAAATATA
* *
225712 TATAATA-TAATTTTATAATAAATTAAAATTTA
1 TATAATATTAA-TATATAATAAATTAAAATATA
225744 TATA
1 TATA
225748 TAAAATATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
29 8 0.15
30 9 0.16
31 1 0.02
32 18 0.33
33 19 0.35
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (32 bp):
TATAATATTAATATATAATAAATTAAAATATA
Found at i:228079 original size:21 final size:20
Alignment explanation
Indices: 228041--228080 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
228031 TCAAAATAAA
* *
228041 AATTTATTTAAATTTAATTC
1 AATTTATTCAAATCTAATTC
228061 AATTTCATTCAAATCTAATT
1 AATTT-ATTCAAATCTAATT
228081 GAATAGATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTATTCAAATCTAATTC
Found at i:228250 original size:24 final size:24
Alignment explanation
Indices: 228191--228251 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
228181 GAATTAAATT
228191 AAATTAATT-TAAATTATTATTTA
1 AAATTAATTATAAATTATTATTTA
**
228214 ATAA-TAAAAATAATATT-TTATTTA
1 A-AATTAATTATAA-ATTATTATTTA
228238 AAATTAATTATAAA
1 AAATTAATTATAAA
228252 ATATAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
23 7 0.23
24 20 0.67
25 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATTAATTATAAATTATTATTTA
Found at i:228285 original size:8 final size:8
Alignment explanation
Indices: 228246--228301 Score: 52
Period size: 7 Copynumber: 7.8 Consensus size: 8
228236 TAAAATTAAT
228246 TATAA-AA
1 TATAATAA
228253 TATAA-AA
1 TATAATAA
*
228260 -ATATTAA
1 TATAATAA
228267 TATAA-AA
1 TATAATAA
*
228274 -ATAATAT
1 TATAATAA
228281 TATAATAA
1 TATAATAA
228289 TATAATAA
1 TATAATAA
228297 -ATAAT
1 TATAAT
228302 GAAATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 7 0.17
7 17 0.41
8 17 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TATAATAA
Found at i:229195 original size:19 final size:21
Alignment explanation
Indices: 229163--229201 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
229153 AATAAATTAA
*
229163 AAAATATATATTATTATATTT
1 AAAATATATATTATAATATTT
229184 AAAATAT-T-TTATAATATT
1 AAAATATATATTATAATATT
229202 AATATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAAATATATATTATAATATTT
Found at i:229236 original size:12 final size:12
Alignment explanation
Indices: 229219--229259 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
229209 TTTATTTAAA
229219 TATATTATATTT
1 TATATTATATTT
229231 TATATTATATTT
1 TATATTATATTT
229243 TA-ATTATATTTT
1 TATATTATA-TTT
229255 TATAT
1 TATAT
229260 CGTATCGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 6 0.22
12 19 0.70
13 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTATATTT
Found at i:229253 original size:38 final size:34
Alignment explanation
Indices: 229167--229253 Score: 97
Period size: 33 Copynumber: 2.5 Consensus size: 34
229157 AATTAAAAAA
229167 TATATATTATTATATTTAAAATATTTTATAATAT
1 TATATATTATTATATTTAAAATATTTTATAATAT
* *
229201 TA-ATATTATT-TATTTAAATATATTATATTTTATAT
1 TATATATTATTATATTTAAA-ATATT-T-TATAATAT
*
229236 TATATTTTAATTATATTT
1 TATATATT-ATTATATTT
229254 TTATATCGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.18
33 13 0.30
34 3 0.07
35 8 0.18
36 4 0.09
37 3 0.07
38 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATATATTATTATATTTAAAATATTTTATAATAT
Found at i:229436 original size:6 final size:6
Alignment explanation
Indices: 229425--229566 Score: 62
Period size: 6 Copynumber: 22.8 Consensus size: 6
229415 TGGTTCAACT
* *
229425 TTTATA TTTATA -TTATT TTTAT- TTTATA ATTATA TTTTAAATA TTATATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA -TTT--ATA TT-TATA
** * **
229475 TTTATA TAAATT TTTATA TATTAATAA TTTATA -TTATA TAAAT- TTTAAATA
1 TTTATA TTTATA TTTATA T-TT-AT-A TTTATA TTTATA TTTATA TTT--ATA
* *
229526 TTTATA TTTTTA TATTATA TTTAT- TCATATA TTTAT- TTTAT
1 TTTATA TTTATA T-TTATA TTTATA T-TTATA TTTATA TTTAT
229567 GTACAAAATT
Statistics
