Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000152.1 Hibiscus syriacus cultivar Beakdansim tig00000271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 141505
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1514 original size:31 final size:31
Alignment explanation
Indices: 1475--1588 Score: 112
Period size: 31 Copynumber: 3.7 Consensus size: 31
1465 TTGTAATTGT
1475 TGTGCATTATCTGAATGCGA-ACTGAAACTA
1 TGTGCATTATCTGAATGCGACACTGAAACTA
*
1505 TAGTGCATTATCTGAATGTGACACT-AACACTA
1 T-GTGCATTATCTGAATGCGACACTGAA-ACTA
* * * *
1537 T-TGTTATTATCTGAATGTGACACTGACACTGG
1 TGTG-CATTATCTGAATGCGACACTGAAACT-A
1569 TGTG--TTATCTGAATGCGACA
1 TGTGCATTATCTGAATGCGACA
1589 TACTACTAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
30 18 0.25
31 42 0.58
32 10 0.14
33 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (31 bp):
TGTGCATTATCTGAATGCGACACTGAAACTA
Found at i:2461 original size:12 final size:12
Alignment explanation
Indices: 2444--2546 Score: 70
Period size: 12 Copynumber: 8.7 Consensus size: 12
2434 GTATGTATAA
2444 TATTGATAATGG
1 TATTGATAATGG
*
2456 TATTGAT-GTGGG
1 TATTGATAAT-GG
*
2468 TATTGATACTGG
1 TATTGATAATGG
*
2480 TATTGAT-ACGAG
1 TATTGATAATG-G
* *
2492 TATTCATATTGG
1 TATTGATAATGG
* *
2504 TATTGATACTGA
1 TATTGATAATGG
2516 TATTGATACAT-G
1 TATTGATA-ATGG
* *
2528 TATTCAT-ATTG
1 TATTGATAATGG
2539 TATTGATA
1 TATTGATA
2547 CTTGATGAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
10 2 0.03
11 9 0.13
12 56 0.80
13 3 0.04
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (12 bp):
TATTGATAATGG
Found at i:2471 original size:24 final size:24
Alignment explanation
Indices: 2444--2531 Score: 90
Period size: 24 Copynumber: 3.7 Consensus size: 24
2434 GTATGTATAA
** *
2444 TATTGATAATGGTATTGATGTGGG
1 TATTGATAATGGTATTGATACGAG
*
2468 TATTGATACTGGTATTGATACGAG
1 TATTGATAATGGTATTGATACGAG
* *
2492 TATTCATATTGGTATTGATACTGA-
1 TATTGATAATGGTATTGATAC-GAG
2516 TATTGATACAT-GTATT
1 TATTGATA-ATGGTATT
2532 CATATTGTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 51 0.94
25 3 0.06
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (24 bp):
TATTGATAATGGTATTGATACGAG
Found at i:2495 original size:36 final size:36
Alignment explanation
Indices: 2455--2548 Score: 120
Period size: 36 Copynumber: 2.6 Consensus size: 36
2445 ATTGATAATG
* * *
2455 GTATTGATGTGGGTATTGATACTGGTATTGATACGA
1 GTATTCATATGGGTATTGATACTGATATTGATACGA
*
2491 GTATTCATATTGGTATTGATACTGATATTGATAC-A
1 GTATTCATATGGGTATTGATACTGATATTGATACGA
*
2526 TGTATTCATAT-TGTATTGATACT
1 -GTATTCATATGGGTATTGATACT
2549 TGATGAATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
35 12 0.23
36 40 0.77
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (36 bp):
GTATTCATATGGGTATTGATACTGATATTGATACGA
Found at i:7780 original size:19 final size:19
Alignment explanation
Indices: 7758--7798 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7748 TGTTCGAAAG
*
7758 AAAAAGAGA-GAGAGAGAGA
1 AAAAAGAGATGAAAGA-AGA
7777 AAAAAGAGATGAAAGAAGA
1 AAAAAGAGATGAAAGAAGA
7796 AAA
1 AAA
7799 TGGAAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAAAAGAGATGAAAGAAGA
Found at i:23244 original size:3 final size:3
Alignment explanation
Indices: 23236--23263 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23226 TTTCAGTCGA
23236 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23264 TTAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23705 original size:19 final size:19
Alignment explanation
Indices: 23669--23710 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
23659 GTCACTACTT
* *
23669 TAAAGTATAATTTTAAAAAG
1 TAAAGTATAA-ATTAAAAAA
23689 TAAA-TATAAATTAAAAAA
1 TAAAGTATAAATTAAAAAA
23707 TAAA
1 TAAA
23711 AATATTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 5 0.25
20 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
TAAAGTATAAATTAAAAAA
