Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 61 of 335
Found at i:21398022 original size:21 final size:21
Alignment explanation
Indices: 21397993--21398047 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 21
21397983 TTTCATTAGT
*
21397993 TATATTTTATATTGATTTGAT-TT
1 TATA-TTTATATT-ATTT-ATATG
*
21398016 TA-ATTTAGATTATTTATATG
1 TATATTTATATTATTTATATG
21398036 TATATTTATATT
1 TATATTTATATT
21398048 TGTGAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 15 0.56
22 1 0.04
23 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (21 bp):
TATATTTATATTATTTATATG
Found at i:21400884 original size:22 final size:22
Alignment explanation
Indices: 21400851--21400894 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
21400841 TGTATGTATG
* *
21400851 TATTTGTATTTAGTCTTTTAAT
1 TATTTGTATTTAATATTTTAAT
21400873 TATTT-TATTTTAATATTTTAAT
1 TATTTGTA-TTTAATATTTTAAT
21400895 GCTATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTTGTATTTAATATTTTAAT
Found at i:21401207 original size:46 final size:44
Alignment explanation
Indices: 21401157--21401319 Score: 146
Period size: 46 Copynumber: 3.7 Consensus size: 44
21401147 ATCATATGTG
21401157 TATATATTATGTAAATATTTTAATATTATATTATATATGTTTTTCA
1 TATATATTATGTAAATATTTTAATATTATATTATATAT-TTTTT-A
* * * *
21401203 TATATGTTATGTAAATA----AA-ATTTTAATAT-TATATTTTA
1 TATATATTATGTAAATATTTTAATATTATATTATATATTTTTTA
21401241 TATATATTAT-TATATATATTTTAATATTATTAGTTATATATTTTTTA
1 TATATATTATGTA-A-ATATTTTAATATTA-TA-TTATATATTTTTTA
*
21401288 TACTAT-TATATGTATAT-TTTTAATATTATATT
1 TA-TATAT-TATGTAAATATTTTAATATTATATT
21401320 GCATATTTCT
Statistics
Matches: 95, Mismatches: 9, Indels: 28
0.72 0.07 0.21
Matches are distributed among these distances:
37 2 0.02
38 11 0.12
39 7 0.07
40 3 0.03
41 8 0.08
42 2 0.02
43 2 0.02
44 5 0.05
45 4 0.04
46 30 0.32
47 13 0.14
48 6 0.06
49 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (44 bp):
TATATATTATGTAAATATTTTAATATTATATTATATATTTTTTA
Found at i:21401259 original size:23 final size:24
Alignment explanation
Indices: 21401232--21401350 Score: 98
Period size: 23 Copynumber: 5.2 Consensus size: 24
21401222 ATTTTAATAT
21401232 TATATTTTATATA-TATTATTATA
1 TATATTTTATATACTATTATTATA
*
21401255 TATATTTTA-ATATTATTAGTTATA
1 TATATTTTATATACTATTA-TTATA
*
21401279 TAT-TTTT-TATACTATTA-TATG
1 TATATTTTATATACTATTATTATA
21401300 TATATTTT-TA-A-TATTA-TAT-
1 TATATTTTATATACTATTATTATA
21401319 TGCATATTTCTA-ATACTATTATTTATA
1 T--ATATTT-TATATACTATTA-TTATA
21401346 TATAT
1 TATAT
21401351 ATATGTGTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.01
20 8 0.10
21 13 0.16
22 11 0.14
23 27 0.33
24 13 0.16
25 4 0.05
26 3 0.04
27 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (24 bp):
TATATTTTATATACTATTATTATA
Found at i:21401278 original size:36 final size:35
Alignment explanation
Indices: 21401222--21401289 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
21401212 TGTAAATAAA
*
21401222 ATTTTAATATTATATTTTATATATATTATTATATAT
1 ATTTTAATATTATATGTTATATAT-TTATTATATAT
*
21401258 ATTTTAATATTAT-TAGTTATATATTTTTTATA
1 ATTTTAATATTATAT-GTTATATATTTATTATA
21401290 CTATTATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 8 0.28
36 21 0.72
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (35 bp):
ATTTTAATATTATATGTTATATATTTATTATATAT
Found at i:21401325 original size:21 final size:21
Alignment explanation
Indices: 21401232--21401346 Score: 76
Period size: 21 Copynumber: 5.2 Consensus size: 21
21401222 ATTTTAATAT
*
21401232 TATA-TTTT-ATATATATTATTA
1 TATATTTTTAATAT-TA-TATTG
*
21401253 TATATATTTTAATATTATTAGTTA
1 TATAT-TTTTAATATTA-TA-TTG
21401277 TATATTTTTTATACTATTATA-TG
1 TATA-TTTTTA-A-TATTATATTG
21401300 TATATTTTTAATATTATATTG
1 TATATTTTTAATATTATATTG
* * *
21401321 CATATTTCTAATACTATTATT-
1 TATATTTTTAATATTA-TATTG
21401342 TATAT
1 TATAT
21401347 ATATATATGT
Statistics
Matches: 80, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
20 7 0.09
21 24 0.30
22 10 0.12
23 14 0.17
24 16 0.20
25 4 0.05
26 5 0.06
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TATATTTTTAATATTATATTG
Found at i:21401531 original size:25 final size:24
Alignment explanation
Indices: 21401472--21401532 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
21401462 TTACTAGTTA
*
21401472 TATATAGTTCTTATACATTTCCATG
1 TATATA-TTTTTATACATTTCCATG
* *
21401497 TACATATTTTTATACCATTT-TATG
1 TATATATTTTTATA-CATTTCCATG
21401521 TATATATTTTTA
1 TATATATTTTTA
21401533 AATACTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (24 bp):
TATATATTTTTATACATTTCCATG
Found at i:21401545 original size:26 final size:24
Alignment explanation
Indices: 21401494--21401553 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
21401484 ATACATTTCC
* *
21401494 ATGTACATATTTTTATACCATTTT
1 ATGTATATATTTTTATACCATATT
*
21401518 ATGTATATATTTTTAAATACTATATT
1 ATGTATATATTTTT--ATACCATATT
*
21401544 ATATATATAT
1 ATGTATATAT
21401554 ATATATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 13 0.43
26 17 0.57
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (24 bp):
ATGTATATATTTTTATACCATATT
Found at i:21403033 original size:27 final size:28
Alignment explanation
Indices: 21402966--21403033 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
21402956 ATTTTCAAAC
*
21402966 AATATATAAAA-ATACATAAATATTTAA
1 AATATATAAAATATACATAAATATTAAA
** *
21402993 AATATATATGATATA-ATAAGT-TTAAAA
1 AATATATAAAATATACATAAATATT-AAA
21403020 AATATATAAAATAT
1 AATATATAAAATAT
21403034 TGTTGCCAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 2 0.06
27 28 0.85
28 3 0.09
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
AATATATAAAATATACATAAATATTAAA
Found at i:21403663 original size:16 final size:16
Alignment explanation
Indices: 21403597--21403668 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 16
21403587 AAAACATTTA
21403597 TTTATTTTTATATATT
1 TTTATTTTTATATATT
* *
21403613 TTTAAATTGTATATATT
1 TTT-ATTTTTATATATT
* * *
21403630 ATTTATTGCTAACAATATT
1 -TTTATT-TTTA-TATATT
21403649 TTTATTTTTATATATT
1 TTTATTTTTATATATT
21403665 TTTA
1 TTTA
21403669 AAATATTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
16 12 0.29
17 15 0.36
18 10 0.24
19 5 0.12
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTATTTTTATATATT
Found at i:21411757 original size:16 final size:16
Alignment explanation
Indices: 21411731--21411771 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
21411721 ATATTTTAAA
* *
21411731 TTAATTTTTAATTTTT
1 TTAACTTTTAATTATT
*
21411747 TTTACTTTTAATTATT
1 TTAACTTTTAATTATT
21411763 TTAACTTTT
1 TTAACTTTT
21411772 CTATAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TTAACTTTTAATTATT
Found at i:21419706 original size:2 final size:2
Alignment explanation
Indices: 21419694--21419736 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
21419684 ATAATAAATT
21419694 TA TA T- TA TA TA TA TA T- 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 TA TA TA TA TA
21419734 TA T
1 TA T
21419737 GATAATATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21420170 original size:71 final size:71
Alignment explanation
Indices: 21420055--21420201 Score: 294
Period size: 71 Copynumber: 2.1 Consensus size: 71
21420045 TATTCATTCA
21420055 TTTTTCACATCTCCTTTTTCATTTTTTTTGAATTCAACACATGCCCTATTGAATTCAAATAAATT
1 TTTTTCACATCTCCTTTTTCATTTTTTTTGAATTCAACACATGCCCTATTGAATTCAAATAAATT
21420120 TAAGCT
66 TAAGCT
21420126 TTTTTCACATCTCCTTTTTCATTTTTTTTGAATTCAACACATGCCCTATTGAATTCAAATAAATT
1 TTTTTCACATCTCCTTTTTCATTTTTTTTGAATTCAACACATGCCCTATTGAATTCAAATAAATT
21420191 TAAGCT
66 TAAGCT
21420197 TTTTT
1 TTTTT
21420202 TATAGTTTAC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.05, T:0.48
Consensus pattern (71 bp):
TTTTTCACATCTCCTTTTTCATTTTTTTTGAATTCAACACATGCCCTATTGAATTCAAATAAATT
TAAGCT
Found at i:21421085 original size:21 final size:20
Alignment explanation
Indices: 21421051--21421090 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
21421041 ATTTTACTTC
21421051 ATTTTTTATATTGTGTCTGTG
1 ATTTTTTATATTGT-TCTGTG
* *
21421072 ATTTTTTTTCTTGTTCTGT
1 ATTTTTTATATTGTTCTGT
21421091 TTCCAGGAAA
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:0.10, C:0.07, G:0.15, T:0.68
Consensus pattern (20 bp):