Matches: 103, Mismatches: 17, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
5 21 0.20
6 48 0.47
7 19 0.18
8 9 0.09
9 6 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTATA
Found at i:229445 original size:11 final size:11
Alignment explanation
Indices: 229426--229549 Score: 52
Period size: 11 Copynumber: 11.9 Consensus size: 11
229416 GGTTCAACTT
229426 TTATATTTATA
1 TTATATTTATA
* *
229437 TTATTTTTATT
1 TTATATTTATA
*
229448 TTATAATTATA
1 TTATATTTATA
* **
229459 TTTTAAATAT-
1 TTATATTTATA
229469 TATATATTTATA
1 T-TATATTTATA
* *
229481 -TAAATTTTTA
1 TTATATTTATA
*
229491 -TATATTAATAA
1 TTATATTTAT-A
229502 TT-TATATTATA
1 TTATAT-TTATA
*
229513 -TAAATTT-TA
1 TTATATTTATA
*
229522 -AATATTTATA
1 TTATATTTATA
229532 -T-T-TTTATA
1 TTATATTTATA
229540 TTATATTTAT
1 TTATATTTAT
229550 TCATATATTT
Statistics
Matches: 83, Mismatches: 20, Indels: 20
0.67 0.16 0.16
Matches are distributed among these distances:
8 6 0.07
9 9 0.11
10 21 0.25
11 43 0.52
12 4 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATATTTATA
Found at i:229496 original size:27 final size:27
Alignment explanation
Indices: 229459--229540 Score: 85
Period size: 27 Copynumber: 2.9 Consensus size: 27
229449 TATAATTATA
229459 TTTTAAATATTATATATTTATATAAAT
1 TTTTAAATATTATATATTTATATAAAT
*
229486 TTTTATATATTAATAATTTATATTATATAAA-
1 TTTTAAATATT-AT-A--TAT-TTATATAAAT
*
229517 TTTTAAATATTTATATTTTTATAT
1 TTTTAAATA-TTATATATTTATAT
229541 TATATTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
27 16 0.35
28 4 0.09
29 1 0.02
30 1 0.02
31 13 0.28
32 11 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTAAATATTATATATTTATATAAAT
Found at i:229513 original size:32 final size:32
Alignment explanation
Indices: 229454--229545 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 32
229444 TATTTTATAA
*
229454 TTATATTTTAA-ATATTATATATTTATATAAATTT
1 TTATATATTAATATATT-TATA-TTATATAAA-TT
229488 TTATATATTAATA-ATTTATATTATATAAATT
1 TTATATATTAATATATTTATATTATATAAATT
* * *
229519 TTAAATATTTATATTTTTATATTATAT
1 TTATATATTAATATATTTATATTATAT
229546 TTATTCATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
31 13 0.25
32 21 0.40
33 4 0.08
34 13 0.25
35 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTATATATTAATATATTTATATTATATAAATT
Found at i:229857 original size:21 final size:21
Alignment explanation
Indices: 229832--229894 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
229822 TATATTATAT
229832 AAATATAATATAAAATAATTA
1 AAATATAATATAAAATAATTA
*
229853 AAATATTATATAAAATAA--A
1 AAATATAATATAAAATAATTA
229872 AAATA-AA-AT-AAATATATTA
1 AAATATAATATAAAATA-ATTA
229891 AAAT
1 AAAT
229895 TTATATGATG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 5 0.14
17 3 0.08
18 1 0.03
19 11 0.30
21 17 0.46
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATATAATATAAAATAATTA
Found at i:230307 original size:21 final size:21
Alignment explanation
Indices: 230290--230356 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
230280 TATTTAATTT
230290 AAATTATTATTTAATTAATAA
1 AAATTATTATTTAATTAATAA
*
230311 AAATTATTTAAAATTAATT-ATAA
1 AAATTA-TT--ATTTAATTAATAA
*
230334 AAA-TATATATTTAAATAATAA
1 AAATTAT-TATTTAATTAATAA
230355 AA
1 AA
230357 TAAACTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
20 6 0.16
21 13 0.34
22 5 0.13
23 7 0.18
24 7 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTATTATTTAATTAATAA
Found at i:230336 original size:24 final size:26
Alignment explanation
Indices: 230300--230348 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
230290 AAATTATTAT
230300 TTAATTAATAAAA-AT-TATTTAAAA
1 TTAATTAATAAAATATATATTTAAAA
230324 TTAATT-ATAAAAATATATATTTAAA
1 TTAATTAAT-AAAATATATATTTAAA
230349 TAATAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 2 0.09
24 10 0.45
25 2 0.09
26 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAATTAATAAAATATATATTTAAAA
Found at i:230747 original size:6 final size:6
Alignment explanation
Indices: 230738--230766 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
230728 AGGCTATATA
230738 TATAAT TATAAT TATAAT TATAAT TATAA
1 TATAAT TATAAT TATAAT TATAAT TATAA
230767 AATGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TATAAT
Found at i:230973 original size:14 final size:14
Alignment explanation
Indices: 230951--230980 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
230941 TATTGTATAT
*
230951 ATTATTTTTTTTAA
1 ATTAATTTTTTTAA
230965 ATTAATTTTTTTAA
1 ATTAATTTTTTTAA
230979 AT
1 AT
230981 GTAACTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTAATTTTTTTAA
Found at i:231357 original size:23 final size:22
Alignment explanation
Indices: 231326--231374 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
231316 TTTGTTGCCT
*
231326 ATTTTATAATATAT-TTTAATTTA
1 ATTTGATAATATATATTT--TTTA
231349 ATTTGATAATATATATTTTTTA
1 ATTTGATAATATATATTTTTTA
231371 ATTT
1 ATTT
231375 AGAGTAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 13 0.54
24 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTGATAATATATATTTTTTA
Found at i:231583 original size:20 final size:19
Alignment explanation
Indices: 231524--231585 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
231514 ATTATATAAA
*
231524 TTTTA-AAACATTTATATAT
1 TTTTATAAA-ATTTACATAT
*
231543 TTTTATAATATTTACATTAT
1 TTTTATAAAATTTACA-TAT
231563 TTTT-TAAAATTATATCATAT
1 TTTTATAAAATT-TA-CATAT
231583 TTT
1 TTT
231586 AATTATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
19 17 0.47
20 17 0.47
21 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAAAATTTACATAT
Found at i:232011 original size:24 final size:23
Alignment explanation
Indices: 231948--232004 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
231938 TATATTAAAA
* *
231948 ATTTAAATTAAATATAATAAATTT
1 ATTTAAATT-AATATAAAAAATAT
* *
231972 ATTAAAATATCATATAAAAAATAT
1 ATTTAAAT-TAATATAAAAAATAT
231996 ATTTAAATT
1 ATTTAAATT
232005 TAGTATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
23 1 0.04
24 25 0.93
25 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTAAATTAATATAAAAAATAT
Found at i:232025 original size:14 final size:14
Alignment explanation
Indices: 232002--232041 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
231992 ATATATTTAA
*
232002 ATTTAGTATATTAT
1 ATTTATTATATTAT
232016 ATTTATTATATTAT
1 ATTTATTATATTAT
*
232030 TTTTATT-TATTA
1 ATTTATTATATTA
232042 AATATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
ATTTATTATATTAT
Found at i:232271 original size:2 final size:2
Alignment explanation
Indices: 232264--232293 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
232254 AAGAGAAGAA
232264 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
232294 TAATTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:232604 original size:17 final size:16
Alignment explanation
Indices: 232573--232608 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
232563 AATTTAAAAA
*
232573 ATAATTAAAATATAAT
1 ATAATTAAAAAATAAT
232589 ATAATATAAAAAATAAT
1 ATAAT-TAAAAAATAAT
232606 ATA
1 ATA
232609 TATGACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATTAAAAAATAAT
Found at i:232687 original size:20 final size:20
Alignment explanation
Indices: 232654--232693 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
232644 GAATTATTAT
*
232654 TTTATAATTATTTATATAAA
1 TTTATAATTATTTAAATAAA
232674 TTTATAA-TATTTTAAATAAA
1 TTTATAATTA-TTTAAATAAA
232694 ATAATGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATAATTATTTAAATAAA
Found at i:232812 original size:21 final size:21
Alignment explanation
Indices: 232768--232812 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
232758 CTTCCTTTTT
*
232768 TTTTTCATTTCCTTTTATTGC
1 TTTTTCATTTCCTTTTATTCC
* * *
232789 TTTTTCTTTTTCTTTTCTTCC
1 TTTTTCATTTCCTTTTATTCC
232810 TTT
