Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold426
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: 634051
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 2 of 6
Found at i:131269 original size:17 final size:17
Alignment explanation
Indices: 131215--131269 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
131205 AAAATATTAT
*
131215 ATATTTTATAAATTTTA
1 ATATTATATAAATTTTA
*
131232 ATA-TATATTAATAATTT-
1 ATATTATA-TAA-ATTTTA
131249 ATATTATATAAATTTTA
1 ATATTATATAAATTTTA
131266 ATAT
1 ATAT
131270 GTTTATATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 7 0.23
17 16 0.52
18 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTATATAAATTTTA
Found at i:131321 original size:21 final size:21
Alignment explanation
Indices: 131297--131340 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
131287 ATAAAAACTT
131297 ATATTTTAT-TAACTTTTTTTC
1 ATATTTTATGTAA-TTTTTTTC
*
131318 ATATTTTATGTCATTTTTTTC
1 ATATTTTATGTAATTTTTTTC
131339 AT
1 AT
131341 GTCTATTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.66
Consensus pattern (21 bp):
ATATTTTATGTAATTTTTTTC
Found at i:131621 original size:18 final size:17
Alignment explanation
Indices: 131589--131631 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
131579 AATATATTTT
**
131589 ATAAATATATAAAAATTA
1 ATAAA-ATATAAAAACAA
131607 ATAAAATATAGAAAACAA
1 ATAAAATATA-AAAACAA
131625 ATAAAAT
1 ATAAAAT
131632 TAATACAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
ATAAAATATAAAAACAA
Found at i:131983 original size:25 final size:25
Alignment explanation
Indices: 131944--132009 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
131934 TTTTTAATAG
* * *
131944 TAAAAAATATATATACAATGACATTT
1 TAAAAAAT-TTTATACAATAACAATT
131970 TAAAAAATTTTATA-AATAACAATT
1 TAAAAAATTTTATACAATAACAATT
*
131994 CAAAAGAATTTT-TACA
1 TAAAA-AATTTTATACA
132010 TCCGTGCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
24 14 0.41
25 12 0.35
26 8 0.24
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (25 bp):
TAAAAAATTTTATACAATAACAATT
Found at i:141180 original size:21 final size:21
Alignment explanation
Indices: 141156--141197 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
141146 AGGAAAAAGG
* *
141156 GTTGGGAAAGTGCGTGGGAGA
1 GTTGGGAAAGCGCGTAGGAGA
141177 GTTGGGAAAGCGCGTAGGAGA
1 GTTGGGAAAGCGCGTAGGAGA
141198 CATGGAGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (21 bp):
GTTGGGAAAGCGCGTAGGAGA
Found at i:141530 original size:19 final size:21
Alignment explanation
Indices: 141489--141539 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
141479 TATTCTATTA
141489 TATTTTTATTTATTTTTCCTCTT
1 TATTTTTATTTA-TTTT-CTCTT
141512 TATTTTTATTTATTTTCT-TT
1 TATTTTTATTTATTTTCTCTT
141532 TAATTTTT
1 T-ATTTTT
141540 TATTAACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 3 0.11
21 8 0.30
22 4 0.15
23 12 0.44
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (21 bp):
TATTTTTATTTATTTTCTCTT
Found at i:141627 original size:20 final size:18
Alignment explanation
Indices: 141586--141633 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
141576 TATTATAATT
*
141586 ATATTTATAAAATATTAT
1 ATATTTATAAAATATTAA
*
141604 ATATTTATATAAATTTTAAA
1 ATATTTATA-AAATATT-AA
*
141624 ATATTAATAA
1 ATATTTATAA
141634 TGTATAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
20 9 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATTTATAAAATATTAA
Found at i:141887 original size:21 final size:22
Alignment explanation
Indices: 141842--141890 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
141832 ATTACGATCT
*
141842 TAAAATAAATTAATTTTAGATA
1 TAAAATAAATTAATTTTAGAAA
* *
141864 TAAAATAAATT-TTTTTATAAA
1 TAAAATAAATTAATTTTAGAAA
141885 TAAAAT
1 TAAAAT
141891 CGTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAATAAATTAATTTTAGAAA
Found at i:142142 original size:2 final size:2
Alignment explanation
Indices: 142135--142164 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
142125 ACCATGTATG
142135 TA 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 TA
142165 ATAACTTAGA
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):
TA
Found at i:143656 original size:17 final size:17
Alignment explanation
Indices: 143621--143657 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
143611 ATAAAAAGTA
**
143621 TAAAAATATTAACTGTT
1 TAAAAATATTAACAATT
143638 TAAAAATATTAACAATT
1 TAAAAATATTAACAATT
143655 TAA
1 TAA
143658 TTACTATCTA
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:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAAATATTAACAATT
Found at i:143777 original size:12 final size:12
Alignment explanation
Indices: 143754--143787 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
143744 TCATAATTTT
143754 ATATATATTATAA
1 ATATA-ATTATAA
143767 ATATAATTATAA
1 ATATAATTATAA
143779 ATA-AATTAT
1 ATATAATTAT
143788 TGATATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.29
12 10 0.48
13 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
ATATAATTATAA
Found at i:150414 original size:13 final size:12
Alignment explanation
Indices: 150392--150431 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
150382 TTCTTATGAG
*
150392 TTTTTCATTTTAT
1 TTTTTAATTTT-T
*
150405 TTTTTAATTTTC
1 TTTTTAATTTTT
150417 TTTTTAATTTTT
1 TTTTTAATTTTT
150429 TTT
1 TTT
150432 GTCATAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTAATTTTT
Found at i:150694 original size:28 final size:28
Alignment explanation
Indices: 150654--150710 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
150644 GATTTTTGAA
*
150654 AAAATTAATTATTTATTATAAAAATTATT
1 AAAATTAAATATTTATT-TAAAAATTATT
*
150683 AAAA-TAAATATTTATTTTAAAATTATT
1 AAAATTAAATATTTATTTAAAAATTATT
150710 A
1 A
150711 TTTAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 11 0.42
28 11 0.42
29 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAATTAAATATTTATTTAAAAATTATT
Found at i:150704 original size:18 final size:18
Alignment explanation
Indices: 150680--150733 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
150670 TATAAAAATT
*
150680 ATTAAAATAAATATTTAT
1 ATTAAAATAAATATTTAA
* * *
150698 TTTAAAATTATTATTTAA
1 ATTAAAATAAATATTTAA
150716 ATTAAAA-AAATATATTAA
1 ATTAAAATAAATAT-TTAA
150734 TATACCATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAATAAATATTTAA
Found at i:151601 original size:11 final size:12
Alignment explanation
Indices: 151587--151617 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
151577 AAAAATTAAA
151587 TAAATTTATAT-
1 TAAATTTATATC
151598 TAAATTTATATC
1 TAAATTTATATC
151610 TAAATTTA
1 TAAATTTA
151618 AAATTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAATTTATATC
Found at i:152170 original size:15 final size:16
Alignment explanation
Indices: 152148--152194 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
152138 ATCCAAATAA
152148 TAAAAAAATTAATTTT
1 TAAAAAAATTAATTTT
*
152164 TAAAAAAATCAATTTT
1 TAAAAAAATTAATTTT
*
152180 T-TAAAAATT-ATTTT
1 TAAAAAAATTAATTTT
152194 T
1 T
152195 TTTTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 16 0.57
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAAAATTAATTTT
Found at i:152957 original size:32 final size:32
Alignment explanation
Indices: 152891--152986 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
152881 GTTTTAATAT
* * *
152891 TTATATAAATTTTAGTATATTAATA-ATTCTTA
1 TTATATAAATTTTAATATATTTATATATT-ATA
*
152923 TTATATAAATTTTAATATGTTTATATATTATA
1 TTATATAAATTTTAATATATTTATATATTATA
* *
152955 TTATAT---TTTTATTATTTTTATATAATTATA
1 TTATATAAATTTTAATATATTTATAT-ATTATA
152985 TT
1 TT
152987 TTATTTAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.27
30 8 0.14
32 30 0.54
33 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.59
Consensus pattern (32 bp):