Found at i:26000 original size:3 final size:3
Alignment explanation
Indices: 25992--26021 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25982 ATATAAATCT
25992 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
26022 CTTTTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:29640 original size:5 final size:5
Alignment explanation
Indices: 29630--29689 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
29620 AACGGTCAAC
* * * *
29630 GGTCG GGTCG GGTCAG CGATCG GGTCG GGTC- GGTCG AGTCG GGTCA GGTCA
1 GGTCG GGTCG GGTC-G -GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG
*
29681 GGTCA GGTC
1 GGTCG GGTC
29690 AGATCGGTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
4 4 0.09
5 38 0.81
6 2 0.04
7 3 0.06
ACGTcount: A:0.10, C:0.22, G:0.48, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:29643 original size:17 final size:17
Alignment explanation
Indices: 29623--29660 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
29613 GAAAGTCAAC
*
29623 GGTCAACGGTCGGGTCG
1 GGTCAACGATCGGGTCG
*
29640 GGTCAGCGATCGGGTCG
1 GGTCAACGATCGGGTCG
29657 GGTC
1 GGTC
29661 GGTCGAGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGATCGGGTCG
Found at i:36899 original size:13 final size:13
Alignment explanation
Indices: 36881--36906 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36871 AAGAAATTCA
36881 ACGGTCAACGGTC
1 ACGGTCAACGGTC
36894 ACGGTCAACGGTC
1 ACGGTCAACGGTC
36907 GGGTCAGCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:36917 original size:12 final size:12
Alignment explanation
Indices: 36883--36923 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
36873 GAAATTCAAC
*
36883 GGTCAACGGTCAC
1 GGTCAACGGTC-G
36896 GGTCAACGGTCG
1 GGTCAACGGTCG
*
36908 GGTCAGCGGTCG
1 GGTCAACGGTCG
36920 GGTC
1 GGTC
36924 GGGTCGTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.15, C:0.27, G:0.41, T:0.17
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:36918 original size:7 final size:7
Alignment explanation
Indices: 36878--36906 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
36868 TCAAAGAAAT
36878 TCAACGG
1 TCAACGG
36885 TCAACGG
1 TCAACGG
36892 TC-ACGG
1 TCAACGG
36898 TCAACGG
1 TCAACGG
36905 TC
1 TC
36907 GGGTCAGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (7 bp):
TCAACGG
Found at i:36923 original size:5 final size:5
Alignment explanation
Indices: 36903--36952 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
36893 CACGGTCAAC
* *
36903 GGTCG GGTCAG CGGTCG GGTCG GGTC- GTTCG AGTCG GGTCG GGTCG GGTC
1 GGTCG GGTC-G -GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
36953 AGACCGGTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 3 0.08
5 29 0.76
6 2 0.05
7 4 0.11
ACGTcount: A:0.04, C:0.22, G:0.52, T:0.22
Consensus pattern (5 bp):
GGTCG
Found at i:43530 original size:15 final size:15
Alignment explanation
Indices: 43510--43539 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43500 AATAGGATAT
43510 TGAAGAAGGTTGGTA
1 TGAAGAAGGTTGGTA
43525 TGAAGAAGGTTGGTA
1 TGAAGAAGGTTGGTA
43540 GCTACGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
TGAAGAAGGTTGGTA
Found at i:45481 original size:2 final size:2
Alignment explanation
Indices: 45474--45516 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
45464 CTTCATATGT
45474 TA TA TA TA TA 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 TA TA TA TA TA
45516 T
1 T
45517 TTGTTTGTAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50520 original size:19 final size:19
Alignment explanation
Indices: 50468--50517 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
50458 AATTTTGTAA
50468 AAAATATAAATTTAAGGAT
1 AAAATATAAATTTAAGGAT
50487 AAAATATAAATTTAAGGAT
1 AAAATATAAATTTAAGGAT
50506 AAAATA-AAATTT
1 AAAATATAAATTT
50518 TAAAATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.19
19 25 0.81
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