1 TTT
232813 CCTTCTTCGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTCATTTCCTTTTATTCC
Found at i:233017 original size:18 final size:18
Alignment explanation
Indices: 232994--233050 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
232984 TTTATAATAA
232994 AATTTAAATAAAAATATT
1 AATTTAAATAAAAATATT
* *
233012 AATTTATATATAAAATAAT
1 AATTTAAATA-AAAATATT
233031 AATTTAAATTAAAAA-ATT
1 AATTTAAA-TAAAAATATT
233049 AA
1 AA
233051 AAATTTAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 13 0.39
19 18 0.55
20 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTAAATAAAAATATT
Found at i:233028 original size:19 final size:19
Alignment explanation
Indices: 232994--233050 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 19
232984 TTTATAATAA
232994 AATTTAAATA-AAAATATT
1 AATTTAAATATAAAATATT
* *
233012 AATTTATATATAAAATAAT
1 AATTTAAATATAAAATATT
*
233031 AATTTAAAT-TAAAAAATT
1 AATTTAAATATAAAATATT
233049 AA
1 AA
233051 AAATTTAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAAATATAAAATATT
Found at i:233056 original size:21 final size:21
Alignment explanation
Indices: 233023--233064 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
233013 ATTTATATAT
*
233023 AAAATAATAATTTAAA-TTAA
1 AAAATAAAAATTTAAACTTAA
233043 AAAATTAAAAATTTAAACTTAA
1 AAAA-TAAAAATTTAAACTTAA
233065 CTCAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATAAAAATTTAAACTTAA
Found at i:233319 original size:29 final size:27
Alignment explanation
Indices: 233287--233341 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
233277 ATATTTAAAA
233287 TAATTTA-ATTTTTTATTTAAATTATTTTT
1 TAATTTATA-TTTTTA-TTAAATT-TTTTT
233316 TAATTTATATTTTTATTAAATTTTTT
1 TAATTTATATTTTTATTAAATTTTTT
233342 AAAAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 4 0.16
28 7 0.28
29 13 0.52
30 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (27 bp):
TAATTTATATTTTTATTAAATTTTTTT
Found at i:233572 original size:30 final size:30
Alignment explanation
Indices: 233538--233595 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
233528 ATGGTAACAA
*
233538 AATTAATTAAAATTATTAAATTTAAAATTT
1 AATTAATTAAAATAATTAAATTTAAAATTT
* **
233568 AATTAATTAATATAATTATTTTTAAAAT
1 AATTAATTAAAATAATTAAATTTAAAAT
233596 AAATATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
AATTAATTAAAATAATTAAATTTAAAATTT
Found at i:233829 original size:20 final size:20
Alignment explanation
Indices: 233774--233829 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
233764 GAGAAAGATC
*
233774 AATTTATAGTTAATTTTATAT
1 AATTTATA-TTATTTTTATAT
* *
233795 ATTTTCATAAT-TTTTTATAT
1 AATTT-ATATTATTTTTATAT
233815 AATTTATATTATTTT
1 AATTTATATTATTTT
233830 AATTTAATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 5 0.18
22 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
AATTTATATTATTTTTATAT
Found at i:233934 original size:28 final size:28
Alignment explanation
Indices: 233855--233935 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
233845 TTTTATATTT
*
233855 TATTT-ATTTTTAAATA-A-ATTAAAAA
1 TATTTAATTATTAAATATATATTAAAAA
* * *
233880 TATTTAATTATT-TATTTATTATAAAAAA
1 TATTTAATTATTAAATATA-TATTAAAAA
*
233908 TTTTTAATTATTAAATATATATTAAAAA
1 TATTTAATTATTAAATATATATTAAAAA
233936 ATTATTATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
25 7 0.16
26 6 0.14
28 26 0.60
29 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TATTTAATTATTAAATATATATTAAAAA
Found at i:233949 original size:28 final size:27
Alignment explanation
Indices: 233857--233949 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 27
233847 TTATATTTTA
233857 TTTATTTTTAAATA-A-ATTAAAAATAT
1 TTTATTTTTAAATATATATTAAAAA-AT
* **
233883 TTAATTATTTATTTAT-TA-TAAAAAATT
1 TTTATT-TTTAAATATATATTAAAAAA-T
*
233910 TTTAATTATTAAATATATATTAAAAAAT
1 TTT-ATTTTTAAATATATATTAAAAAAT
233938 TATTATTTTTAA
1 T-TTATTTTTAA