TTATATAAATTTTAATATATTTATATATTATA
Found at i:152960 original size:50 final size:44
Alignment explanation
Indices: 152846--152961 Score: 115
Period size: 50 Copynumber: 2.4 Consensus size: 44
152836 GCCTATTATA
*
152846 TTTATATATTTATATATATTATAATTGTATTTAAAGTTTTAATAT
1 TTTATATATTTAT-TATATTATAATTGTATTTAAAATTTTAATAT
* * *
152891 TTATATAAATTTTAGTATATTAATAATTCTTATTATATAAATTTTAATAT
1 TT-TATATA-TTTATTATATT-ATAATT-GTATT-TA-AAATTTTAATAT
152941 GTTTATATATTATATTATATT
1 -TTTATATATT-TATTATATT
152962 TTTATTATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
45 2 0.04
46 11 0.19
47 10 0.18
48 4 0.07
49 4 0.07
50 24 0.42
51 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (44 bp):
TTTATATATTTATTATATTATAATTGTATTTAAAATTTTAATAT
Found at i:152985 original size:30 final size:29
Alignment explanation
Indices: 152922--153009 Score: 99
Period size: 29 Copynumber: 3.0 Consensus size: 29
152912 AATAATTCTT
* * *
152922 ATTATA-TAAATTTTAATATGTTTATAT-
1 ATTATATTATATTTTATTATTTTTATATA
152949 ATTATATTATATTTTTATTATTTTTATATA
1 ATTATATTATA-TTTTATTATTTTTATATA
* *
152979 ATTATATTTTATTTAATTATTTTTTATATA
1 ATTATATTATATTTTATTA-TTTTTATATA
153009 A
1 A
153010 CATTTATATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.12
28 3 0.06
29 22 0.42
30 21 0.40
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTATATTATATTTTATTATTTTTATATA
Found at i:152990 original size:15 final size:15
Alignment explanation
Indices: 152937--153009 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
152927 ATAAATTTTA
152937 ATATGTTTATAT-ATT
1 ATAT-TTTATATAATT
* * *
152952 ATATTATATTTTTATT
1 ATATTTTA-TATAATT
152968 AT-TTTTATATAATT
1 ATATTTTATATAATT
*
152982 ATATTTTATTTAATT
1 ATATTTTATATAATT
*
152997 ATTTTTTATATAA
1 ATATTTTATATAA
153010 CATTTATATA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
14 10 0.21
15 32 0.68
16 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (15 bp):
ATATTTTATATAATT
Found at i:153653 original size:19 final size:18
Alignment explanation
Indices: 153629--153685 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
153619 TCGTATAAAC
153629 TTAAATATCATATAAATTA
1 TTAAATAT-ATATAAATTA
153648 TTAAATATAT-TAAAATT-
1 TTAAATATATAT-AAATTA
*
153665 TTAAAATATTATATTAATTA
1 TT-AAATA-TATATAAATTA
153685 T
1 T
153686 ATTTAAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
17 3 0.09
18 12 0.38
19 15 0.47
20 2 0.06
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATATATATAAATTA
Found at i:154644 original size:19 final size:20
Alignment explanation
Indices: 154598--154646 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
154588 TACATAGTTA
*
154598 TTTAATATATTTTAATAACT
1 TTTAATATTTTTTAATAACT
* *
154618 TTTTATATTTTTTATTAAC-
1 TTTAATATTTTTTAATAACT
154637 TTTAATATTT
1 TTTAATATTT
154647 GTAAAATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTAATATTTTTTAATAACT
Found at i:154802 original size:13 final size:13
Alignment explanation
Indices: 154784--154812 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
154774 AATATGTATA
154784 AAATATTAATATC
1 AAATATTAATATC
154797 AAATATTAATATC
1 AAATATTAATATC
154810 AAA
1 AAA
154813 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATATTAATATC
Found at i:157221 original size:18 final size:18
Alignment explanation
Indices: 157184--157223 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
157174 GTATCGGATA
*
157184 TAAATATATTTAATTTTT
1 TAAATATATTTAATTATT
157202 TAAATAT-TTTAATATATT
1 TAAATATATTTAAT-TATT
157220 TAAA
1 TAAA
157224 GGGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATATATTTAATTATT
Found at i:157608 original size:23 final size:23
Alignment explanation
Indices: 157563--157613 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
157553 TTTAATTGGA
* **
157563 ATAAGTGTTTATTTTATTTTTTT
1 ATAATTGTTTATTTTATAATTTT
157586 ATAATTGTTTATTTTATAATTTT
1 ATAATTGTTTATTTTATAATTTT
157609 A-AATT
1 ATAATT
157614 CAACAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (23 bp):
ATAATTGTTTATTTTATAATTTT
Found at i:163371 original size:25 final size:23
Alignment explanation
Indices: 163315--163374 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
163305 TTAAACCCAC
* *
163315 TAATATTAA-ATATGATTAAAATA
1 TAATA-TAATATATGATCAAAAAA
163338 TAAT-TAATATATGATACAAAAAA
1 TAATATAATATATGAT-CAAAAAA
163361 TAATATAAATATAT
1 TAATAT-AATATAT
163375 TATAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 3 0.10
22 7 0.23
23 13 0.42
24 1 0.03
25 7 0.23
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (23 bp):
TAATATAATATATGATCAAAAAA
Found at i:163380 original size:11 final size:11
Alignment explanation
Indices: 163364--163454 Score: 78
Period size: 9 Copynumber: 9.2 Consensus size: 11
163354 CAAAAAATAA
163364 TATAAATATAT
1 TATAAATATAT
163375 TAT-AA-ATAT
1 TATAAATATAT
163384 T-TAAATAT-T
1 TATAAATATAT
163393 TATAAATAT-T
1 TATAAATATAT
*
163403 T-TTAATATAAT
1 TATAAATAT-AT
163414 TA-AAATATA-
1 TATAAATATAT
163423 -ATAAA-AT-T
1 TATAAATATAT
*
163431 TATAAATATAA
1 TATAAATATAT
163442 TATAAATATAT
1 TATAAATATAT
163453 TA
1 TA
163455 ATTCGTAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
8 4 0.06
9 23 0.35
10 16 0.25
11 22 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TATAAATATAT
Found at i:163397 original size:29 final size:28
Alignment explanation
Indices: 163357--163439 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 28
163347 TATGATACAA
*
163357 AAAATAATATAAATATATTATAAATATTT
1 AAAATATTATAAATAT-TTATAAATATTT
* *
163386 -AAATATTTATAAATATTTTTAATATAATT
1 AAAATA-TTATAAATATTTATAA-ATATTT
*
163415 AAAATATAATAAA-ATTTATAAATAT
1 AAAATATTATAAATATTTATAAATAT
163440 AATATAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.07
28 17 0.38
29 20 0.44
30 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAATATTATAAATATTTATAAATATTT
Found at i:163419 original size:20 final size:20
Alignment explanation
Indices: 163366--163421 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
163356 AAAAATAATA
163366 TAAATATATTATAAATA--TT
1 TAAATA-ATTATAAATATTTT
*
163385 TAAATATTTATAAATATTTT
1 TAAATAATTATAAATATTTT
163405 TAATATAATTA-AAATAT
1 TAA-ATAATTATAAATAT
163422 AATAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.28
19 6 0.19
20 11 0.34
21 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATAATTATAAATATTTT
Found at i:164463 original size:15 final size:15
Alignment explanation
Indices: 164429--164545 Score: 58
Period size: 15 Copynumber: 8.3 Consensus size: 15
164419 TAATGTTAAT
* *
164429 ATTTAAAATATTATAT
1 ATTT-AAATAATATAA
*
164445 ATTTATATAATATAA
1 ATTTAAATAATATAA
164460 ATTTAAAT-A-ATAA
1 ATTTAAATAATATAA
* *
164473 ATTTTAAT-ATCTAA
1 ATTTAAATAATATAA
* *
164487 A-TTAATTATTCATAA
1 ATTTAAATAAT-ATAA
164502 A-TT-AAT--T-TAA
1 ATTTAAATAATATAA
164512 ATTTAAATAATA-AA
1 ATTTAAATAATATAA
*
164526 TATTTAAA-AATTTAA
1 -ATTTAAATAATATAA
164541 ATTTA
1 ATTTA
164546 TATCCATACT
Statistics
Matches: 79, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
10 4 0.05
11 2 0.03
12 4 0.05
13 16 0.20
14 19 0.24
15 30 0.38
16 4 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTAAATAATATAA
Found at i:164482 original size:52 final size:53
Alignment explanation
Indices: 164424--164549 Score: 136
Period size: 52 Copynumber: 2.4 Consensus size: 53
164414 TAAATTAATG
**
164424 TTAATATTTAAAATATTATAT-ATTTATATAATATAAATTTAAATAATAAAT-T
1 TTAATATTTAAAATATTATATCATAAAT-TAATATAAATTTAAATAATAAATAT
* * *
164476 TTAATATCTAAATTAATTAT-TCATAAATTAATTTAAATTTAAATAATAAATAT
1 TTAATATTTAAAAT-ATTATATCATAAATTAATATAAATTTAAATAATAAATAT
*
164529 TTAAAAATTT-AAAT-TTATATC
1 TT-AATATTTAAAATATTATATC
164550 CATACTCATT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
51 4 0.07
52 37 0.61
53 15 0.25
54 5 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (53 bp):