ATTTTTTATATTGTTCTGTG
Found at i:21431179 original size:28 final size:28
Alignment explanation
Indices: 21431092--21431186 Score: 90
Period size: 28 Copynumber: 3.4 Consensus size: 28
21431082 AAAAATTAGT
* *
21431092 GTGCTTATCGT-ATTATTTCGCACTTCG
1 GTGCTTATCGTAATTATTTTGCATTTCG
* *
21431119 GTGCTTATCATTGTAA--AATTTGTACTTT-G
1 GTGCTTATC---GTAATTATTTTGCA-TTTCG
21431148 GTGCTTATCGTAATTATTTTGCATTTCG
1 GTGCTTATCGTAATTATTTTGCATTTCG
21431176 GTGCTTATCGT
1 GTGCTTATCGT
21431187 TATTTGCACT
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
26 4 0.07
27 12 0.22
28 18 0.33
29 15 0.28
30 4 0.07
31 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (28 bp):
GTGCTTATCGTAATTATTTTGCATTTCG
Found at i:21431678 original size:10 final size:9
Alignment explanation
Indices: 21431661--21431695 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
21431651 TTTACTTTTC
21431661 TTTATTTAT
1 TTTATTTAT
21431670 TTTATTTTAT
1 TTTA-TTTAT
21431680 TTTATTTAT
1 TTTATTTAT
21431689 TATTATT
1 T-TTATT
21431696 AAATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:21431800 original size:22 final size:22
Alignment explanation
Indices: 21431775--21431854 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 22
21431765 ATATTCTGAA
21431775 ATTACTTTTTAAAATTTTAAAT
1 ATTACTTTTTAAAATTTTAAAT
*
21431797 ATTATTTTTTAAATTATTTTATTTTGAA-
1 ATTACTTTTTAAA--ATTTTA-----AAT
*
21431825 ATTACTTTTTTAAATTTTAAAT
1 ATTACTTTTTAAAATTTTAAAT
21431847 ATTA-TTTT
1 ATTACTTTT
21431855 GAAATTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
21 6 0.13
22 16 0.34
24 6 0.13
26 6 0.13
28 11 0.23
29 2 0.04
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (22 bp):
ATTACTTTTTAAAATTTTAAAT
Found at i:21431811 original size:34 final size:33
Alignment explanation
Indices: 21431746--21431816 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 33
21431736 TAATCTATAT
21431746 TTTTTAAAATTTTAAATATATATTCTGAAATTA
1 TTTTTAAAATTTTAAATATATATTCTGAAATTA
* *
21431779 CTTTTTAAAATTTTAAATAT-TATTTTTTAAATTA
1 -TTTTTAAAATTTTAAATATATA-TTCTGAAATTA
21431813 TTTT
1 TTTT
21431817 ATTTTGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 6 0.18
34 28 0.82
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (33 bp):
TTTTTAAAATTTTAAATATATATTCTGAAATTA
Found at i:21431819 original size:83 final size:78
Alignment explanation
Indices: 21431712--21431865 Score: 177
Period size: 83 Copynumber: 1.9 Consensus size: 78
21431702 AAAAAAATTA
21431712 AAATATATATTTGAAATATTTTA-TT-AATCTATATTTTTTAAAATTTTAAATATATATTCTGAA
1 AAATATATATTTGAAATATTTTATTTAAAT-TA-ATTTTTT-AAATTTTAAATAT-TATTCTGAA
21431775 ATTACTTTTTAAAATTTT
62 ATTA-TTTTTAAAATTTT
* * * *
21431793 AAATATTATTTTTTAAATTATTTTATTTTGAAATTACTTTTTTAAATTTTAAATATTATTTTGAA
1 AAATA-TATATTTGAAA-TATTTTA-TTT-AAATTAATTTTTTAAATTTTAAATATTATTCTGAA
21431858 ATTATTTT
62 ATTATTTT
21431866 ATTTTGTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
81 5 0.08
82 13 0.21
83 19 0.30
84 13 0.21
85 8 0.13
86 2 0.03
87 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (78 bp):
AAATATATATTTGAAATATTTTATTTAAATTAATTTTTTAAATTTTAAATATTATTCTGAAATTA
TTTTTAAAATTTT
Found at i:21431830 original size:50 final size:49
Alignment explanation
Indices: 21431766--21431871 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 49
21431756 TTTAAATATA
* *
21431766 TATTCTGAAATTACTTTTTAAAATTTTAAATATTATTTTTTAAATTATTT
1 TATTTTGAAATTACTTTTTAAAATTTTAAATATTA-TTTTGAAATTATTT
*
21431816 TATTTTGAAATTACTTTTTTAAATTTTAAATATTATTTTGAAATTATTT
1 TATTTTGAAATTACTTTTTAAAATTTTAAATATTATTTTGAAATTATTT
21431865 TATTTTG
1 TATTTTG
21431872 TTTATTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 20 0.38
50 33 0.62
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (49 bp):
TATTTTGAAATTACTTTTTAAAATTTTAAATATTATTTTGAAATTATTT
Found at i:21431898 original size:22 final size:21
Alignment explanation
Indices: 21431863--21431904 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21431853 TTGAAATTAT
*
21431863 TTTATTTTGTTTATTTATTTA
1 TTTATTTTGTTTATTAATTTA
*
21431884 TTTATTTTTTGTTATTAATTT
1 TTTATTTTGT-TTATTAATTT
21431905 TAAAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTATTTTGTTTATTAATTTA
Found at i:21432112 original size:19 final size:21
Alignment explanation
Indices: 21432088--21432136 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
21432078 TTATTAGTTT
21432088 TTTAA-TATTTTA-AATATTA
1 TTTAATTATTTTATAATATTA
21432107 TTTAATTTATTTTATAATATT-
1 TTTAA-TTATTTTATAATATTA
*
21432128 TTAAATTAT
1 TTTAATTAT
21432137 GATTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 11 0.42
22 6 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTAATTATTTTATAATATTA
Found at i:21432256 original size:15 final size:15
Alignment explanation
Indices: 21432236--21432280 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 15
21432226 AACAAAAAAA
21432236 TAAAAAAATATTTGT
1 TAAAAAAATATTTGT
21432251 TAAAAAAAGATTTATTTGT
1 T-AAAAAA-A--TATTTGT
21432270 TAAAAAAATAT
1 TAAAAAAATAT
21432281 GATGTGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 2 0.08
18 6 0.23
19 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TAAAAAAATATTTGT
Found at i:21432321 original size:13 final size:13
Alignment explanation
Indices: 21432303--21432340 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
21432293 TATAATATGT
21432303 ATTTTTAATTTTTA
1 ATTTTTAA-TTTTA
*
21432317 ATTTTTAATTTAA
1 ATTTTTAATTTTA
21432330 ATTTTT-ATTTT
1 ATTTTTAATTTT
21432341 TTAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 4 0.18
13 10 0.45
14 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:21432332 original size:20 final size:22
Alignment explanation
Indices: 21432309--21432361 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
21432299 ATGTATTTTT
21432309 AATTTTTAATTTTTAAT-T-TA
1 AATTTTTAATTTTTAATATATA
*
21432329 AATTTTTATTTTTTAATATATA
1 AATTTTTAATTTTTAATATATA
*
21432351 TATTTTTAATT
1 AATTTTTAATT
21432362 AAATTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 16 0.57
21 1 0.04
22 11 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
AATTTTTAATTTTTAATATATA
Found at i:21432341 original size:6 final size:7
Alignment explanation
Indices: 21432303--21432361 Score: 66
Period size: 7 Copynumber: 8.4 Consensus size: 7
21432293 TATAATATGT
21432303 ATTTTTA
1 ATTTTTA
21432310 ATTTTTA
1 ATTTTTA
21432317 ATTTTTA
1 ATTTTTA
*
21432324 A-TTTAA
1 ATTTTTA
21432330 ATTTTTA
1 ATTTTTA
*
21432337 TTTTTTA
1 ATTTTTA
* *
21432344 ATATATA
1 ATTTTTA
21432351 TATTTTTA
1 -ATTTTTA
21432359 ATT
1 ATT
21432362 AAATTCATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 5 0.12
7 32 0.76
8 5 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
ATTTTTA
Found at i:21432415 original size:24 final size:25
Alignment explanation
Indices: 21432388--21432458 Score: 96
Period size: 24 Copynumber: 3.0 Consensus size: 25
21432378 AATAAATCTT
21432388 TTTTATTAATATATA-TTTGAAATA
1 TTTTATTAATATATATTTTGAAATA
*
21432412 TTTTATTAATATATATTTTTTAAA-A
1 TTTTATTAATATATA-TTTTGAAATA
21432437 TTTTA--AATATATATTTTGAAAT
1 TTTTATTAATATATATTTTGAAAT
21432459 TACTTTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 7 0.17
23 8 0.19
24 15 0.36
25 6 0.14
26 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
TTTTATTAATATATATTTTGAAATA
Found at i:21432448 original size:21 final size:22
Alignment explanation
Indices: 21432417--21432459 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
21432407 AAATATTTTA
*
21432417 TTAATATATATTTTTTAAAATT
1 TTAATATATATATTTTAAAATT
*
21432439 TTAA-ATATATATTTTGAAATT
1 TTAATATATATATTTTAAAATT
21432460 ACTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATATATATATTTTAAAATT
Found at i:21432473 original size:21 final size:19
Alignment explanation
Indices: 21432449--21432506 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 19
21432439 TTAAATATAT
21432449 ATTTTGAAATTACTTTTTTAA
1 ATTTT-AAATTA-TTTTTTAA
*
21432470 ATTTTAAATATTATTTTTAAA
1 ATTTT-AA-ATTATTTTTTAA
*
21432491 ATGTTAAA-TATTTTTT
1 ATTTTAAATTATTTTTT
21432507 TAGTATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.22
19 1 0.03
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTTAAATTATTTTTTAA
Found at i:21432486 original size:20 final size:19
Alignment explanation
Indices: 21432462--21432508 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
21432452 TTGAAATTAC
*
21432462 TTTTTTAAATTTTAAATAT
1 TTTTTTAAATGTTAAATAT
21432481 TATTTTTAAAATGTTAAATAT
1 T-TTTTT-AAATGTTAAATAT
21432502 TTTTTTA
1 TTTTTTA
21432509 GTATTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 10 0.40
21 13 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTTTAAATGTTAAATAT
Found at i:21432876 original size:15 final size:15
Alignment explanation
Indices: 21432836--21432878 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 15
21432826 TGGTCACATC
21432836 ATATTTTTTTAACAA
1 ATATTTTTTTAACAA
21432851 ATAAATCTTTTTTTAACAA
1 AT--A--TTTTTTTAACAA
21432870 ATATTTTTT
1 ATATTTTTT
21432879 ATTTTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
15 8 0.33
17 2 0.08
19 14 0.58
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTTTTTAACAA
Found at i:21432916 original size:13 final size:13
Alignment explanation
Indices: 21432898--21432922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21432888 TTAATTCAAA
21432898 TTTTACTTTTTTT
1 TTTTACTTTTTTT
21432911 TTTTACTTTTTT
1 TTTTACTTTTTT
21432923 ATTAACTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTACTTTTTTT
Found at i:21433127 original size:12 final size:11
Alignment explanation
Indices: 21433110--21433149 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
21433100 TTAATGTTTA
21433110 AAAAATAATATT
1 AAAAATAAT-TT
21433122 AAAAAT--TTT
1 AAAAATAATTT
21433131 AAAAATAATTT
1 AAAAATAATTT
21433142 -AAAATAAT
1 AAAAATAAT
21433150 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 8 0.31
10 9 0.35
11 3 0.12
12 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:21433134 original size:21 final size:21
Alignment explanation
Indices: 21433086--21433145 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
21433076 TTTTATATTA
* **
21433086 TTAAAAATATATATTTAATGTT
1 TTAAAAATA-ATATTAAAAATT
*
21433108 TAAAAAATAATATTAAAAATT
1 TTAAAAATAATATTAAAAATT
21433129 TTAAAAATAAT-TTAAAA
1 TTAAAAATAATATTAAAA
21433146 TAATATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 6 0.18
21 19 0.58
22 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAATAATATTAAAAATT
Found at i:21433263 original size:144 final size:144
Alignment explanation
Indices: 21433111--21433390 Score: 408
Period size: 144 Copynumber: 1.9 Consensus size: 144
21433101 TAATGTTTAA
*
21433111 AAAATAATATTAAAAATTTTAAAAA-TAATTT-AAAATA-ATATTTAAAATTTTAAATACATATA
1 AAAATAATATTAAAAATTTAAAAAAGTAATTTCAAAATATATATTTAAAA-TTTAAA-A-ATATA
*
21433173 TATT-ATAAAAAATTTCAAATATACATTTTAAATTTTTTTAAAATTAATAACAATAAAT-AAATA
63 TATTAATAAAAAATTTCAAATATACATTTCAAA-TTTTTTAAAATTAATAACAATAAATAAAATA
21433236 AACAAAATAAAATAATTTC
127 AA-AAAATAAAATAATTTC
*
21433255 AAAATAATATTTAAAATTTAAAAAAGTAATTTCAAAATATATATTTAAAATTTAAAAATATATAT
1 AAAATAATATTAAAAATTTAAAAAAGTAATTTCAAAATATATATTTAAAATTTAAAAATATATAT
* * * * *
21433320 TAATAAAATATTTCAAATATATATTTCAAATTTTTTAAATTTAATAATAATAAATAAAATAAATA
66 TAATAAAAAATTTCAAATATACATTTCAAATTTTTTAAAATTAATAACAATAAATAAAATAAAAA
21433385 AATAAA
131 AATAAA
21433391 GAAGAGTAAA
Statistics
Matches: 123, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
144 62 0.50
145 39 0.32
146 12 0.10
147 10 0.08
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (144 bp):
AAAATAATATTAAAAATTTAAAAAAGTAATTTCAAAATATATATTTAAAATTTAAAAATATATAT
TAATAAAAAATTTCAAATATACATTTCAAATTTTTTAAAATTAATAACAATAAATAAAATAAAAA
AATAAAATAATTTC
Found at i:21433285 original size:33 final size:33
Alignment explanation
Indices: 21433244--21433312 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 33
21433234 TAAACAAAAT
21433244 AAAATAATTTCAAAATA-ATATTTAAAATTTAA
1 AAAATAATTTCAAAATATATATTTAAAATTTAA
21433276 AAAAGTAATTTCAAAATATATATTTAAAATTTAA
1 AAAA-TAATTTCAAAATATATATTTAAAATTTAA
21433310 AAA
1 AAA
21433313 TATATATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 4 0.11
33 13 0.37
34 18 0.51
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (33 bp):
AAAATAATTTCAAAATATATATTTAAAATTTAA
Found at i:21433306 original size:21 final size:21
Alignment explanation
Indices: 21433282--21433352 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 21
21433272 TTAAAAAAGT
21433282 AATTTCAAAATATATATTTAA
1 AATTTCAAAATATATATTTAA
*
21433303 AATTTAAAAATATATATTAATAAA
1 AATTTCAAAATATATATT--T-AA
*
21433327 ATATTTC-AAATATATATTTCA
1 A-ATTTCAAAATATATATTTAA
21433348 AATTT
1 AATTT
21433353 TTTAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
20 4 0.09
21 19 0.44
22 1 0.02
23 1 0.02
24 14 0.33
25 4 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTCAAAATATATATTTAA
Found at i:21433437 original size:8 final size:8
Alignment explanation
Indices: 21433399--21433437 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21433389 AAGAAGAGTA
21433399 AAAAAAGT
1 AAAAAAGT
*
21433407 ACAAAAGT
1 AAAAAAGT
*
21433415 CAAAAAATT
1 -AAAAAAGT
21433424 AAAAAAGT
1 AAAAAAGT
21433432 AAAAAA
1 AAAAAA
21433438 AAAACTGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (8 bp):
AAAAAAGT
Found at i:21433438 original size:17 final size:17
Alignment explanation
Indices: 21433395--21433438 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
21433385 AATAAAGAAG
*
21433395 AGTAAAAAAAGTACAAA
1 AGTAAAAAAAGTAAAAA
* *
21433412 AGTCAAAAAATTAAAAA
1 AGTAAAAAAAGTAAAAA
21433429 AGTAAAAAAA
1 AGTAAAAAAA
21433439 AAACTGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.14
Consensus pattern (17 bp):
AGTAAAAAAAGTAAAAA
Found at i:21433734 original size:29 final size:29
Alignment explanation
Indices: 21433675--21433741 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
21433665 GTAGATTTTA
** *
21433675 GGTCATTTTGGTGTTTAATTAAAAAGGTG
1 GGTCATTTTGGTACTTAATTAAAAAGATG
**
21433704 GGTCATTTTGGTACTTAATTAAATTGATG
1 GGTCATTTTGGTACTTAATTAAAAAGATG
*
21433733 GGTTATTTT
1 GGTCATTTT
21433742 AGTAAAAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.46
Consensus pattern (29 bp):
GGTCATTTTGGTACTTAATTAAAAAGATG
Found at i:21435466 original size:15 final size:16
Alignment explanation
Indices: 21435448--21435477 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21435438 TTTAACTCAT
21435448 ATATTTATT-ATTTCC
1 ATATTTATTAATTTCC
21435463 ATATTTATTAATTTC
1 ATATTTATTAATTTC
21435478 TTCTTTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTTATTAATTTCC
Found at i:21438823 original size:2 final size:2
Alignment explanation
Indices: 21438816--21438840 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21438806 AACCAAAATT
21438816 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21438841 TTGTTAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21439295 original size:7 final size:7
Alignment explanation
Indices: 21439283--21439312 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
21439273 TTATATAGAA
21439283 TGAAAGT
1 TGAAAGT
21439290 TGAAAGT
1 TGAAAGT
21439297 TGAAAGT
1 TGAAAGT
21439304 TGAAAGT
1 TGAAAGT
21439311 TG
1 TG
21439313 TCAGGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
TGAAAGT
Found at i:21446647 original size:20 final size:20
Alignment explanation
Indices: 21446610--21446649 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21446600 TTAAAAATTA
** *
21446610 AAAATTATTTAAATTATTTT
1 AAAATTATAAAAAATATTTT
21446630 AAAATTATAAAAAATATTTT
1 AAAATTATAAAAAATATTTT
21446650 TTTAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATTATAAAAAATATTTT
Found at i:21448815 original size:19 final size:20
Alignment explanation
Indices: 21448793--21448833 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
21448783 ATATAAAATT
*
21448793 TATGTATTTAGAAC-ATAAA
1 TATGTATTTAAAACAATAAA
*
21448812 TATGTGTTTAAAACAATAAA
1 TATGTATTTAAAACAATAAA
21448832 TA
1 TA
21448834 ATATATATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (20 bp):
TATGTATTTAAAACAATAAA
Found at i:21451558 original size:117 final size:115
Alignment explanation
Indices: 21451394--21451608 Score: 261
Period size: 117 Copynumber: 1.9 Consensus size: 115
21451384 GGTTTTTTAC
** ** * * ** * * * *
21451394 TTTCCTCAAAATGTTATTTTTTTTGTATGTCTAAAGTTTTTTTCATGTGGTGTCAATTGAGTTAG