233950 TTTATATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
26 6 0.12
27 21 0.41
28 15 0.29
29 9 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTATTTTTAAATATATATTAAAAAAT
Found at i:234044 original size:22 final size:21
Alignment explanation
Indices: 234001--234048 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 21
233991 TATAATAAAT
234001 ATAATTATATTATTAAATTTA
1 ATAATTATATTATTAAATTTA
234022 ATAATT-TATTATTAAAATATTA
1 ATAATTATATTATT-AAAT-TTA
234044 ATAAT
1 ATAAT
234049 ATAAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAATTATATTATTAAATTTA
Found at i:234066 original size:17 final size:15
Alignment explanation
Indices: 234034--234078 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 15
234024 AATTTATTAT
234034 TAAAATATTAATAATA
1 TAAAA-ATTAATAATA
234050 TAAAAATTATATAAATA
1 TAAAAATTA-AT-AATA
234067 TATAAAATTAAT
1 TA-AAAATTAAT
234079 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 7 0.27
17 8 0.31
18 7 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAAATTAATAATA
Found at i:234084 original size:27 final size:26
Alignment explanation
Indices: 234021--234106 Score: 63
Period size: 27 Copynumber: 3.3 Consensus size: 26
234011 TATTAAATTT
*
234021 AATAATTT-ATTATTAAAATATTAATAA
1 AATAATTTAATTA-TATAATATT-ATAA
* *
234048 TATAA--AAATTATATAA-ATATATAA
1 AATAATTTAATTATATAATAT-TATAA
* *
234072 AATTAATTTAATTTTATGATATTATAA
1 AA-TAATTTAATTATATAATATTATAA
234099 AATAATTT
1 AATAATTT
234107 TTTTTATATA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
24 7 0.15
25 8 0.17
26 10 0.22
27 19 0.41
28 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (26 bp):
AATAATTTAATTATATAATATTATAA
Found at i:234097 original size:29 final size:27
Alignment explanation
Indices: 234056--234133 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 27
234046 AATATAAAAA
*
234056 TTATATAAATATATAAAATTAATTTAATT
1 TTATAT-ATTATATAAAATTAATTT-ATT
*
234085 TTATGATA-T-TATAAAA-TAATTTTTT
1 TTAT-ATATTATATAAAATTAATTTATT
*
234110 TTATATATTTACATAAAAATTAAT
1 TTATATA-TTATAT-AAAATTAAT
234134 AAATAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
24 3 0.07
25 6 0.15
26 7 0.17
27 9 0.22
28 5 0.12
29 9 0.22
30 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (27 bp):
TTATATATTATATAAAATTAATTTATT
Found at i:234115 original size:22 final size:26
Alignment explanation
Indices: 234067--234118 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
234057 TATATAAATA
234067 TATAAAATTAATTTAATTTTATGATAT
1 TATAAAATTAATTT-ATTTTATGATAT
*
234094 TATAAAA-TAATTTTTTTTAT-ATAT
1 TATAAAATTAATTTATTTTATGATAT
234118 T
1 T
234119 TACATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 6 0.25
27 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
TATAAAATTAATTTATTTTATGATAT
Found at i:234324 original size:23 final size:25
Alignment explanation
Indices: 234271--234325 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
234261 ATTACATAAC
234271 ATAAATAT-AATATATTATAAATAT
1 ATAAATATAAATATATTATAAATAT
*
234295 -T-ATTATAAATATA-TA-AAATAT
1 ATAAATATAAATATATTATAAATAT
234316 ATAAATATAA
1 ATAAATATAA
234326 TGTAAACACG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 6 0.23
22 7 0.27
23 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAAATATAAATATATTATAAATAT
Found at i:235340 original size:20 final size:17
Alignment explanation
Indices: 235300--235354 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 17
235290 TTAAATTAAT
*
235300 TTAAAATTTTATTT-TA
1 TTAAAATATTATTTATA
** *
235316 TT-ATTTATTATAT-TA
1 TTAAAATATTATTTATA
235331 TTAAAATATTATTTATA
1 TTAAAATATTATTTATA
235348 TTAAAAT
1 TTAAAAT
235355 TAAATATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 11 0.37
16 10 0.33
17 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAAATATTATTTATA
Found at i:235346 original size:30 final size:29
Alignment explanation