TTAATATTTAAAATATTATATCATAAATTAATATAAATTTAAATAATAAATAT
Found at i:164565 original size:52 final size:52
Alignment explanation
Indices: 164455--164565 Score: 120
Period size: 52 Copynumber: 2.1 Consensus size: 52
164445 ATTTATATAA
* * *
164455 TATAAATTTAAATAATAAATTTTAATATCTAAATTAATTATTCATAAATTAAT
1 TATAAATTTAAATAATAAATTTTAAAATCTAAATTAATTATCCAT-AACTAAT
* * *
164508 T-TAAATTTAAATAATAAATATTTAAAAATTTAAATTTA-TATCCAT-ACTCAT
1 TATAAATTTAAATAATAAAT-TTT-AAAATCTAAATTAATTATCCATAACTAAT
164559 TATAAAT
1 TATAAAT
164566 AATAATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.10
52 23 0.47
53 10 0.20
54 11 0.22
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.44
Consensus pattern (52 bp):
TATAAATTTAAATAATAAATTTTAAAATCTAAATTAATTATCCATAACTAAT
Found at i:165392 original size:22 final size:24
Alignment explanation
Indices: 165361--165408 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
165351 TTATACGTAG
165361 TTTTTGATAATAAT-ATTTTAAAA
1 TTTTTGATAATAATAATTTTAAAA
165384 TTTTT-ATAATAATAAATTTTAAAA
1 TTTTTGATAATAAT-AATTTTAAAA
165408 T
1 T
165409 AATAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTTTGATAATAATAATTTTAAAA
Found at i:165416 original size:24 final size:25
Alignment explanation
Indices: 165367--165416 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
165357 GTAGTTTTTG
** *
165367 ATAATAATATTTTAAAATTTTTATA
1 ATAATAATATTTTAAAATAATAATA
165392 ATAATAA-ATTTTAAAATAATAATA
1 ATAATAATATTTTAAAATAATAATA
165416 A
1 A
165417 AAGAATTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATAATAATATTTTAAAATAATAATA
Found at i:165862 original size:13 final size:13
Alignment explanation
Indices: 165844--165868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165834 CATTTGTTCA
165844 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
165857 AGAAAAAAAAAA
1 AGAAAAAAAAAA
165869 CTCTAAAGAA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAAAG
Found at i:166422 original size:3 final size:3
Alignment explanation
Indices: 166414--166438 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
166404 TTCGTCTATA
166414 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
166439 TAATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:168389 original size:40 final size:40
Alignment explanation
Indices: 168345--168437 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
168335 ATATTTAAAA
168345 TATTAATATTT-TATATTATA-TAAATTTTAATATATTTATG
1 TATTAAT-TTTATATATTATATTAAATTTTAAT-TATTTATG
* * *
168385 TATTAATTTTATATTTTATATTATATTTTAATTATTT-TT
1 TATTAATTTTATATATTATATTAAATTTTAATTATTTATG
168424 TATTACA-TTTATAT
1 TATTA-ATTTTATAT
168438 TTTTGGAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
39 16 0.34
40 21 0.45
41 10 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (40 bp):
TATTAATTTTATATATTATATTAAATTTTAATTATTTATG
Found at i:168422 original size:21 final size:20
Alignment explanation
Indices: 168355--168433 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
168345 TATTAATATT
* *
168355 TTATATTATATAAATTTTAA
1 TTATTTTATATTAATTTTAA
*
168375 TATATTTATGTATTAATTTT-A
1 T-TATTT-TATATTAATTTTAA
168396 -TATTTTATATTATATTTTAA
1 TTATTTTATATTA-ATTTTAA
*
168416 TTATTTTTTATTACATTT
1 TTATTTTATATTA-ATTT
168434 ATATTTTTGG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
18 6 0.12
19 10 0.21
20 2 0.04
21 20 0.42
22 10 0.21
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (20 bp):
TTATTTTATATTAATTTTAA
Found at i:168789 original size:16 final size:16
Alignment explanation
Indices: 168770--168816 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 16
168760 AAAATTAAAA
168770 TTAAATTTAAAAATTT
1 TTAAATTTAAAAATTT
*
168786 TTAATTTTAAAAA--T
1 TTAAATTTAAAAATTT
168800 TTAAATTTAAAATATTT
1 TTAAATTTAAAA-ATTT
168817 CAAACTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.46
15 1 0.04
16 12 0.46
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATTTAAAAATTT
Found at i:168797 original size:15 final size:15
Alignment explanation
Indices: 168773--168816 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
168763 ATTAAAATTA
* *
168773 AATTTAAAAATTTTT
1 AATTTTAAAATATTT
168788 AATTTTAAAA-ATTT
1 AATTTTAAAATATTT
*
168802 AAATTTAAAATATTT
1 AATTTTAAAATATTT
168817 CAAACTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTTAAAATATTT
Found at i:168826 original size:30 final size:29
Alignment explanation
Indices: 168766--168828 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
168756 AAAAAAAATT
* **
168766 AAAATTAAATTTAAAAATTTTTAATTTTA
1 AAAATTAAATTTAAAAATTTTCAAACTTA
168795 AAAATTTAAATTT-AAAATATTTCAAACTTA
1 AAAA-TTAAATTTAAAAAT-TTTCAAACTTA
168825 AAAA
1 AAAA
168829 ATCACACTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTAAATTTAAAAATTTTCAAACTTA
Found at i:170435 original size:17 final size:17
Alignment explanation
Indices: 170395--170445 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
170385 ATATATATAT
* *
170395 ATATATATATATATATAT
1 ATATATATATATA-AAAA
*
170413 ATATATATGTATAAAAA
1 ATATATATATATAAAAA
*
170430 ATATATTTATATAAAA
1 ATATATATATATAAAA
170446 TTAAATTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
ATATATATATATAAAAA
Found at i:170442 original size:2 final size:2
Alignment explanation
Indices: 170385--170425 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
170375 ATTGACTTAG
*
170385 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
170426 AAAAATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:170912 original size:224 final size:224
Alignment explanation
Indices: 170522--170965 Score: 660
Period size: 224 Copynumber: 2.0 Consensus size: 224
170512 ACTTTTTATG
* * * *
170522 TATTTAAAGTTTCGAATTGATCTAACATTCGAATCATATCAATCAAAAATATTTATTTTCAATAT
1 TATTTAAAGTTTCGAATAGATCCAACATTCAAATCATATCAATAAAAAATATTTATTTTCAATAT
* * * * *
170587 ATATTTAACGATTAAAAATTTTTTTATATCAAATAATTAATTAAGTACTTCTTATCTACTCGAGA
66 AGATTTAACGATTAAAAATTTTTTTACATCAAATAAATAATTAAGCACTTCTTATCTACTCGAAA
* * *
170652 CTTAACGTGCATGATTTATGTAAATAAATGATAAAATGTAAT-AGTCGAATTAAACAAGTATGAA
131 CTTAACGTGCATAATTTATGTAAATAAATAATAAAATATAATGA-TCGAATTAAACAAGTATGAA
*
170716 TCATACAAAAAGTTATGAAAGTATATCATA
195 TCATACAAAAAGTTATAAAAGTATATCATA
* *
170746 TATTTAAAGTTTTGAATAGATCCAACATTCAAATCATATCAATAAAAAATACTTATATTTTTAAT
1 TATTTAAAGTTTCGAATAGATCCAACATTCAAATCATATCAATAAAAAATA-TT-TATTTTCAAT
* * *
170811 ATAGATTT-ATGATT-AAAATTTTTTTACATCGAATAAATAATTAAGCACTTCTTATTTACTCGA
64 ATAGATTTAACGATTAAAAATTTTTTTACATCAAATAAATAATTAAGCACTTCTTATCTACTCGA
*
170874 AACTTAACGTGCATAATTTATGTAAATAAATAATAAAATATAATGATCGAATTAAATAAGTATGA
129 AACTTAACGTGCATAATTTATGTAAATAAATAATAAAATATAATGATCGAATTAAACAAGTATGA
*
170939 ATCATACGAAAAGTTATAAAAGTATAT
194 ATCATACAAAAAGTTATAAAAGTATAT
170966 AAAACTAATT
Statistics
Matches: 197, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
224 173 0.88
225 8 0.04
226 16 0.08
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (224 bp):
TATTTAAAGTTTCGAATAGATCCAACATTCAAATCATATCAATAAAAAATATTTATTTTCAATAT
AGATTTAACGATTAAAAATTTTTTTACATCAAATAAATAATTAAGCACTTCTTATCTACTCGAAA
CTTAACGTGCATAATTTATGTAAATAAATAATAAAATATAATGATCGAATTAAACAAGTATGAAT
CATACAAAAAGTTATAAAAGTATATCATA
Found at i:172861 original size:17 final size:17
Alignment explanation
Indices: 172836--172875 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
172826 CGGACTTAAA
*
172836 AATAAATATCAGATATG
1 AATATATATCAGATATG
*
172853 AATATATATCCGATATG
1 AATATATATCAGATATG
172870 -ATATAT
1 AATATAT
172876 TTGATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.35
Consensus pattern (17 bp):
AATATATATCAGATATG
Found at i:175285 original size:18 final size:17
Alignment explanation
Indices: 175258--175335 Score: 75
Period size: 18 Copynumber: 4.2 Consensus size: 17
175248 TTTAAATATA
*