1 TTTCCTCAAAATGCAATTTTTTGGGTATATCGAAAGTTTCCTTCATGTGATGCCAATTGAATTAA
*
21451459 GGTTTAATCCGTTATATCTT-TTAGGTATGTCTAAGGCAAATGGTTACTTAT
66 GGTTTAATCCGTCATAT-TTATT-GGTATGTCTAAGGCAAATGGTTACTTAT
21451510 TTTCCTCAAAATGCAATATTTTTGGGTATATCGAAAGTTTCCTTCATGTGATGCCAATTGAATTA
1 TTTCCTCAAAATGCAAT-TTTTTGGGTATATCGAAAGTTTCCTTCATGTGATGCCAATTGAATTA
* *
21451575 AGGTTTATTCTGTCATATTTATTGGTATGTCTAA
65 AGGTTTAATCCGTCATATTTATTGGTATGTCTAA
21451609 AACGAAATCC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
116 28 0.34
117 54 0.66
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.46
Consensus pattern (115 bp):
TTTCCTCAAAATGCAATTTTTTGGGTATATCGAAAGTTTCCTTCATGTGATGCCAATTGAATTAA
GGTTTAATCCGTCATATTTATTGGTATGTCTAAGGCAAATGGTTACTTAT
Found at i:21451744 original size:52 final size:52
Alignment explanation
Indices: 21451667--21451772 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
21451657 GTGATATAAA
*
21451667 TTAAGTTAAGACTCAATTTATCAAATTTATTAAATATATCTAAAGGAAAAGG
1 TTAAGTTAAGACTCAATTTATCAAATTTATTAAATACATCTAAAGGAAAAGG
* * *
21451719 TTAAGTTAAGACTCAATTTATCAAATTTATTGAGTACATCTAGAGGAAAAGG
1 TTAAGTTAAGACTCAATTTATCAAATTTATTAAATACATCTAAAGGAAAAGG
21451771 TT
1 TT
21451773 TTTTTCTTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.35
Consensus pattern (52 bp):
TTAAGTTAAGACTCAATTTATCAAATTTATTAAATACATCTAAAGGAAAAGG
Found at i:21463844 original size:28 final size:28
Alignment explanation
Indices: 21463812--21463871 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
21463802 CCATATTAAT
21463812 GGGTATAGGAAAAGCCTCATAACTTATG
1 GGGTATAGGAAAAGCCTCATAACTTATG
* ** *
21463840 GGGTATAGGAAGAGTTTTATAACTTATG
1 GGGTATAGGAAAAGCCTCATAACTTATG
21463868 GGGT
1 GGGT
21463872 TGATAATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (28 bp):
GGGTATAGGAAAAGCCTCATAACTTATG
Found at i:21465565 original size:39 final size:39
Alignment explanation
Indices: 21465518--21465606 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
21465508 AACCCGAAAT
*
21465518 CTAACTGAAGCACATAAGTGCTAAACGGAAGTCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
21465557 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
21465596 CTAACTGAAGC
1 CTAACTGAAGC
21465607 TCATCAGAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (39 bp):
CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
Found at i:21472362 original size:28 final size:28
Alignment explanation
Indices: 21472330--21472389 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
21472320 CATATTAATA
*
21472330 GGGTATAGGAAAAGTTTCATAACTTATG
1 GGGTATAAGAAAAGTTTCATAACTTATG
* *
21472358 GGGTATAAGAAGAGTTTTATAACTTATG
1 GGGTATAAGAAAAGTTTCATAACTTATG
21472386 GGGT
1 GGGT
21472390 TGATAATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
GGGTATAAGAAAAGTTTCATAACTTATG
Found at i:21472512 original size:13 final size:13
Alignment explanation
Indices: 21472494--21472520 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21472484 TATTCATTAA
21472494 AAAAACAAAAAAG
1 AAAAACAAAAAAG
21472507 AAAAACAAAAAAG
1 AAAAACAAAAAAG
21472520 A
1 A
21472521 GAGAAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAG
Found at i:21475448 original size:10 final size:10
Alignment explanation
Indices: 21475429--21475500 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
21475419 ATTATTATTC
21475429 TAAA-TTTTT
1 TAAATTTTTT
21475438 TAAATTTTTT
1 TAAATTTTTT
* *
21475448 TAACTTTCTT
1 TAAATTTTTT
*
21475458 TATATATTTTT
1 TAAAT-TTTTT
*
21475469 TAGATTTTTTT
1 TA-AATTTTTT
*
21475480 TGAAATTTTTA
1 T-AAATTTTTT
*
21475491 TATATTTTTT
1 TAAATTTTTT
21475501 AAAAATATAA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
9 4 0.08
10 23 0.48
11 19 0.40
12 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:21475467 original size:31 final size:30
Alignment explanation
Indices: 21475432--21475503 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 30
21475422 ATTATTCTAA
*
21475432 ATTTTTTAAATTTTTTT-AACTTTCTTTATAT
1 ATTTTTTAAATTTTTTTGAA-ATT-TTTATAT
*
21475463 ATTTTTTAGATTTTTTTTGAAATTTTTATAT
1 ATTTTTTA-AATTTTTTTGAAATTTTTATAT
21475494 ATTTTTTAAA
1 ATTTTTTAAA
21475504 AATATAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 23 0.64
32 10 0.28
33 2 0.06
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (30 bp):
ATTTTTTAAATTTTTTTGAAATTTTTATAT
Found at i:21475673 original size:26 final size:26
Alignment explanation
Indices: 21475642--21475691 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
21475632 GAATAACTCA
21475642 ATTCGATTAACTTGAAATTTAATTCG
1 ATTCGATTAACTTGAAATTTAATTCG
21475668 ATTCGATTAACTTGAAATTTAATT
1 ATTCGATTAACTTGAAATTTAATT
21475692 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (26 bp):
ATTCGATTAACTTGAAATTTAATTCG
Found at i:21478430 original size:14 final size:14
Alignment explanation
Indices: 21478392--21478421 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21478382 TTATTATATT
*
21478392 TAATAAAAATTAAA
1 TAATGAAAATTAAA
21478406 TAATGAAAATTAAA
1 TAATGAAAATTAAA
21478420 TA
1 TA
21478422 TTTTAAATTT
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:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
TAATGAAAATTAAA
Found at i:21485155 original size:25 final size:25
Alignment explanation
Indices: 21485098--21485155 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
21485088 TAATTTAGAC
21485098 TGATCTTTACAAATTTAAATCAAAA
1 TGATCTTTACAAATTTAAATCAAAA
*
21485123 TGA-ATTTA-AAATTGTATAATCAAAA
1 TGATCTTTACAAATT-TA-AATCAAAA
21485148 T-ATCTTTA
1 TGATCTTTA
21485156 GTTTTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 5 0.18
24 7 0.25
25 16 0.57
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (25 bp):
TGATCTTTACAAATTTAAATCAAAA
Found at i:21497427 original size:18 final size:18
Alignment explanation
Indices: 21497419--21497457 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 18
21497409 TTTAAAATTT
21497419 TAAAAATTTTAAAAAATA
1 TAAAAATTTTAAAAAATA
21497437 TAAAAA--TT-AAAAATA
1 TAAAAATTTTAAAAAATA
21497452 TAAAAA
1 TAAAAA
21497458 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.62
16 2 0.10
18 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAATTTTAAAAAATA
Found at i:21497435 original size:10 final size:9
Alignment explanation
Indices: 21497406--21497444 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
21497396 TCATTTAATT
*
21497406 ATTTTTAAA
1 ATTTTAAAA
21497415 ATTTTAAAA
1 ATTTTAAAA
21497424 ATTTTAAAA
1 ATTTTAAAA
* *
21497433 AATATAAAA
1 ATTTTAAAA
21497442 ATT
1 ATT
21497445 AAAAATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:21499953 original size:16 final size:17
Alignment explanation
Indices: 21499932--21499963 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21499922 ATATTTAGTC
21499932 ATATAATAAAT-TATTA
1 ATATAATAAATATATTA
21499948 ATATAATAAATATATT
1 ATATAATAAATATATT
21499964 TTGTTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATAAATATATTA
Found at i:21500016 original size:13 final size:14
Alignment explanation
Indices: 21500000--21500041 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
21499990 TTTCAATTTT
21500000 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
21500013 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
21500028 ATTTTAAATAATAT
1 ATTTT-AATAATAT
21500042 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:21500026 original size:16 final size:16
Alignment explanation
Indices: 21500004--21500040 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
21499994 AATTTTATTT
21500004 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
21500021 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
21500036 TAATA
1 TAATA
21500041 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:21501427 original size:46 final size:46
Alignment explanation
Indices: 21501367--21501686 Score: 471
Period size: 46 Copynumber: 7.0 Consensus size: 46
21501357 TTTGACATGA
* * * * * * *
21501367 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
*** * * *
21501413 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAACACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
21501459 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