Indices: 235300--235387 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
235290 TTAAATTAAT
* *
235300 TTAAAATTTTATTTTATTATTTATTATATTA
1 TTAAAATATTA-TTTATTATTTATTA-AATA
*
235331 TTAAAATATTATTTA-TATTAAAATTAAATA
1 TTAAAATATTATTTATTATT--TATTAAATA
*
235361 TAAAAATATTATTT-TTA-TTATTAAATA
1 TTAAAATATTATTTATTATTTATTAAATA
235388 ATAATATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
27 8 0.16
29 5 0.10
30 22 0.45
31 14 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAAAATATTATTTATTATTTATTAAATA
Found at i:235550 original size:5 final size:5
Alignment explanation
Indices: 235518--235550 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
235508 AATTTAATAA
235518 TTTA- TTTAT TTATAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TT-TAT TTTAT TTTAT TTTAT TTT
235551 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.67
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:235562 original size:18 final size:18
Alignment explanation
Indices: 235541--235581 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
235531 ATTTTATTTT
*
235541 ATTTTATTTTTTTAAAAA
1 ATTTTATTATTTTAAAAA
*
235559 A-TTTA-TATTTTATAAA
1 ATTTTATTATTTTAAAAA
235575 ATTTTAT
1 ATTTTAT
235582 CAATTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 4
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.53
17 8 0.42
18 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTATTATTTTAAAAA
Found at i:235580 original size:17 final size:17
Alignment explanation
Indices: 235526--235581 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
235516 AATTTATTTA
***
235526 TTTATATTTTATTTTAT
1 TTTATATTTTATAAAAT
* *
235543 TTTAT-TTTTTTAAAAAA
1 TTTATATTTTAT-AAAAT
235560 TTTATATTTTATAAAAT
1 TTTATATTTTATAAAAT
235577 TTTAT
1 TTTAT
235582 CAATTTTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.17
17 20 0.67
18 5 0.17
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATTTTATAAAAT
Found at i:236093 original size:2 final size:2
Alignment explanation
Indices: 236086--236110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
236076 AATCTCACTA
236086 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 A
236111 AGAGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:236155 original size:9 final size:9
Alignment explanation
Indices: 236131--236165 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
236121 TTTTTTATTA
236131 AAATTAAAT
1 AAATTAAAT
236140 AAA-TAAAT
1 AAATTAAAT
236148 AAATTAAAT
1 AAATTAAAT
*
236157 TAATTAAAT
1 AAATTAAAT
236166 TTTATGCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATTAAAT
Found at i:236869 original size:20 final size:21
Alignment explanation
Indices: 236825--236870 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
236815 TCAAAACCTT
* *
236825 TATTATAATATTTAAAATTTA
1 TATTTTAATATTTAAAATATA
236846 -ATTTTAATA-TTAAAATATA
1 TATTTTAATATTTAAAATATA
236865 TATTTT
1 TATTTT
236871 TAAATTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTAATATTTAAAATATA
Found at i:237423 original size:27 final size:26
Alignment explanation
Indices: 237383--237441 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
237373 GTTCATTTAA
* * *
237383 TTTAAACAAACAAACATGAAAATATT
1 TTTAAACAAACAAAAACGAAAATAAT
*
237409 TTTAAACAAACCAAAAACGAACATAAT
1 TTTAAACAAA-CAAAAACGAAAATAAT
237436 TTTAAA
1 TTTAAA
237442 ATTCTTAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (26 bp):
TTTAAACAAACAAAAACGAAAATAAT
Found at i:238128 original size:2 final size:2
Alignment explanation
Indices: 238116--238149 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
238106 AACTTTCTTT
*
238116 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
238150 CGAACTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:240199 original size:36 final size:36
Alignment explanation
Indices: 240158--240230 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