175258 TTTAATTTAATATTTTAT
1 TTTAAATTAA-ATTTTAT
175276 TTTAAATTAAAATTTATAATT
1 TTTAAATT-AAATTT-T-A-T
*
175297 ATTTAAATTAAATTATAT
1 -TTTAAATTAAATTTTAT
175315 TTTATAATTAAATTTTAT
1 TTTA-AATTAAATTTTAT
175333 TTT
1 TTT
175336 TATAATATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
17 4 0.08
18 27 0.53
19 4 0.08
20 2 0.04
21 6 0.12
22 8 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTAAATTAAATTTTAT
Found at i:175291 original size:40 final size:40
Alignment explanation
Indices: 175247--175332 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 40
175237 ATTTAATAAT
* *
175247 ATTTA-AATATATTTAATTTAATATTTTATTTTA-AATTAAA
1 ATTTATAAT-TATTTAAATTAA-ATTATATTTTATAATTAAA
175287 ATTTATAATTATTTAAATTAAATTATATTTTATAATTAAA
1 ATTTATAATTATTTAAATTAAATTATATTTTATAATTAAA
*
175327 TTTTAT
1 ATTTAT
175333 TTTTATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
39 10 0.24
40 28 0.68
41 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
ATTTATAATTATTTAAATTAAATTATATTTTATAATTAAA
Found at i:175295 original size:27 final size:28
Alignment explanation
Indices: 175265--175370 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 28
175255 ATATTTAATT
175265 TAATATTTTA-TTTTAAATTAAAATTTA
1 TAATATTTTATTTTTAAATTAAAATTTA
** * *
175292 TAAT-TATTTA-AATTAAATTATATTTTA
1 TAATAT-TTTATTTTTAAATTAAAATTTA
175319 TAATTAAATTTTATTTTTATAATATAAAA--TA
1 TAA-T--ATTTTATTTTTA-AAT-TAAAATTTA
*
175350 -AAAATTTTATTTTTAAATTAA
1 TAATATTTTATTTTTAAATTAA
175371 TAAAAAATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 4 0.06
27 36 0.58
28 1 0.02
30 6 0.10
31 6 0.10
32 3 0.05
33 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TAATATTTTATTTTTAAATTAAAATTTA
Found at i:175338 original size:26 final size:27
Alignment explanation
Indices: 175324--175391 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
175314 TTTTATAATT
175324 AAATTTTATTTTTATAATATAAAATAA
1 AAATTTTATTTTTATAATATAAAATAA
*
175351 AAATTTTATTTTTAAATTAATAAAAAATTAA
1 AAATTTTATTTTT--A-TAATATAAAA-TAA
*
175382 AAATATTATT
1 AAATTTTATT
175392 GTATATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 13 0.37
29 1 0.03
30 9 0.26
31 12 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATTTTATTTTTATAATATAAAATAA
Found at i:175931 original size:3 final size:3
Alignment explanation
Indices: 175923--175948 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
175913 TATCAAGAGC
175923 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
175949 TTCTTCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:181072 original size:8 final size:8
Alignment explanation
Indices: 181059--181113 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
181049 TAAATAAATT
181059 TTAATATA
1 TTAATATA
181067 TTAATA-A
1 TTAATATA
*
181074 TTTATATTA
1 TTAATA-TA
*
181083 TATAA-ATT
1 T-TAATATA
181091 TTAATATA
1 TTAATATA
181099 TTAATATA
1 TTAATATA
*
181107 TTTATAT
1 TTAATAT
181114 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
7 9 0.24
8 24 0.63
9 3 0.08
10 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTAATATA
Found at i:181072 original size:18 final size:18
Alignment explanation
Indices: 181051--181109 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
181041 TATATATTTA
181051 AATAAATTTTAATATATT
1 AATAAATTTTAATATATT
181069 AAT-AA--TT--TATATT
1 AATAAATTTTAATATATT
181082 ATATAAATTTTAATATATT
1 A-ATAAATTTTAATATATT
*
181101 AATATATTT
1 AATAAATTT
181110 ATATTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
13 7 0.21
14 2 0.06
15 4 0.12
17 4 0.12
18 10 0.29
19 7 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
AATAAATTTTAATATATT
Found at i:181090 original size:32 final size:33
Alignment explanation
Indices: 181043--181116 Score: 123
Period size: 32 Copynumber: 2.2 Consensus size: 33
181033 TAAAATGTTA
*
181043 TATATTTAAATAAATTTTAATATATTAATA-ATT
1 TATA-TTATATAAATTTTAATATATTAATATATT
181076 TATATTATATAAATTTTAATATATTAATATATT
1 TATATTATATAAATTTTAATATATTAATATATT
181109 TATATTAT
1 TATATTAT
181117 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 24 0.62
33 15 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
TATATTATATAAATTTTAATATATTAATATATT
Found at i:181098 original size:14 final size:14
Alignment explanation
Indices: 181052--181099 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
181042 ATATATTTAA
181052 ATAAATTTTAATAT
1 ATAAATTTTAATAT
*
181066 ATTAATAATTTATATTAT
1 A-T-A-AATTT-TAATAT
181084 ATAAATTTTAATAT
1 ATAAATTTTAATAT
181098 AT
1 AT
181100 TAATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.29
15 6 0.21
16 2 0.07
17 6 0.21
18 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATTTTAATAT
Found at i:181117 original size:17 final size:17
Alignment explanation
Indices: 181065--181164 Score: 65
Period size: 16 Copynumber: 6.2 Consensus size: 17
181055 AATTTTAATA
181065 TATTAATA-ATTTATAT
1 TATTAATATATTTATAT
181081 TATATAA-AT-TTTA-AT
1 TAT-TAATATATTTATAT
181096 ATATTAATATATTTATAT
1 -TATTAATATATTTATAT
* *
181114 TATT-TTTTATTT-TAT
1 TATTAATATATTTATAT
*
181129 ATATT-TTAT-TTTATAT
1 -TATTAATATATTTATAT
*
181145 T-TTAATTATTTTTATAT
1 TATTAA-TATATTTATAT
181162 TAT
1 TAT
181165 ATTTATTTTA
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
14 2 0.03
15 12 0.18
16 32 0.47
17 19 0.28
18 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTAATATATTTATAT
Found at i:181131 original size:33 final size:34
Alignment explanation
Indices: 181056--181161 Score: 116
Period size: 32 Copynumber: 3.3 Consensus size: 34
181046 ATTTAAATAA
**
181056 ATTTTAATATATTAATA-ATTTATATTA-TATAA
1 ATTTTAATATATTAATATATTTATATTATTATTT
*
181088 ATTTTAATATATTAATATATTTATATTATTTTTT
1 ATTTTAATATATTAATATATTTATATTATTATTT
* *
181122 ATTTT-ATATATT-TTAT-TTTATATT-TTAATT
1 ATTTTAATATATTAATATATTTATATTATTATTT
*
181152 ATTTTTATAT
1 ATTTTAATAT
181162 TATATTTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
30 9 0.14
31 12 0.18
32 20 0.31
33 17 0.26
34 7 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (34 bp):
ATTTTAATATATTAATATATTTATATTATTATTT
Found at i:181139 original size:21 final size:21
Alignment explanation
Indices: 181108--181168 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
181098 ATTAATATAT
* *
181108 TTATATTATTTTTTATTTT-A
1 TTATTTTATTTTATATTTTAA
181128 TATATTTTATTTTATATTTTAA
1 T-TATTTTATTTTATATTTTAA
*
181150 TTATTTTTATATTATATTT
1 TTA-TTTTATTTTATATTT
181169 ATTTTACTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
22 16 0.46
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTTATATTTTAA
Found at i:181170 original size:17 final size:16
Alignment explanation
Indices: 181107--181173 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 16
181097 TATTAATATA
*
181107 TTTATATTATTTTTTAT
1 TTTATATTATTTTAT-T
181124 TTTATA-TATTTTA-T
1 TTTATATTATTTTATT
181138 TTTATATT-TTAATTATT
1 TTTATATTATT--TTATT
181155 TTTATATTATATTTATT
1 TTTATATTAT-TTTATT
181172 TT
1 TT
181174 ACTTAAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 9 0.21
15 1 0.02
16 9 0.21
17 22 0.51
18 1 0.02
19 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTATATTATTTTATT
Found at i:181627 original size:24 final size:24
Alignment explanation
Indices: 181591--181649 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
181581 TTCTATTTAT
181591 ATTTTTTTAATA-TTAATTTAA-A
1 ATTTTTTTAATATTTAATTTAATA
*
181613 ATTTTTTTATCATATTTATTTTAATA
1 ATTTTTTTA--ATATTTAATTTAATA
*
181639 ATTTATTTAAT
1 ATTTTTTTAAT
181650 TAAATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
24 5 0.16
25 8 0.26
26 9 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTTTAATATTTAATTTAATA
Found at i:182068 original size:19 final size:20
Alignment explanation
Indices: 182044--182088 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
182034 CTTGTCTACC