21501505 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
21501551 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
21501597 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
21501643 TGCCATGGTATCTTTTAACTATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
21501687 AGAGCACAAT
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 251 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:21503035 original size:4 final size:4
Alignment explanation
Indices: 21503028--21503057 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
21503018 ACACGCAAGC
*
21503028 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
21503058 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:21504711 original size:6 final size:7
Alignment explanation
Indices: 21504690--21504714 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21504680 AAAAGGTATA
21504690 TTTATTT
1 TTTATTT
21504697 TTTATTT
1 TTTATTT
21504704 TTTATTT
1 TTTATTT
21504711 TTTA
1 TTTA
21504715 CTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:21505667 original size:43 final size:43
Alignment explanation
Indices: 21505529--21505914 Score: 331
Period size: 43 Copynumber: 8.9 Consensus size: 43
21505519 TGATTTTCAA
* * * * *
21505529 CCTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTCATGATTGAT
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATC-TGT-A-AATTTAG
* * *
21505574 CC-GTTTCCCTACTGCTTAGGGGTTTAAGATCTTGTAAAATCAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATC-TGTAAATTTAG
*
21505617 TCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAG
* * * * ** *
21505660 CCTGTTACCTTACTACTTAGGGGTTTAAGA-CTCATCACCTTCG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATCT-GTAAATTTAG
* * * *
21505703 ATCTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG
1 -CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAG
* *
21505747 CCTGTTACCCTACTGCTTAGGGGTTTAAGA-CTCGT-CATCTTCG
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATCT-GTAAAT-TTAG
* * * *
21505790 ATCT-TTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG
1 -CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAG
* *
21505833 CCTGTTACCCTACTGCTTAGGGGTTTAAGA-CTCGT-CATCTTCAA
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATCT-GTAAAT-TT-AG
* *
21505877 TCTGTTTCCCTACTGCTTAGGGG-TTAAGATCTGTAAAT
1 CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAAT
21505915 CTTTAATCTG
Statistics
Matches: 274, Mismatches: 51, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
42 12 0.04
43 139 0.51
44 114 0.42
45 9 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (43 bp):
CCTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAG
Found at i:21505709 original size:87 final size:87
Alignment explanation
Indices: 21505530--21505914 Score: 512
Period size: 87 Copynumber: 4.4 Consensus size: 87
21505520 GATTTTCAAC
* * * * * *
21505530 CTGTTACCCTACTGCTTAGGGGGTTAAG-GCTTGTCATGATTGATCC-GTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATC-TGT-A-AATTTAGCCTGTTACCCTACTGCTTAG
* ***
21505593 GGGTTTAAGATCTTGT-AAAATC-AGT
63 GGGTTTAAGA-CTCGTCATCTTCGA-T
* * * *
21505618 CTGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTTAGCCTGTTACCTTACTACTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
* *
21505683 TTTAAGACTCATCACCTTCGAT
66 TTTAAGACTCGTCATCTTCGAT
*
21505705 CTGTTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
21505770 TTTAAGACTCGTCATCTTCGAT
66 TTTAAGACTCGTCATCTTCGAT
*
21505792 CT-TTTCTCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
*
21505856 TTTAAGACTCGTCATCTTCAAT
66 TTTAAGACTCGTCATCTTCGAT
21505878 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAAT
21505915 CTTTAATCTG
Statistics
Matches: 270, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
86 113 0.42
87 125 0.46
88 31 0.11
89 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGACTCGTCATCTTCGAT
Found at i:21506118 original size:44 final size:44
Alignment explanation
Indices: 21506056--21506210 Score: 143
Period size: 44 Copynumber: 3.5 Consensus size: 44
21506046 AAATTTGGCT
* * *
21506056 TGTTACCCTACTTCTTAGGGGGTTAAAGCTCATTATCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGATCATTAACTTCGATC
* * * * *
21506100 TGTTTCCCTACTGCTTAGGGTGAT-AAGATCTATGAACTTC-AGC
1 TGTTACCCTACTGCTTAGGGGGTTAAAGATC-ATTAACTTCGATC
* * **
21506143 TTGTTACCCTACTGCTTAGGGGGTTAAAGTTCGTTGCCTTCGATC
1 -TGTTACCCTACTGCTTAGGGGGTTAAAGATCATTAACTTCGATC
* * *
21506188 TATTCCCCTACTGCTTATGGGGT
1 TGTTACCCTACTGCTTAGGGGGT
21506211 AAGATCTGTG
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
43 7 0.08
44 73 0.84
45 7 0.08
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAAGATCATTAACTTCGATC
Found at i:21506166 original size:88 final size:86
Alignment explanation
Indices: 21506012--21506226 Score: 243
Period size: 88 Copynumber: 2.5 Consensus size: 86
21506002 AATTTTCAGC
* * * * * * ** *
21506012 CTATTACCCTACTACTTAGGGGGTTAAGGTCTGTAAATTTGGCTTGTTACCCTACTTCTTAGGGG
1 CTATTCCCCTACTGCTTATGGGG-TAAGATCTATGAATTCAGCTTGTTACCCTACTGCTTAGGGG
*
21506077 GTTAAAGCTCATTATCTTCGAT
65 GTTAAAGCTCATTACCTTCGAT
* *
21506099 CTGTTTCCCTACTGCTTA-GGGTGATAAGATCTATGAACTTCAGCTTGTTACCCTACTGCTTAGG
1 CTATTCCCCTACTGCTTATGGG-G-TAAGATCTATGAA-TTCAGCTTGTTACCCTACTGCTTAGG
* * *
21506163 GGGTTAAAGTTCGTTGCCTTCGAT
63 GGGTTAAAGCTCATTACCTTCGAT
*
21506187 CTATTCCCCTACTGCTTATGGGGTAAGATCTGTGAATTCA
1 CTATTCCCCTACTGCTTATGGGGTAAGATCTATGAATTCA
21506227 CTGATTCTAG
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
86 7 0.06
87 38 0.35
88 60 0.56
89 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (86 bp):
CTATTCCCCTACTGCTTATGGGGTAAGATCTATGAATTCAGCTTGTTACCCTACTGCTTAGGGGG
TTAAAGCTCATTACCTTCGAT
Found at i:21517749 original size:11 final size:11
Alignment explanation
Indices: 21517735--21517759 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21517725 GCCCAGTAAG
21517735 TTAGGGCACGA
1 TTAGGGCACGA
21517746 TTAGGGCACGA
1 TTAGGGCACGA
21517757 TTA
1 TTA
21517760 TCTCGAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (11 bp):
TTAGGGCACGA
Found at i:21518011 original size:4 final size:4
Alignment explanation
Indices: 21518004--21518033 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
21517994 ACACGCAAGC
*
21518004 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
21518034 TGGTAGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:21519687 original size:6 final size:7
Alignment explanation
Indices: 21519666--21519690 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21519656 AAAAGGTATA
21519666 TTTATTT
1 TTTATTT
21519673 TTTATTT
1 TTTATTT
21519680 TTTATTT
1 TTTATTT
21519687 TTTA
1 TTTA
21519691 CTTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:21519763 original size:14 final size:13
Alignment explanation
Indices: 21519744--21519779 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
21519734 AAGAGAAAAT
21519744 AAAGAAAAAAGATA
1 AAAGAAAAAAGA-A
21519758 AAAGAAAAAAAGAA
1 AAAG-AAAAAAGAA
21519772 AAAGAAAA
1 AAAGAAAA
21519780 TACCCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
15 8 0.38
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:21525177 original size:22 final size:22
Alignment explanation
Indices: 21525152--21525200 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
21525142 TAATATAATT
21525152 ATATATGAAATATAAT-TTTTAA
1 ATATATGAAA-ATAATATTTTAA
**
21525174 ATATATTTAAATAATATTTTAA
1 ATATATGAAAATAATATTTTAA
21525196 A-ATAT
1 ATATAT
21525201 TTTAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATATGAAAATAATATTTTAA
Found at i:21525191 original size:59 final size:58
Alignment explanation
Indices: 21525123--21525248 Score: 143
Period size: 59 Copynumber: 2.1 Consensus size: 58
21525113 TAATTAAGAT
* * *
21525123 ATATGATATTTT-AATATTTTAATATAATT-ATATATGAA-ATATAATTTTTAAATATATTTA
1 ATATAATATTTTAAATATTTTAA-A-AATTAATA-AT-AATAAATAATATTTAAATA-ATTTA
21525183 A-ATAATATTTTAAAATATTTTAAAAATTAATAATAATAAATAATATTTAAATAATTTA
1 ATATAATATTTT-AAATATTTTAAAAATTAATAATAATAAATAATATTTAAATAATTTA
21525241 ATATAATA
1 ATATAATA
21525249 ATATATAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
58 8 0.14
59 35 0.60
60 5 0.09