240148 TCCGAACAAA
240158 TACAAAGTTTCCATTCTTCAAATGAAAAGGATCAAT
1 TACAAAGTTTCCATTCTTCAAATGAAAAGGATCAAT
240194 TACAAAGTTTCCATTCTTCAAATGAAAAGGATCAAT
1 TACAAAGTTTCCATTCTTCAAATGAAAAGGATCAAT
240230 T
1 T
240231 CCTACACCTT
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:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (36 bp):
TACAAAGTTTCCATTCTTCAAATGAAAAGGATCAAT
Found at i:245502 original size:11 final size:11
Alignment explanation
Indices: 245483--245610 Score: 54
Period size: 11 Copynumber: 11.8 Consensus size: 11
245473 TACATGGGAT
245483 TATTATATTTA
1 TATTATATTTA
*
245494 TATTTTATTTA
1 TATTATATTTA
* *
245505 TATATTTTTGTTA
1 TAT-TATAT-TTA
* *
245518 TACTATAATTA
1 TATTATATTTA
* *
245529 TATTAAAATTA
1 TATTATATTTA
*
245540 TTTTATATTTA
1 TATTATATTTA
* *
245551 TA-TAAATTTT
1 TATTATATTTA
245561 TA-TATA-TTA
1 TATTATATTTA
245570 -A-TA-ATTTA
1 TATTATATTTA
245578 -ATTATATTAATA
1 TATTATATT--TA
**
245590 TAAAATATTTA
1 TATTATATTTA
245601 TATTCATATT
1 TATT-ATATT
245611 ATGTTTTTAT
Statistics
Matches: 88, Mismatches: 20, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
7 1 0.01
8 7 0.08
9 4 0.05
10 14 0.16
11 38 0.43
12 13 0.15
13 11 0.12
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.58
Consensus pattern (11 bp):
TATTATATTTA
Found at i:245575 original size:17 final size:17
Alignment explanation
Indices: 245527--245589 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
245517 ATACTATAAT
245527 TATATTAA-AATTATTT-
1 TATATTAATAATT-TTTA
245543 TATATTTATATAAATTTTTA
1 TATA-TTA-AT-AATTTTTA
*
245563 TATATTAATAA-TTTAA
1 TATATTAATAATTTTTA
245579 TTATATTAATA
1 -TATATTAATA
245590 TAAAATATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
16 8 0.20
17 15 0.38
18 3 0.08
19 6 0.15
20 8 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTAATAATTTTTA
Found at i:245955 original size:16 final size:17
Alignment explanation
Indices: 245936--245968 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
245926 TTTTATTAGA
245936 TTGA-AAGTTTAATTTT
1 TTGAGAAGTTTAATTTT
*
245952 TTGAGAATTTTAATTTT
1 TTGAGAAGTTTAATTTT
245969 CAATTCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (17 bp):
TTGAGAAGTTTAATTTT
Found at i:246304 original size:19 final size:18
Alignment explanation
Indices: 246280--246318 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
246270 AGATTTGATA
246280 ATTTATATATTTATATCAT
1 ATTTATATATTT-TATCAT
246299 ATTTATATATTTTATCAT
1 ATTTATATATTTTATCAT
246317 AT
1 AT
246319 CATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATATATTTTATCAT
Found at i:246591 original size:2 final size:2
Alignment explanation
Indices: 246584--246609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
246574 TGTAAACCAA
246584 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
246610 GTCATTTTTG
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:247679 original size:24 final size:24
Alignment explanation
Indices: 247622--247683 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
247612 ATAATATTTT
*
247622 TATTTAAAT-TTAATTATAAAAAA
1 TATTTAAATATTAATTAAAAAAAA
* *
247645 TATATAAATATTATTTAAAAATAAA
1 TATTTAAATATTAATTAAAAA-AAA
247670 T-TTTAAATATTAAT
1 TATTTAAATATTAAT
247684 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 8 0.25
24 20 0.62
25 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTTAAATATTAATTAAAAAAAA
Found at i:247684 original size:17 final size:17
Alignment explanation
Indices: 247664--247700 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
247654 ATTATTTAAA
*
247664 AATAAATTTTAAATATT
1 AATAAATTTTAAATAGT
*
247681 AATATATTTTAAATAGT
1 AATAAATTTTAAATAGT
247698 AAT
1 AAT
247701 TTAAGTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
AATAAATTTTAAATAGT
Found at i:251568 original size:34 final size:35
Alignment explanation
Indices: 251530--251596 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