182044 TTTTTATTAAAATAA-TAAA
1 TTTTTATTAAAATAATTAAA
**
182063 TTTTTATTATCATAATTAAA
1 TTTTTATTAAAATAATTAAA
182083 TTTTTA
1 TTTTTA
182089 AAAGTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTATTAAAATAATTAAA
Found at i:182111 original size:13 final size:14
Alignment explanation
Indices: 182079--182113 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
182069 TTATCATAAT
182079 TAAATTTTTAAAAG
1 TAAATTTTTAAAAG
*
182093 TTAATTTTTAAAA-
1 TAAATTTTTAAAAG
182106 TAAATTTT
1 TAAATTTT
182114 CTTAAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
TAAATTTTTAAAAG
Found at i:182165 original size:15 final size:15
Alignment explanation
Indices: 182145--182195 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
182135 ACTTTTATTT
182145 TTTAAAAAATTTATA
1 TTTAAAAAATTTATA
* *
182160 TTT--AAAATTAATT
1 TTTAAAAAATTTATA
182173 TTTAAAAAATTTA-A
1 TTTAAAAAATTTATA
182187 TTATAAAAA
1 TT-TAAAAA
182196 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
15 16 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAAAAATTTATA
Found at i:182182 original size:28 final size:29
Alignment explanation
Indices: 182143--182199 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
182133 TCACTTTTAT
182143 TTTTTAAAAAATTTATATT-T-AAAATTAA
1 TTTTTAAAAAATTTA-ATTATAAAAATTAA
182171 TTTTTAAAAAATTTAATTATAAAAATTAA
1 TTTTTAAAAAATTTAATTATAAAAATTAA
182200 AAAATATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 3 0.11
28 16 0.59
29 8 0.30
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTTTAAAAAATTTAATTATAAAAATTAA
Found at i:182188 original size:16 final size:16
Alignment explanation
Indices: 182138--182188 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 16
182128 TAGAATCACT
*
182138 TTTATTTTTTAAAAAA
1 TTTAATTTTTAAAAAA
*
182154 TTT-ATATTT--AAAA
1 TTTAATTTTTAAAAAA
182167 -TTAATTTTTAAAAAA
1 TTTAATTTTTAAAAAA
182182 TTTAATT
1 TTTAATT
182189 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
12 2 0.07
13 9 0.32
15 8 0.29
16 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTAATTTTTAAAAAA
Found at i:182861 original size:2 final size:2
Alignment explanation
Indices: 182856--182884 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
182846 TCCTAAATTT
182856 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 T
182885 TTATGTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:183051 original size:20 final size:21
Alignment explanation
Indices: 183023--183066 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
183013 AGTAAATGTT
183023 AAAAATTAT-TTTTAT-ATTA
1 AAAAATTATGTTTTATAATTA
*
183042 AAAAATTTATGTTTTTTAATTA
1 AAAAA-TTATGTTTTATAATTA
183064 AAA
1 AAA
183067 TTTGAATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 4 0.19
21 5 0.24
22 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AAAAATTATGTTTTATAATTA
Found at i:184646 original size:29 final size:29
Alignment explanation
Indices: 184614--184675 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
184604 CTTTGTGCTA
* *
184614 TAAAAAAAATATTTTAGTTTTTGTATTAT
1 TAAAAAAAATATTTTAATTTTTATATTAT
*** *
184643 TAAATTTAATATTTTAATTTTTATATTTT
1 TAAAAAAAATATTTTAATTTTTATATTAT
184672 TAAA
1 TAAA
184676 TTTATAATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
TAAAAAAAATATTTTAATTTTTATATTAT
Found at i:184659 original size:14 final size:14
Alignment explanation
Indices: 184637--184679 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
184627 TTAGTTTTTG
184637 TATTATTAAATTTAA
1 TATT-TTAAATTTAA
* *
184652 TATTTTAATTTTTA
1 TATTTTAAATTTAA
184666 TATTTTTAAATTTA
1 TA-TTTTAAATTTA
184680 TAATAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTTTAAATTTAA
Found at i:184676 original size:29 final size:29
Alignment explanation
Indices: 184621--184679 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
184611 CTATAAAAAA
* *
184621 AATATTTTAGTTTTTGTATTATTAAATTT
1 AATATTTTAATTTTTATATTATTAAATTT
*
184650 AATATTTTAATTTTTATATTTTTAAATTT
1 AATATTTTAATTTTTATATTATTAAATTT
184679 A
1 A
184680 TAATAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (29 bp):
AATATTTTAATTTTTATATTATTAAATTT
Found at i:184733 original size:22 final size:22
Alignment explanation
Indices: 184708--184760 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
184698 TTAATAGTAT
*
184708 TAAAAAATTATTTGAATGT-TAA
1 TAAAAAATTATTT-AATATATAA
** *
184730 TAAAATTTTATTTATTATATAA
1 TAAAAAATTATTTAATATATAA
184752 TAAAAAATT
1 TAAAAAATT
184761 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
TAAAAAATTATTTAATATATAA
Found at i:184763 original size:24 final size:23
Alignment explanation
Indices: 184731--184779 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
184721 GAATGTTAAT
*
184731 AAAATTTT-ATTTATTATATAATAA
1 AAAATTTTAAATT-TTATATAA-AA
184755 AAAATTTTAAATTTTATATAAAA
1 AAAATTTTAAATTTTATATAAAA
184778 AA
1 AA
184780 TGACCTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 16 0.70
25 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATTTTAAATTTTATATAAAA
Found at i:184889 original size:21 final size:19
Alignment explanation
Indices: 184854--184913 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 19
184844 GTGAAACATC
*
184854 AATAA-TTTATTAATATTT
1 AATAATTTTTTTAATATTT
184872 AAATAATTTTTTTTAATATCGTT
1 -AATAA-TTTTTTTAATAT--TT
184895 AATAATTTTTTTAATATTT
1 AATAATTTTTTTAATATTT
184914 TAAAAATACA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 7 0.19
21 22 0.61
22 5 0.14
23 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
AATAATTTTTTTAATATTT
Found at i:185154 original size:20 final size:20
Alignment explanation
Indices: 185126--185165 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
185116 GCCTTTGATA
185126 TTATATATTTTATAA-TAATT
1 TTATATATTTT-TAATTAATT
*
185146 TTATTTATTTTTAATTAATT
1 TTATATATTTTTAATTAATT
185166 AAACTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATATATTTTTAATTAATT
Found at i:185194 original size:19 final size:19
Alignment explanation
Indices: 185134--185197 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
185124 TATTATATAT
* *
185134 TTTATAATAATTTTATTTATT
1 TTTA-AATAATTTTACTTA-A
* **
185155 TTTAATTAATTAAAC-TAA
1 TTTAAATAATTTTACTTAA
185173 TTTAAATAATTTTACTTAA
1 TTTAAATAATTTTACTTAA
185192 TTTAAA
1 TTTAAA
185198 ACATTAATTC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 12 0.35
19 11 0.32
20 7 0.21
21 4 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAATAATTTTACTTAA
Found at i:185337 original size:26 final size:26
Alignment explanation
Indices: 185308--185367 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
185298 ATGTTATAAA
185308 TATATTAATTTAAGATATT-ATATATT
1 TATATTAATTTAAGATATTAATA-ATT
* * *
185334 TATATAAATTTAATATGTTAATAATT
1 TATATTAATTTAAGATATTAATAATT
185360 TATATTAA
1 TATATTAA
185368 ATAAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.90
27 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (26 bp):
TATATTAATTTAAGATATTAATAATT
Found at i:185392 original size:18 final size:16
Alignment explanation
Indices: 185358--185470 Score: 57
Period size: 18 Copynumber: 6.2 Consensus size: 16
185348 ATGTTAATAA
*
185358 TTTATATTAAATAAATTT
1 TTTATATT--ATATATTT
185376 TTTATATTCATATAATTAT
1 TTTATATT-ATAT-ATT-T
*
185395 ATTATATT-TATATTTT
1 TTTATATTATATA-TTT
185411 TTATATATTATATATTTTAT
1 TT-TATATTATATA--TT-T
* *
185431 TTTATATCATAATTATAT
1 TTTATATTAT-A-TATTT
185449 TTTATATTATATTTATTT
1 TTTATATTATA--TATTT
185467 TTTA
1 TTTA
185471 AAAAAAAATA
Statistics
Matches: 77, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
16 3 0.04
17 15 0.19
18 34 0.44
19 19 0.25
20 4 0.05
21 2 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATATTATATATTT
Found at i:185400 original size:5 final size:5
Alignment explanation
Indices: 185377--185465 Score: 51