61 10 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (58 bp):
ATATAATATTTTAAATATTTTAAAAATTAATAATAATAAATAATATTTAAATAATTTA
Found at i:21525200 original size:21 final size:21
Alignment explanation
Indices: 21525163--21525247 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
21525153 TATATGAAAT
21525163 ATAATTTTTAAATATATTTAA
1 ATAATTTTTAAATATATTTAA
21525184 ATAATATTTTAAA-ATATTTTAA
1 ATAAT-TTTTAAATATA-TTTAA
**
21525206 A-AATTAAT-AATA-A--TAA
1 ATAATTTTTAAATATATTTAA
*
21525222 ATAATATTTAAATA-ATTTAA
1 ATAATTTTTAAATATATTTAA
21525242 TATAAT
1 -ATAAT
21525248 AATATATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
16 4 0.08
17 4 0.08
18 5 0.10
19 3 0.06
20 6 0.12
21 16 0.31
22 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATAATTTTTAAATATATTTAA
Found at i:21525227 original size:28 final size:28
Alignment explanation
Indices: 21525196--21525291 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 28
21525186 AATATTTTAA
21525196 AATATTTTAAA-AA-TTAATAATAATAAAT
1 AATA-TTTAAATAATTTAAT-ATAATAAAT
21525224 AATATTTAAATAATTTAATATAAT-AAT
1 AATATTTAAATAATTTAATATAATAAAT
* * *
21525251 -ATA-TAAAATAA-CTCATATAAATAAA-
1 AATATTTAAATAATTTAATAT-AATAAAT
*
21525276 AATATTTTAATAATTT
1 AATATTTAAATAATTT
21525292 TTAAATACCT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
24 5 0.09
25 10 0.18
26 8 0.15
27 15 0.27
28 12 0.22
29 5 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
AATATTTAAATAATTTAATATAATAAAT
Found at i:21537981 original size:37 final size:38
Alignment explanation
Indices: 21537926--21538000 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
21537916 TCTGATGAAA
21537926 TTGTTTTTCTAAGTTTAAAATATGTATTAAATGAATGG
1 TTGTTTTTCTAAGTTTAAAATATGTATTAAATGAATGG
21537964 TTGTTTTTC-AAGTTTAAAATATGTATTAAATGAATGG
1 TTGTTTTTCTAAGTTTAAAATATGTATTAAATGAATGG
21538001 CTCAAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 28 0.76
38 9 0.24
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.47
Consensus pattern (38 bp):
TTGTTTTTCTAAGTTTAAAATATGTATTAAATGAATGG
Found at i:21539187 original size:132 final size:131
Alignment explanation
Indices: 21538926--21539211 Score: 475
Period size: 132 Copynumber: 2.2 Consensus size: 131
21538916 TTACTAATAT
*
21538926 TTATTTAAGGGTTAATATGTAGTTTATTTCTTGAACTTATCCAAAGGTATTTAGTTAGTATTTGA
1 TTATTTAAGGGTTAATATGTAGTTTATTTCTTGAACTTATCCAAAGGTATTTAATTAGTATTTGA
* *
21538991 TTTTTTTTTTGTATTACCTAAACTTGTATTCCACCACACACAGTCTCAATTTCTTAACAGCATTA
66 TTTTTTTTTTGTATTACCTAAACTTGCATTCCACCACACACAGTCTCAATTTCTTAACAACATTA
21539056 A
131 A
*
21539057 TTATTTAATGGTTAATATGTAGTTTATTTCTTGAACTTATCCAAAGGTA-TTAATTAGTATTTGA
1 TTATTTAAGGGTTAATATGTAGTTTATTTCTTGAACTTATCCAAAGGTATTTAATTAGTATTTGA
* *
21539121 TTTTTTTTTTTTGTATTACCTAAACTTGCATTCCATCACACAGAGTCTCAATTTCTTAACAACAT
66 --TTTTTTTTTTGTATTACCTAAACTTGCATTCCACCACACACAGTCTCAATTTCTTAACAACAT
21539186 TAA
129 TAA
* *
21539189 TTTTTTAAGGGTTAATTTGTAGT
1 TTATTTAAGGGTTAATATGTAGT
21539212 CTGCCACTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
130 14 0.10
131 48 0.33
132 82 0.57
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (131 bp):
TTATTTAAGGGTTAATATGTAGTTTATTTCTTGAACTTATCCAAAGGTATTTAATTAGTATTTGA
TTTTTTTTTTGTATTACCTAAACTTGCATTCCACCACACACAGTCTCAATTTCTTAACAACATTA
A
Found at i:21540064 original size:6 final size:6
Alignment explanation
Indices: 21540053--21540081 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21540043 TGAATCGAGC
21540053 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA
21540082 AAACTTTTAA
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:21540798 original size:15 final size:15
Alignment explanation
Indices: 21540753--21540804 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
21540743 CAATTATATG
21540753 TTTTTATGTTAAAGTT
1 TTTTTATGTTAAA-TT
*
21540769 TTTTT-TGTATTAATT
1 TTTTTATGT-TAAATT
*
21540784 TTTTTAAGTTAAATT
1 TTTTTATGTTAAATT
21540799 ATTTTT
1 -TTTTT
21540805 TTTTCTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (15 bp):
TTTTTATGTTAAATT
Found at i:21540909 original size:18 final size:18
Alignment explanation
Indices: 21540888--21540924 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21540878 TGTTATATAC
21540888 GAGTACCAACTTATTTCG
1 GAGTACCAACTTATTTCG
*
21540906 GAGTACTAACTTATTTCG
1 GAGTACCAACTTATTTCG
21540924 G
1 G
21540925 CGTTCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (18 bp):
GAGTACCAACTTATTTCG
Found at i:21547860 original size:24 final size:23
Alignment explanation
Indices: 21547806--21547868 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
21547796 TTCTAAAAAT
21547806 TAAA-AATAAATTAAATAAATTATA
1 TAAATAATAAATT-AA-AAATTATA
* * *
21547830 TACATAAATATATTAAAAATTATT
1 TAAAT-AATAAATTAAAAATTATA
21547854 TAAATAATAAATTAA
1 TAAATAATAAATTAA
21547869 GCTAATATGG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 9 0.28
24 14 0.44
25 2 0.06
26 7 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TAAATAATAAATTAAAAATTATA
Found at i:21549044 original size:18 final size:18
Alignment explanation
Indices: 21549023--21549081 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
21549013 TTAAAATCAT
* *
21549023 AATTATGAATTAAATCTA
1 AATTATGATTTAAATTTA
*
21549041 AATT-TTATTTAAAATTTTA
1 AATTATGATTT-AAA-TTTA
21549060 AATTATGATTTAAATTTA
1 AATTATGATTTAAATTTA
21549078 AATT
1 AATT
21549082 TAAAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
19 10 0.29
20 5 0.15
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (18 bp):
AATTATGATTTAAATTTA
Found at i:21549063 original size:19 final size:17
Alignment explanation
Indices: 21549032--21549102 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 17
21549022 TAATTATGAA
* *
21549032 TTAAATCTAAATTTTAT
1 TTAAATTTAAATTTGAT
21549049 TTAAAATTTTAAATTATGAT
1 TT-AAA-TTTAAATT-TGAT
21549069 TTAAATTTAAATTT-A-
1 TTAAATTTAAATTTGAT
*
21549084 --AAATTTAAATTAGAT
1 TTAAATTTAAATTTGAT
21549099 TTAA
1 TTAA
21549103 GTTAACTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
13 11 0.25
14 1 0.02
16 1 0.02
17 5 0.11
18 11 0.25
19 10 0.23
20 5 0.11
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTTGAT
Found at i:21562578 original size:30 final size:30
Alignment explanation
Indices: 21562544--21562605 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21562534 CGATACTATT
21562544 AACATTTAATGTCTGATTCAGTGAT-CGTTA
1 AACATTTAATGTCTGATTCAGT-ATCCGTTA
21562574 AACATTTAATGTCTGATTCAGTATCCGTTA
1 AACATTTAATGTCTGATTCAGTATCCGTTA
21562604 AA
1 AA
21562606 GTTAGTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (30 bp):
AACATTTAATGTCTGATTCAGTATCCGTTA
Found at i:21565066 original size:42 final size:42
Alignment explanation
Indices: 21564954--21565073 Score: 134
Period size: 42 Copynumber: 2.8 Consensus size: 42
21564944 TACCATACTA
* ** *
21564954 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTTGTATTG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
** *
21564996 ATGCCAATAGGCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
21565039 ATGCCATATCCCAGATATAGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
21565074 TAGTAACCCA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 32 0.50
43 32 0.50
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:21574434 original size:14 final size:14
Alignment explanation
Indices: 21574415--21574441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21574405 ATTACAAGAA
21574415 AAATAAATATTTAT
1 AAATAAATATTTAT
21574429 AAATAAATATTTA
1 AAATAAATATTTA
21574442 ATGTATCGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAAATATTTAT
Found at i:21579090 original size:24 final size:24
Alignment explanation
Indices: 21579058--21579110 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
21579048 TTTACTAGAG
*
21579058 ATTGAGGCTTGAGTTATTGTCGAT
1 ATTGTGGCTTGAGTTATTGTCGAT
21579082 ATTGTGGCTTGAGTTATTGTCGAT
1 ATTGTGGCTTGAGTTATTGTCGAT
21579106 ATTGT
1 ATTGT
21579111 TTAGATTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.08, G:0.28, T:0.45
Consensus pattern (24 bp):
ATTGTGGCTTGAGTTATTGTCGAT
Found at i:21579763 original size:2 final size:2
Alignment explanation
Indices: 21579756--21579808 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