251520 CCTTACAACA
251530 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
251564 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
251597 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:252093 original size:13 final size:13
Alignment explanation
Indices: 252075--252100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
252065 CTATTTATGA
252075 TGTATCGATACAC
1 TGTATCGATACAC
252088 TGTATCGATACAC
1 TGTATCGATACAC
252101 ATAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:253288 original size:28 final size:27
Alignment explanation
Indices: 253231--253284 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
253221 AATTTTATTT
*
253231 TTAATTATATTTTATATATAATATAAA
1 TTAAATATATTTTATATATAATATAAA
*
253258 TTAAATATATTTT-TATAATAATTTAAA
1 TTAAATATATTTTATAT-ATAATATAAA
253285 ATTATATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAATATATTTTATATATAATATAAA
Found at i:254189 original size:20 final size:18
Alignment explanation
Indices: 254142--254189 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
254132 ATTATAATTA
*
254142 AATTTAAAATAAAAATAT
1 AATTTAAATTAAAAATAT
* *
254160 TATTTTAATTAATAAATAAT
1 AATTTAAATTAA-AAAT-AT
254180 AATTTAAATT
1 AATTTAAATT
254190 GATTACTCGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTAAATTAAAAATAT
Found at i:254856 original size:29 final size:30
Alignment explanation
Indices: 254818--254958 Score: 128
Period size: 30 Copynumber: 4.7 Consensus size: 30
254808 TGTGTCACAT
*
254818 TATTTAAATAAATTTTT-ATATTT-TTATTA
1 TATTTAAATAAATTTTTAATATTTAAT-TTA
*
254847 TATTTAAATATATTTTTAATATTTAATTT-
1 TATTTAAATAAATTTTTAATATTTAATTTA
** * *
254876 TCATCAAAATAAATTTTTTATATTTTATTTA
1 T-ATTTAAATAAATTTTTAATATTTAATTTA
* *
254907 TATTAAAATAAATTCTTAACT-TTTAATTTA
1 TATTTAAATAAATTTTTAA-TATTTAATTTA
* **
254937 TATATAAATAAACCTTTAATAT
1 TATTTAAATAAATTTTTAATAT
254959 AAATTGATAT
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
29 18 0.20
30 69 0.77
31 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (30 bp):
TATTTAAATAAATTTTTAATATTTAATTTA
Found at i:254860 original size:21 final size:19
Alignment explanation
Indices: 254834--254872 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
254824 AATAAATTTT
254834 TATATTTTTATTATATTTAAA
1 TATATTTTTA--ATATTTAAA
254855 TATATTTTTAATATTTAA
1 TATATTTTTAATATTTAA
254873 TTTTCATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTTAATATTTAAA
Found at i:254916 original size:60 final size:59
Alignment explanation
Indices: 254823--254935 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
254813 CACATTATTT
* * *
254823 AAATAAATTTTTATATTTTTATTATATTTAAATATATTTTTAA-TATTTAATTTTCATCA
1 AAATAAATTTTTATATTTTTATTATATTAAAATAAATTCTTAACT-TTTAATTTTCATCA
254882 AAATAAATTTTT-TATATTTTATTTATATTAAAATAAATTCTTAACTTTTAATTT
1 AAATAAATTTTTATAT-TTTTA-TTATATTAAAATAAATTCTTAACTTTTAATTT
254936 ATATATAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
58 3 0.06
59 17 0.35
60 27 0.56
61 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (59 bp):
AAATAAATTTTTATATTTTTATTATATTAAAATAAATTCTTAACTTTTAATTTTCATCA
Found at i:254946 original size:60 final size:60
Alignment explanation
Indices: 254822--254948 Score: 156
Period size: 60 Copynumber: 2.1 Consensus size: 60
254812 TCACATTATT
* * *
254822 TAAATAAATTTTTATATTTTTATTATATTTAAATATATTTTTAATATTTAATTTTCATCA
1 TAAATAAATTTTTATATTTTTATTATATTAAAATAAATTCTTAATATTTAATTTTCATCA
254882 -AAATAAATTTTT-TATATTTTATTTATATTAAAATAAATTCTTAACT-TTTAATTTAT-AT-A
1 TAAATAAATTTTTATAT-TTTTA-TTATATTAAAATAAATTCTTAA-TATTTAATTT-TCATCA
254941 TAAATAAA
1 TAAATAAA
254949 CCTTTAATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
58 3 0.05
59 18 0.31
60 36 0.61
61 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (60 bp):
TAAATAAATTTTTATATTTTTATTATATTAAAATAAATTCTTAATATTTAATTTTCATCA
Done.