Period size: 5 Copynumber: 17.4 Consensus size: 5
185367 AATAAATTTT
* *
185377 TTATA TTCATA -TA-A TTATA TTATA TTTATA TTTTT TATATA TTATA
1 TTATA TT-ATA TTATA TTATA TTATA -TTATA TTATA T-TATA TTATA
* * *
185423 -TATT TTATT TTATA TCATAA TTATA TTTTATA TTATA TT-TA TT
1 TTATA TTATA TTATA TTAT-A TTATA --TTATA TTATA TTATA TT
185466 TTTTAAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
3 1 0.01
4 10 0.15
5 36 0.54
6 15 0.22
7 5 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:185404 original size:25 final size:25
Alignment explanation
Indices: 185322--185464 Score: 89
Period size: 26 Copynumber: 5.6 Consensus size: 25
185312 TTAATTTAAG
*
185322 ATATTATATATTTATATAAATT-TAAT
1 ATATT-TATATTTATAT-AATTATATT
* * * *
185348 ATGTTAATAATTTATATTAAATAAATT
1 ATATTTAT-ATTTATA-TAATTATATT
*
185375 -T-TTTATATTCATATAATTATATT
1 ATATTTATATTTATATAATTATATT
*
185398 ATATTTATATTTTTTATATATTATA-T
1 ATATTTATA-TTTATATA-ATTATATT
*
185424 AT-TTTATTTTATATCATAATTATATT
1 ATATTTATATT-TAT-ATAATTATATT
*
185450 TTATATTATATTTAT
1 ATAT-TTATATTTAT
185465 TTTTTAAAAA
Statistics
Matches: 90, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
23 8 0.09
24 9 0.10
25 25 0.28
26 29 0.32
27 13 0.14
28 6 0.07
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (25 bp):
ATATTTATATTTATATAATTATATT
Found at i:185436 original size:41 final size:41
Alignment explanation
Indices: 185391--185470 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
185381 ATTCATATAA
* * *
185391 TTATATTATATTTATATTTTTTA-TATATTATATATTTTATT
1 TTATATCATAATTATATTTTATATTATATT-TATATTTTATT
*
185432 TTATATCATAATTATATTTTATATTATATTTATTTTTTA
1 TTATATCATAATTATATTTTATATTATATTTATATTTTA
185471 AAAAAAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 28 0.82
42 6 0.18
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (41 bp):
TTATATCATAATTATATTTTATATTATATTTATATTTTATT
Found at i:185446 original size:16 final size:17
Alignment explanation
Indices: 185426--185467 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
185416 TATTATATAT
185426 TTTATTTTATATCATAA
1 TTTATTTTATATCATAA
*
185443 TTATATTTTATATTAT-A
1 TT-TATTTTATATCATAA
185460 TTTATTTT
1 TTTATTTT
185468 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 5 0.22
18 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTTTATATCATAA
Found at i:185447 original size:23 final size:22
Alignment explanation
Indices: 185395--185460 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
185385 ATATAATTAT
*
185395 ATTATATTTATATTTTTTATATA
1 ATTATATTT-TATTTTATATATA
*
185418 TTATATATTTTATTTTATATCATA
1 AT-TATATTTTATTTTATAT-ATA
*
185442 ATTATATTTTATATTATAT
1 ATTATATTTTATTTTATAT
185461 TTATTTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 26 0.70
24 11 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATTTTATTTTATATATA
Found at i:186960 original size:18 final size:18
Alignment explanation
Indices: 186937--186975 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
186927 ATATACTTAT
186937 AATATAATTTA-AAAATTA
1 AATAT-ATTTATAAAATTA
*
186955 AATATATTTATTAAATTA
1 AATATATTTATAAAATTA
186973 AAT
1 AAT
186976 TAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATTTATAAAATTA
Found at i:187473 original size:11 final size:11
Alignment explanation
Indices: 187457--187609 Score: 65
Period size: 11 Copynumber: 14.1 Consensus size: 11
187447 TGATAATTTG
187457 TATATTTATAT
1 TATATTTATAT
187468 TATATTTAT-T
1 TATATTTATAT
* **
187478 TTTATAAAATAAT
1 TATAT-TTAT-AT
*
187491 TATATTTAAAT
1 TATATTTATAT
187502 TATTATTTAT-T
1 TA-TATTTATAT
187513 TATA--TATAT
1 TATATTTATAT
*
187522 T-T-TTGATAAAT
1 TATATT--TATAT
187533 TAATAATTTATAT
1 T-AT-ATTTATAT
* *
187546 TATA-TAAAAT
1 TATATTTATAT
*
187556 T-TA-ATATATT
1 TATATTTATA-T
*
187566 TATATTTATAA
1 TATATTTATAT
*
187577 CATATTTA-AT
1 TATATTTATAT
*
187587 TATTTTTATAT
1 TATATTTATAT
187598 TATATTTATAT
1 TATATTTATAT
187609 T
1 T
187610 TTTTATAATG
Statistics
Matches: 103, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
8 4 0.04
9 6 0.06
10 21 0.20
11 46 0.45
12 13 0.13
13 11 0.11
15 2 0.02
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (11 bp):
TATATTTATAT
Found at i:187483 original size:17 final size:17
Alignment explanation
Indices: 187461--187519 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
187451 AATTTGTATA
187461 TTTATATTATATTTATT
1 TTTATATTATATTTATT
** * *
187478 TTTATAAAATAATTATA
1 TTTATATTATATTTATT
*
187495 TTTAAATTATTATTTATT
1 TTTATATTA-TATTTATT
*
187513 TATATAT
1 TTTATAT
187520 ATTTTTGATA
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATTATATTTATT
Found at i:187583 original size:26 final size:25
Alignment explanation
Indices: 187532--187602 Score: 92
Period size: 24 Copynumber: 2.8 Consensus size: 25
187522 TTTTGATAAA
187532 TTAATA-ATTTATATTATATAAAAT
1 TTAATATATTTATATTATATAAAAT
187556 TTAATATATTTATATT-TATAACATAT
1 TTAATATATTTATATTATATAA-A-AT
*
187582 TTAATTATTTTTATATTATAT
1 TTAA-TATATTTATATTATAT
187603 TTATATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
24 11 0.27
25 10 0.24
26 6 0.15
27 11 0.27
28 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATATATTTATATTATATAAAAT
Found at i:187594 original size:21 final size:20
Alignment explanation
Indices: 187565--187617 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
187555 TTTAATATAT
*
187565 TTATATTTATAACATATTTAA
1 TTATTTTTATAACATATTT-A
**
187586 TTATTTTTATATTATATTTA
1 TTATTTTTATAACATATTTA
187606 -TATTTTTTATAA
1 TTA-TTTTTATAA
187618 TGATATCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.07
20 9 0.33
21 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATTTTTATAACATATTTA
Found at i:188138 original size:19 final size:18
Alignment explanation
Indices: 188114--188224 Score: 74
Period size: 19 Copynumber: 6.3 Consensus size: 18
188104 TAAGCTTAAA
188114 ATTTATATAATTGTATTAT
1 ATTTATATAATT-TATTAT
* * *
188133 ATTTATTTAATATGATTTT
1 ATTTATATAAT-TTATTAT
*
188152 ATTTAAAT-A-TTA-TAT
1 ATTTATATAATTTATTAT
*
188167 ATTTATATAAATTT-TAAT
1 ATTTATAT-AATTTATTAT
188185 ATATTA-AT-ATTT-TTAT
1 AT-TTATATAATTTATTAT
*
188201 ATTATATATATTTTATTAT
1 ATT-TATATAATTTATTAT
188220 ATTTA
1 ATTTA
188225 ATACTTATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
15 10 0.14
16 13 0.18
17 3 0.04
18 14 0.20
19 30 0.42
20 1 0.01
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTTATATAATTTATTAT
Found at i:188201 original size:14 final size:14
Alignment explanation
Indices: 188158--188216 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
188148 TTTTATTTAA
*
188158 ATATT-ATATATTT
1 ATATTAATATTTTT
188171 ATA-TAA-ATTTTAAT
1 ATATTAATATTTT--T
188185 ATATTAATATTTTT
1 ATATTAATATTTTT
188199 ATATTATATATATTTT
1 ATATTA-ATAT-TTTT
188215 AT
1 AT
188217 TATATTTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 5 0.13
13 4 0.11
14 11 0.29
15 7 0.18
16 11 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTAATATTTTT
Found at i:188206 original size:33 final size:33
Alignment explanation
Indices: 188164--188273 Score: 93
Period size: 33 Copynumber: 3.3 Consensus size: 33
188154 TTAAATATTA
188164 TATATTTATATAAATTTTAATATATTAATATTTT
1 TATA-TTATATAAATTTTAATATATTAATATTTT
* *
188198 TATATTATATATATTTTATTATATTTAATACTTATT
1 TATATTATATAAATTTTAATATA-TTAATA-TT-TT
* * *
188234 T-TATTATTTAATACTGTAATAT-TT-ATA-TTT
1 TATATTATATAA-ATTTTAATATATTAATATTTT
*
188264 TATTTTATAT
1 TATATTATAT
188274 TTTAATTATT
Statistics
Matches: 62, Mismatches: 9, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
30 3 0.05
31 7 0.11
33 20 0.32
34 12 0.19
35 10 0.16
36 10 0.16
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (33 bp):
TATATTATATAAATTTTAATATATTAATATTTT
Found at i:188217 original size:14 final size:15
Alignment explanation