21579746 AAATATTCTA
21579756 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
21579798 AT AT AT AT AT A
1 AT AT AT AT AT A
21579809 AAAGAGAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21580856 original size:26 final size:24
Alignment explanation
Indices: 21580823--21580871 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
21580813 TAAATAAAAA
*
21580823 ATTTTAAAATATAATAAATCAAATAC
1 ATTTTAAAACATAA-AAA-CAAATAC
21580849 ATTTTAAAACATAAAAACAAATA
1 ATTTTAAAACATAAAAACAAATA
21580872 TTAAAACAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (24 bp):
ATTTTAAAACATAAAAACAAATAC
Found at i:21580887 original size:19 final size:20
Alignment explanation
Indices: 21580852--21580890 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21580842 CAAATACATT
21580852 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
21580872 TTAAAACA-AGAAACAAATA
1 TTAAAACATAAAAACAAATA
21580891 AAAAATGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:21581668 original size:23 final size:22
Alignment explanation
Indices: 21581609--21581670 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
21581599 TTATATACTA
*
21581609 AATAAAATAATAA-TAAAATAT
1 AATAAATTAATAATTAAAATAT
*
21581630 AATTAAATGTCA-AATTAAAATATT
1 AA-TAAAT-TAATAATTAAAATA-T
21581654 AATAAATTAATAATTAA
1 AATAAATTAATAATTAA
21581671 TTAATTAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.06
22 8 0.24
23 20 0.61
24 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
AATAAATTAATAATTAAAATAT
Found at i:21581671 original size:15 final size:16
Alignment explanation
Indices: 21581641--21581679 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
21581631 ATTAAATGTC
*
21581641 AAATTAAAATATTAAT
1 AAATTAATATATTAAT
21581657 AAATTAATA-ATTAAT
1 AAATTAATATATTAAT
*
21581672 TAATTAAT
1 AAATTAAT
21581680 CTAAAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAATATATTAAT
Found at i:21585789 original size:46 final size:44
Alignment explanation
Indices: 21585685--21585792 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21585675 TGTCTTTGAC
** * * *
21585685 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21585729 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21585775 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21585793 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21593145 original size:46 final size:44
Alignment explanation
Indices: 21593041--21593148 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21593031 TGTCTTTGAC
** * * *
21593041 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21593085 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21593131 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21593149 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21606928 original size:17 final size:17
Alignment explanation
Indices: 21606906--21606938 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21606896 AAAAGAAAAT
21606906 TAAAAATAT-AAAAATAA
1 TAAAAA-ATGAAAAATAA
21606923 TAAAAAATGAAAAATA
1 TAAAAAATGAAAAATA
21606939 TATATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (17 bp):
TAAAAAATGAAAAATAA
Found at i:21621556 original size:122 final size:122
Alignment explanation
Indices: 21621344--21621600 Score: 478
Period size: 122 Copynumber: 2.1 Consensus size: 122
21621334 ATTGATCACT
*
21621344 ATTTATTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
1 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
*
21621409 AGTCTTTCTGTTATAACATTGCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
66 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
21621466 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
1 ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
*
21621531 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCTTTTTATTATTTTGATGTTA
66 AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
*
21621588 ATTTAGTTATATG
1 ATTTAGTTGTATG
21621601 CTGCATTAGA
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
122 131 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (122 bp):
ATTTAGTTGTATGACCTAAGTAACAAGATAGACCATATGGTATCTTTTAAGTCAATAATAACTGC
AGTCTTTCTGTTATAACATTCCTCTTTAGTTTAGTCCATTTTATTATTTTGATGTTA
Found at i:21630789 original size:50 final size:51
Alignment explanation
Indices: 21630729--21630857 Score: 183
Period size: 50 Copynumber: 2.5 Consensus size: 51
21630719 GACCATGGCA
21630729 ACAAGTGATAAGTGATAGCTTCGGCTACACTTAT-TCGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCT-GATCAAGGACAAA-TG
*
21630780 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
21630830 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
21630858 CTAATCAGCA
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
50 43 0.61
51 28 0.39
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:21630875 original size:31 final size:31
Alignment explanation
Indices: 21630837--21630981 Score: 193
Period size: 31 Copynumber: 4.7 Consensus size: 31
21630827 ATGACAAGTG
* * *
21630837 AAAAGTGGTAGCTTCAGCTACCTAATCAGCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
* *
21630868 AAAAGTGGTAGCTTCTGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
*
21630899 AAAAGTGGTAGCTCCGGCTACCTGATCAGTGA
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGT-A
* *
21630931 AAAA-TGGTAGCTCCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
*
21630961 AATAGTGGTAGCTTCGGCTAC
1 AAAAGTGGTAGCTTCGGCTAC
21630982 AAGTGACAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 3 0.03
31 95 0.93
32 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTA
Found at i:21630906 original size:62 final size:62
Alignment explanation
Indices: 21630833--21630981 Score: 219
Period size: 62 Copynumber: 2.4 Consensus size: 62
21630823 ACAAATGACA
* * *
21630833 AGTGAAAAGTGGTAGCTTCAGCTACCTAATCAG-CAAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTCAAAAA-TGGTAGCTCCGGCTACCTGATC
* * *
21630895 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTCAAAAATGGTAGCTCCGGCTACCTGATC
*
21630957 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
21630982 AAGTGACAAG
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
62 73 0.94
63 5 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTAATCAGTCAAAAATGGTAGCTCCGGCTACCTGATC
Found at i:21631207 original size:42 final size:42
Alignment explanation
Indices: 21631100--21631214 Score: 142
Period size: 42 Copynumber: 2.7 Consensus size: 42
21631090 TATGTGATTC
* * **
21631100 GTGTAAGACCATAGCTGGTCTATGACATCGATATATGAATTT
1 GTGTAAGACCATAGCTGGACTATGGCATCGATATATGAAGAT
* *
21631142 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGACTATGGCATCGA-TATATGAAGAT
* *
21631184 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGACTATGGCATCGA
21631215 GAAAACGAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 61 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGACTATGGCATCGATATATGAAGAT
Found at i:21634443 original size:17 final size:18
Alignment explanation
Indices: 21634421--21634454 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21634411 TAAATGAGTT
21634421 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
21634438 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
21634455 AATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:21634958 original size:13 final size:14
Alignment explanation
Indices: 21634937--21634976 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
21634927 ATTTGATTGG
21634937 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
21634950 AATATGAATTAAAT
1 AAAATGAATTAAAT
21634964 AAAAGTGAATTAA
1 AAAA-TGAATTAA
21634977 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:21635360 original size:23 final size:21
Alignment explanation
Indices: 21635330--21635411 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
21635320 GCTTTGCCGA
* *
21635330 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTC--ATT
* *
21635353 TCAGGCACCTCGTGTGTCATA
1 TCAGGCACCTCATGTGTCATT
21635374 TCAGGCACCTCATGTGTCATT
1 TCAGGCACCTCATGTGTCATT
* *
21635395 TTAGGCA-CTTATGTGTC
1 TCAGGCACCTCATGTGTC
21635412 GTATACTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 9 0.18
21 27 0.53
23 15 0.29