Indices: 188184--188221 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
188174 TAAATTTTAA
*
188184 TATATTA-ATATTTT
1 TATATTATATATATT
188198 TATATTATATATATT
1 TATATTATATATATT
188213 T-TATTATAT
1 TATATTATAT
188222 TTAATACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATTATATATATT
Found at i:188232 original size:16 final size:15
Alignment explanation
Indices: 188132--188238 Score: 58
Period size: 16 Copynumber: 6.6 Consensus size: 15
188122 AATTGTATTA
188132 TATT-TATTTAATAT
1 TATTATATTTAATAT
* *
188146 GATTTTATTTAAATAT
1 TATTATATTT-AATAT
188162 TA-TATATTTATATAAAT
1 TATTATATTTA-AT--AT
188179 T-TTAATATATTAATAT
1 TATT-ATAT-TTAATAT
*
188195 TTTTATATTATATATATTT
1 TATTATATT-TA-ATA--T
188214 TATTATATTTAATACT
1 TATTATATTTAATA-T
*
188230 TATTTTATT
1 TATTATATT
188239 ATTTAATACT
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
14 4 0.05
15 14 0.19
16 24 0.32
17 12 0.16
18 8 0.11
19 12 0.16
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (15 bp):
TATTATATTTAATAT
Found at i:188241 original size:19 final size:21
Alignment explanation
Indices: 188209--188248 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
188199 ATATTATATA
188209 TATTTTATTATATTTAATACT
1 TATTTTATTATATTTAATACT
188230 TATTTTA-T-TATTTAATACT
1 TATTTTATTATATTTAATACT
188249 GTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 1 0.05
21 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATTATATTTAATACT
Found at i:190188 original size:19 final size:19
Alignment explanation
Indices: 190156--190212 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
190146 TTTTATAAAA
*
190156 AAATCACTTATTTATTTTTT
1 AAATCAATT-TTTATTTTTT
190176 AAATCAATTTTTATTTTTT
1 AAATCAATTTTTATTTTTT
***
190195 CTTTC-ATTTTTATTTTTT
1 AAATCAATTTTTATTTTTT
190213 CATAGTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.39
19 12 0.36
20 8 0.24
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.67
Consensus pattern (19 bp):
AAATCAATTTTTATTTTTT
Found at i:192833 original size:2 final size:2
Alignment explanation
Indices: 192826--192859 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
192816 GCAGAAAATA
192826 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
192860 CAATGTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193332 original size:2 final size:2
Alignment explanation
Indices: 193327--193358 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
193317 GTTTTTTCTT
193327 TA TA 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 TA TA
193359 ACAATTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:198725 original size:19 final size:19
Alignment explanation
Indices: 198703--198739 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
198693 AAAAAGAGAG
198703 TCATATGTTTATACTCATA
1 TCATATGTTTATACTCATA
198722 TCATATGTTTATACTCAT
1 TCATATGTTTATACTCAT
198740 GTTTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (19 bp):
TCATATGTTTATACTCATA
Found at i:201444 original size:20 final size:21
Alignment explanation
Indices: 201406--201449 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
201396 AAGATTACAT
201406 ATTTTATAATAATTTTATTTA
1 ATTTTATAATAATTTTATTTA
201427 ATTTT-TAACTAA-TTTATTTA
1 ATTTTATAA-TAATTTTATTTA
201447 ATT
1 ATT
201450 ATATTAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTATAATAATTTTATTTA
Found at i:201695 original size:26 final size:26
Alignment explanation
Indices: 201666--201717 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
201656 ATTAATAAAT
*
201666 TTATATTATATT-TATATTATTTTTTA
1 TTATA-TATATTATATATTATATTTTA
*
201692 TTATATATATTATATCTTATATTTTA
1 TTATATATATTATATATTATATTTTA
201718 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (26 bp):
TTATATATATTATATATTATATTTTA
Found at i:201714 original size:21 final size:20
Alignment explanation
Indices: 201665--201714 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
201655 TATTAATAAA
201665 TTTATATTATATTTATATTAT
1 TTTATATTATA-TTATATTAT
*
201686 TTTTTATTATA-TATATTAT
1 TTTATATTATATTATATTAT
201705 ATCTTATATT
1 -T-TTATATT
201715 TTAATAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 8 0.32
20 1 0.04
21 16 0.64
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTATATTATATTATATTAT
Found at i:201725 original size:37 final size:35
Alignment explanation
Indices: 201655--201726 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
201645 AAATTTGATA
*
201655 TATTAATAAATTTATATTATATTTATATTATTTTT
1 TATTAATAAATTTATATTATATTTATATAATTTTT
* *
201690 TATTATATATATTATATCTTATATTT-TAATAATTTTT
1 TATTA-ATAAATT-TATATTATATTTAT-ATAATTTTT
201727 ATATGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 5 0.16
36 7 0.23
37 19 0.61
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (35 bp):
TATTAATAAATTTATATTATATTTATATAATTTTT
Found at i:201730 original size:17 final size:17
Alignment explanation
Indices: 201708--201748 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
201698 ATATTATATC
201708 TTATATTTTAATAATTT
1 TTATATTTTAATAATTT
* *
201725 TTATATGTTAATTATTT
1 TTATATTTTAATAATTT
*
201742 TCATATT
1 TTATATT
201749 ATAAAAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TTATATTTTAATAATTT
Found at i:202455 original size:29 final size:29
Alignment explanation
Indices: 202418--202478 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
202408 TAGTATAGTG
202418 AAATCAAATATTTTAATTTTTATATTATT
1 AAATCAAATATTTTAATTTTTATATTATT
* * *
202447 AAATTAAATATTTTAATTTTTGTATTTTT
1 AAATCAAATATTTTAATTTTTATATTATT
202476 AAA
1 AAA
202479 ATTTAACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (29 bp):
AAATCAAATATTTTAATTTTTATATTATT
Found at i:203416 original size:2 final size:2
Alignment explanation
Indices: 203404--203434 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
203394 TACCTAGATG
203404 AT AT CAT 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
203435 GAATACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:205765 original size:19 final size:18
Alignment explanation
Indices: 205737--205774 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
205727 TTTATAATAA
205737 TAATTTATTTAATTAAAT
1 TAATTTATTTAATTAAAT
*
205755 TAATATTATTTAATTTAAT
1 TAAT-TTATTTAATTAAAT
205774 T
1 T
205775 GACACATCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTTATTTAATTAAAT
Found at i:205945 original size:32 final size:33
Alignment explanation
Indices: 205903--205964 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
205893 TAAGATGTTA
*
205903 TATATTTATATAAATTTTGATATATTAATAATT
1 TATATTTATATAAATTTTAATATATTAATAATT
205936 TATA-TTATATAAATTTTAATATATTAATA
1 TATATTTATATAAATTTTAATATATTAATA
205965 TTGTATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (33 bp):
TATATTTATATAAATTTTAATATATTAATAATT
Found at i:206001 original size:87 final size:89
Alignment explanation
Indices: 205898--206073 Score: 232
Period size: 87 Copynumber: 2.0 Consensus size: 89
205888 TTATTTAAGA
* * *
205898 TGTTATATATTTATATAAATTTTGATATATTAATAATTTATATTATATAAATTTTAATAT-ATTA
1 TGTTATATAATTATATAAATTTTGATACATTAATAATTCATATTATATAAATTTTAATATGATTA
*
205962 -ATATT-GTATTATATTATATTTT
66 TATATTCATATTATATTATATTTT
* * * * *
205984 TGTTGATATAATTATATAAATTTTGATACGTTCATAATTCATATTTTATAAATTTTTATATGTTT
1 TGTT-ATATAATTATATAAATTTTGATACATTAATAATTCATATTATATAAATTTTAATATGATT
*
206049 ATATATTCATATTGTATTATATTTT
65 ATATATTCATATTATATTATATTTT
206074 ATATAATATT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
86 4 0.05
87 49 0.64
88 3 0.04
89 5 0.07
90 15 0.20
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (89 bp):
TGTTATATAATTATATAAATTTTGATACATTAATAATTCATATTATATAAATTTTAATATGATTA
TATATTCATATTATATTATATTTT
Found at i:206038 original size:32 final size:33
Alignment explanation
Indices: 205998--206061 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
205988 GATATAATTA
205998 TATAAATTTTGATACGTTCATA-ATTCATATTT
1 TATAAATTTTGATACGTTCATATATTCATATTT
* * *
206030 TATAAATTTTTATATGTTTATATATTCATATT
1 TATAAATTTTGATACGTTCATATATTCATATT
206062 GTATTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (33 bp):
TATAAATTTTGATACGTTCATATATTCATATTT
Found at i:206074 original size:33 final size:31
Alignment explanation
Indices: 205998--206077 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
205988 GATATAATTA
* *
205998 TATAAATTTTGATACGTTCATAATTCATATTT
1 TATAAATTTT-ATATGTTCATAATTCATATTG
*
206030 TATAAATTTTTATATGTTTATATATTCATATTG
1 TATAAA-TTTTATATGTTCATA-ATTCATATTG
*
206063 TATTATATTTTATAT
1 TA-TAAATTTTATAT
206078 AATATTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 15 0.37
33 23 0.56
34 3 0.07
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (31 bp):
TATAAATTTTATATGTTCATAATTCATATTG
Found at i:206090 original size:23 final size:23
Alignment explanation
Indices: 206018--206126 Score: 74
Period size: 23 Copynumber: 5.0 Consensus size: 23
206008 GATACGTTCA
206018 TAATTCATATTTTATA-AAT-TTT
1 TAATT-ATATTTTATATAATATTT
* * *
206040 T-A-TATGTTTATATATTCATATTG
1 TAATTATATTT-TATA-TAATATTT
206063 T-ATTATATTTTATATAATATTT
1 TAATTATATTTTATATAATATTT
206085 TAATTA-ATTTTTATATAATA---
1 TAATTATA-TTTTATATAATATTT
* *
206105 TAATCATATTATATATAATATT
1 TAATTATATTTTATATAATATT
206127 ACTGAATAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
19 5 0.07
20 21 0.30
21 2 0.03
22 11 0.16
23 24 0.35
24 6 0.09
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.57
Consensus pattern (23 bp):
TAATTATATTTTATATAATATTT
Found at i:206103 original size:11 final size:12
Alignment explanation
Indices: 206067--206105 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
206057 ATATTGTATT
206067 ATATTTTATATA
1 ATATTTTATATA
206079 ATATTTTA-ATTA
1 ATATTTTATA-TA
206091 AT-TTTTATATA
1 ATATTTTATATA
206102 ATAT
1 ATAT
206106 AATCATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATATTTTATATA
Found at i:206888 original size:18 final size:17
Alignment explanation
Indices: 206832--206889 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
206822 TTATTTTTAA
*
206832 AATTTTATATTTATTAT
1 AATTTTATTTTTATTAT
*
206849 -TTTTTATTTTTAATTA-
1 AATTTTATTTTT-ATTAT
206865 ATATTTTATTTTTATCTAT
1 A-ATTTTATTTTTAT-TAT
206884 AATTTT
1 AATTTT
206890 TAAAATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.27
17 6 0.18
18 17 0.52
19 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
AATTTTATTTTTATTAT
Found at i:207082 original size:17 final size:18
Alignment explanation
Indices: 207057--207096 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
207047 ATTTATTTTA
*
207057 TTTAAATAAAAT-TAATT
1 TTTATATAAAATATAATT
*
207074 TTTATATAAAATATATTT
1 TTTATATAAAATATAATT
207092 TTTAT
1 TTTAT
207097 TATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATATAAAATATAATT
Found at i:208626 original size:259 final size:258
Alignment explanation
Indices: 208166--208675 Score: 754
Period size: 259 Copynumber: 2.0 Consensus size: 258
208156 CATCAAATGC
* *
208166 GATTTGGAAGGTCAGCATCTACTACTATCATTTTTTAATGATTTTTTAATTTGTTAAATTAATGG
1 GATTTGGAAGGTCAGCATCTACTACTATCATTTTTCAATGATTTTTTAATTTGTTAAATTAATAG
* * * *
208231 ATCATATTTGATTTACGTGTATAATAATAAATCATATCATATTATTTTATTAAAATAAAAATTAT
66 ATCATATTCGATTTACGTGTATAATAATAAACCAGATCATATTATCTTATTAAAATAAAAATTAT
* * * *
208296 TTATAATTATTTTTTGAAAACTTTTAATTAATGAAATAATTTAATTAATTAACAGTGATAAATTT
131 TTATAATTATTTTTTAAAAACCTTTAATGAATGAAATAATTTAATTAATTAACAGTAATAAATTT
* *
208361 ATAAACTATAGTATTAAATATAAATTTTAAATTAAATATATAGATTTTTTTATCTTATAAAAAAA
196 ATAAACTAT--TATCAAATATAAATTTTAAATTAAATATATAGATATTTTTATCTTATAAAAAAA
* * *
208426 GATTTGGAAGGTTAGCATTTACTAGTAT-ATTTTTCAATGATTTTTTAATTTGTTAAATTAATAG
1 GATTTGGAAGGTCAGCATCTACTACTATCATTTTTCAATGATTTTTTAATTTGTTAAATTAATAG
* * *
208490 ATTATATTCGATTTACGTGTATTATCAGTAAACCAGATCATATTATCTTATTAAAATAAAAATTA
66 ATCATATTCGATTTACGTGTATAAT-AATAAACCAGATCATATTATCTTATTAAAATAAAAATTA
* * * * *
208555 TTTTTAATTA-TTTTTAAAAACCTTTACTGAATGAGATGATTTAGTTAATTAACAGTAATAAATT
130 TTTATAATTATTTTTTAAAAACCTTTAATGAATGAAATAATTTAATTAATTAACAGTAATAAATT
* *
208619 TATAAACTGTTATCAAATATAAATTTTAAATTAAATATATCGATATTTTTATCTTAT
195 TATAAACTATTATCAAATATAAATTTTAAATTAAATATATAGATATTTTTATCTTAT
208676 CAGCCTTAAT
Statistics
Matches: 224, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
257 44 0.20
259 111 0.50
260 69 0.31
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.45
Consensus pattern (258 bp):
GATTTGGAAGGTCAGCATCTACTACTATCATTTTTCAATGATTTTTTAATTTGTTAAATTAATAG
ATCATATTCGATTTACGTGTATAATAATAAACCAGATCATATTATCTTATTAAAATAAAAATTAT
TTATAATTATTTTTTAAAAACCTTTAATGAATGAAATAATTTAATTAATTAACAGTAATAAATTT
ATAAACTATTATCAAATATAAATTTTAAATTAAATATATAGATATTTTTATCTTATAAAAAAA
Found at i:209622 original size:23 final size:22
Alignment explanation
Indices: 209596--209646 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
209586 TATTAATATG
*
209596 AAATATATATAATTAT-ATTATAA
1 AAATATAAAT-ATTATAATTA-AA
*
209619 AAATATAAATTTTATAATTAAA
1 AAATATAAATATTATAATTAAA
209641 AAATAT
1 AAATAT
209647 TATTCGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATATAAATATTATAATTAAA
Found at i:211596 original size:44 final size:44
Alignment explanation
Indices: 211548--211638 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
211538 ATTTACTTTA
*
211548 TTTTATTTATTTCATAAATGACGGAAGCAGGTAAAAGTGGGGAT
1 TTTTATTTATTTCATAAATGACAGAAGCAGGTAAAAGTGGGGAT
211592 TTTTATTTATTTCATAAATGACAGAAGCAGGTAAAAGTGGGGAT
1 TTTTATTTATTTCATAAATGACAGAAGCAGGTAAAAGTGGGGAT
211636 TTT
1 TTT
211639 GGAGATAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (44 bp):
TTTTATTTATTTCATAAATGACAGAAGCAGGTAAAAGTGGGGAT
Found at i:212009 original size:2 final size:2
Alignment explanation
Indices: 212002--212027 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
211992 GTTTTTCTTA
212002 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
212028 TAATTTGCAA
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:213399 original size:16 final size:17
Alignment explanation
Indices: 213368--213400 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
213358 CCCTTTTCCA
213368 ATTTCAACTATTTTAAT
1 ATTTCAACTATTTTAAT
*
213385 ATTTCATCT-TTTTAAT
1 ATTTCAACTATTTTAAT
213401 CTTGTTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTCAACTATTTTAAT
Found at i:214530 original size:2 final size:2
Alignment explanation
Indices: 214523--214550 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
214513 ATTATGCAAC
214523 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
214551 GCTGCTAAAT
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:214775 original size:23 final size:24
Alignment explanation
Indices: 214712--214776 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 24
214702 TTAATAAAAT
*
214712 AAAATATTTATTTAAAATTAATTATA
1 AAAATATTT-TTT-ATATTAATTATA
* * *
214738 AAAA-ATATATAATATTAA-TATA
1 AAAATATTTTTTATATTAATTATA
214760 AAAATATTTTTTATATT
1 AAAATATTTTTTATATT
214777 TTAATATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
22 8 0.26
23 15 0.48
24 1 0.03
25 3 0.10
26 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAATATTTTTTATATTAATTATA
Found at i:215978 original size:4 final size:4
Alignment explanation
Indices: 215971--216039 Score: 62
Period size: 4 Copynumber: 18.8 Consensus size: 4
215961 TTTCAGGGAG
*
215971 GAAA GAAA GAAA GAAA GAAA -AAA -AAA GAAA GAAA G--A GAAA G-GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
*
216014 GAAA AAAA G-AA -AAA GAAAA GAAA GAA
1 GAAA GAAA GAAA GAAA G-AAA GAAA GAA
216040 CAAAGAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
2 2 0.04
3 12 0.22
4 36 0.67
5 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Done.