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (21 bp):
TCAGGCACCTCATGTGTCATT
Found at i:21639252 original size:46 final size:44
Alignment explanation
Indices: 21639148--21639255 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21639138 TGTCTTTGAC
** * * *
21639148 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21639192 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21639238 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21639256 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21646638 original size:46 final size:44
Alignment explanation
Indices: 21646534--21646641 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
21646524 TGTCTTTGAC
** * * *
21646534 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
21646578 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
21646624 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21646642 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:21648356 original size:6 final size:6
Alignment explanation
Indices: 21648347--21648373 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21648337 GAAAATCTAA
21648347 TTTTTC TTTTTC TTTTTC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTT
21648374 CTTTCTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:21658694 original size:6 final size:6
Alignment explanation
Indices: 21658683--21658720 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
21658673 AGAAAACCTT
21658683 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GA
21658721 GATGTCCGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
GATGAG
Found at i:21667672 original size:11 final size:11
Alignment explanation
Indices: 21667656--21667681 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21667646 AATTAATTAT
21667656 AAAAATTATAA
1 AAAAATTATAA
21667667 AAAAATTATAA
1 AAAAATTATAA
21667678 AAAA
1 AAAA
21667682 TCAAAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:21668433 original size:19 final size:19
Alignment explanation
Indices: 21668373--21668460 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
21668363 TCTAATAAGT
*
21668373 TTTTTTTTATTTTA-AATA
1 TTTTTTATATTTTATAATA
* * * *
21668391 GGTTTTATATAGTTTATTAGA
1 --TTTTTTATATTTTATAATA
21668412 TTTTTTATATTTTATAATA
1 TTTTTTATATTTTATAATA
*
21668431 ---TTTATTTTTTATAATA
1 TTTTTTATATTTTATAATA
*
21668447 TTTCTTAT-TTTTAT
1 TTTTTTATATTTTAT
21668461 GATTTTTAAT
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
16 15 0.28
18 6 0.11
19 19 0.36
20 11 0.21
21 2 0.04
ACGTcount: A:0.27, C:0.01, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTATATTTTATAATA
Found at i:21668440 original size:16 final size:16
Alignment explanation
Indices: 21668415--21668449 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
21668405 TATTAGATTT
21668415 TTTATATTTTATAATA
1 TTTATATTTTATAATA
*
21668431 TTTATTTTTTATAATA
1 TTTATATTTTATAATA
21668447 TTT
1 TTT
21668450 CTTATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATATTTTATAATA
Found at i:21671860 original size:31 final size:31
Alignment explanation
Indices: 21671825--21671902 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
21671815 TAAAAAAAAT
21671825 CTTATTTGAGCACTTTCGAAAATGA-TTCACC
1 CTTATTTGAGCACTTTCGAAAAT-ATTTCACC
* * **
21671856 CTTATTTGAGCATTTTCGAATATATTTGGCC
1 CTTATTTGAGCACTTTCGAAAATATTTCACC
*
21671887 CTTATTTGAACACTTT
1 CTTATTTGAGCACTTT
21671903 TGTAAAGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (31 bp):
CTTATTTGAGCACTTTCGAAAATATTTCACC
Found at i:21680387 original size:5 final size:6
Alignment explanation
Indices: 21680354--21680386 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
21680344 AAAAATGCAA
*
21680354 AAAAAC AAAAAT AAAAAT AAAAAT -AAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
21680387 TTACCTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:21689835 original size:57 final size:59
Alignment explanation
Indices: 21689754--21689931 Score: 152
Period size: 58 Copynumber: 3.1 Consensus size: 59
21689744 TGGGTCTAAT
* * * * * **
21689754 TTTTTTG-TCCAATTTAGGTCTTGAACTTGA-TAAATATTCTTACATTG-GGCTTGAAA
1 TTTTTTGACCCAAGTTAGGCCTTGAACTTGAGCAAATATCCCCACATTGAGGCTTGAAA
*
21689810 TTATTTT-ACCCAAGTTAGGCCTTGAA-TTTAGCAAATATCCCCACATTGAGGCTTGAAA
1 TT-TTTTGACCCAAGTTAGGCCTTGAACTTGAGCAAATATCCCCACATTGAGGCTTGAAA
** * * *** * *
21689868 TTTTTTGGTCTAAGTTAGGCATTGAACTT-AGCAAATATTATCACATTGAGGCTTCAAC
1 TTTTTTGACCCAAGTTAGGCCTTGAACTTGAGCAAATATCCCCACATTGAGGCTTGAAA
21689926 TTTTTT
1 TTTTTT
21689932 TTTATCTAAG
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
56 5 0.05
57 36 0.36
58 56 0.57
59 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (59 bp):
TTTTTTGACCCAAGTTAGGCCTTGAACTTGAGCAAATATCCCCACATTGAGGCTTGAAA
Found at i:21689885 original size:58 final size:57
Alignment explanation
Indices: 21689795--21689931 Score: 159
Period size: 58 Copynumber: 2.4 Consensus size: 57
21689785 AAATATTCTT
* * *
21689795 ACATTG-GGCTTGAAATTATTTTACCCAAGTTAGGCCTTGAATTTAGCAAATATCCCC
1 ACATTGAGGCTTGAAATT-TTTTACCCAAGTTAGGCATTGAACTTAGCAAATATCACC
** * * *
21689852 ACATTGAGGCTTGAAATTTTTTGGTCTAAGTTAGGCATTGAACTTAGCAAATATTATC
1 ACATTGAGGCTTGAAATTTTTT-ACCCAAGTTAGGCATTGAACTTAGCAAATATCACC
* *
21689910 ACATTGAGGCTTCAACTTTTTT
1 ACATTGAGGCTTGAAATTTTTT
21689932 TTTATCTAAG
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 10 0.15
58 58 0.85
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (57 bp):
ACATTGAGGCTTGAAATTTTTTACCCAAGTTAGGCATTGAACTTAGCAAATATCACC
Found at i:21697464 original size:26 final size:26
Alignment explanation
Indices: 21697430--21697486 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
21697420 GTTTGGACTA
*
21697430 TGTTCATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
21697456 TGTTAATTTGTTTCCTTGTTTTTTGT
1 TGTTAATTTGTTTCCTTGTTTTTTGT
21697482 TGTTA
1 TGTTA
21697487 TTCACTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.07, C:0.09, G:0.16, T:0.68
Consensus pattern (26 bp):
TGTTAATTTGTTTCCTTGTTTTTTGT
Found at i:21703524 original size:56 final size:56
Alignment explanation
Indices: 21703452--21703563 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
21703442 CATGTGCTTA
21703452 GATGATAGTGAAATTTTCGTTTTT-TTTTCCATCTGCAGTTGGGTTTTATTAACCTT
1 GATGATAGTGAAATTTTC-TTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
21703508 GATGATAGTGAAATTTTCTTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
1 GATGATAGTGAAATTTTCTTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
21703564 ACTGGGCCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 5 0.09
56 50 0.91
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (56 bp):
GATGATAGTGAAATTTTCTTTTTATTTTCCATCTGCAGTTGGGTTTTATTAACCTT
Found at i:21716007 original size:20 final size:21
Alignment explanation
Indices: 21715962--21716009 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 21
21715952 AGTTCACATG
* *
21715962 TATTTTATGTTAATTTTTTTTA
1 TATTTTATG-TAACTTTTTATA
21715984 -ATTTTATG-AACTTTTTATA
1 TATTTTATGTAACTTTTTATA
21716003 TATTTTA
1 TATTTTA
21716010 AATTTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 9 0.39
20 6 0.26
21 8 0.35
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (21 bp):
TATTTTATGTAACTTTTTATA
Found at i:21717779 original size:17 final size:18
Alignment explanation
Indices: 21717757--21717791 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
21717747 GATGGATAAG
21717757 AAATAATGCCTA-TTTTT
1 AAATAATGCCTAGTTTTT
21717774 AAATAATGCCTAGTTTTT
1 AAATAATGCCTAGTTTTT
21717792 TAGTAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.34, C:0.11, G:0.09, T:0.46
Consensus pattern (18 bp):
AAATAATGCCTAGTTTTT
Found at i:21720061 original size:19 final size:20
Alignment explanation
Indices: 21720034--21720087 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
21720024 AAAATAATCT
21720034 TTAAATTTTAAATTAT-ATA
1 TTAAATTTTAAATTATGATA
* *
21720053 TTAATTTTTAGATTATGATA
1 TTAAATTTTAAATTATGATA
21720073 TGCTATAATTTTAAA
1 T--TA-AATTTTAAA
21720088 GTATCATGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 14 0.52
20 4 0.15
22 2 0.07
23 7 0.26
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (20 bp):
TTAAATTTTAAATTATGATA
Done.