AAAATATAAATTTAAGGAT
Found at i:50866 original size:18 final size:18
Alignment explanation
Indices: 50843--50893 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
50833 ATATAATATA
50843 TATATATAAA-TATAAGTT
1 TATATATAAACTATAA-TT
50861 TATATATAAACTAT-ATT
1 TATATATAAACTATAATT
50878 TATATTATAAACTATA
1 TATA-TATAAACTATA
50894 TAATTAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.20
18 21 0.70
19 3 0.10
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
TATATATAAACTATAATT
Found at i:51096 original size:14 final size:14
Alignment explanation
Indices: 51071--51126 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
51061 GTTCGTGAAT
*
51071 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
*
51085 GTTTGTTTATG-T-
1 GTTCGTTTATGTTC
51097 -TTCGTTTATGTTC
1 GTTCGTTTATGTTC
*
51110 GTTCGGTTATGTTC
1 GTTCGTTTATGTTC
51124 GTT
1 GTT
51127 TATGTTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 9 0.26
12 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.07, C:0.11, G:0.25, T:0.57
Consensus pattern (14 bp):
GTTCGTTTATGTTC
Found at i:51143 original size:24 final size:24
Alignment explanation
Indices: 51047--51146 Score: 103
Period size: 24 Copynumber: 4.1 Consensus size: 24
51037 CATAGGTCTC
* **
51047 GTTCGTTCAT-TTACGTTCGTGAAT
1 GTTCGTTTATGTT-CGTTCGTTTAT
* *
51071 GTTCGGTTATGTTCGTTTGTTTAT
1 GTTCGTTTATGTTCGTTCGTTTAT
*
51095 GTTTCGTTTATGTTCGTTCGGTTAT
1 G-TTCGTTTATGTTCGTTCGTTTAT
* *
51120 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCGTTTAT
51144 GTT
1 GTT
51147 TAACCTAATC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
24 40 0.63
25 23 0.37
ACGTcount: A:0.12, C:0.12, G:0.21, T:0.55
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGTTTAT
Found at i:52478 original size:23 final size:22
Alignment explanation
Indices: 52443--52511 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
52433 TGTTTATATG
*
52443 AACTATATA-TATAAACTATTA
1 AACTATATATTATAAACTATAA
*
52464 AACTATATATGTATAAATTATAA
1 AACTATATAT-TATAAACTATAA
*
52487 AATGTATATAGTTTATAAACTATAA
1 AA-CTATATA--TTATAAACTATAA
52512 TTTATATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 9 0.23
23 12 0.31
24 6 0.15
25 11 0.28
26 1 0.03
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
AACTATATATTATAAACTATAA
Found at i:52564 original size:18 final size:18
Alignment explanation
Indices: 52541--52579 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
52531 TATATTATTC
52541 AAAGTGAGTGGGGGAAGA
1 AAAGTGAGTGGGGGAAGA
52559 AAAGTGAGTGGGGGAAGA
1 AAAGTGAGTGGGGGAAGA
52577 AAA
1 AAA
52580 CTATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (18 bp):
AAAGTGAGTGGGGGAAGA
Found at i:52652 original size:19 final size:19
Alignment explanation
Indices: 52628--52688 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
52618 TTTATTTGGA
52628 AATTTAGAGGGAAATTGAG
1 AATTTAGAGGGAAATTGAG
* *
52647 AATTTAGAGGG-AATAGAA
1 AATTTAGAGGGAAATTGAG
*
52665 AATTTTGGAGGGAAATTGAG
1 AA-TTTAGAGGGAAATTGAG
52685 AATT
1 AATT
52689 GAGATTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 7 0.20
19 21 0.60
20 7 0.20
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (19 bp):
AATTTAGAGGGAAATTGAG
Found at i:53488 original size:21 final size:21
Alignment explanation
Indices: 53462--53506 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
53452 CCGTTAGACA
53462 GGGGGGAATC-GTTACCCCCTG
1 GGGGGGAATCTGTT-CCCCCTG
53483 GGGGGGAATCTGTTCCCCCTG
1 GGGGGGAATCTGTTCCCCCTG
53504 GGG
1 GGG
53507 AAAATCTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.11, C:0.27, G:0.42, T:0.20
Consensus pattern (21 bp):
GGGGGGAATCTGTTCCCCCTG
Found at i:54026 original size:2 final size:2
Alignment explanation
Indices: 54019--54049 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
54009 ATCTATAAAT
54019 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54050 GAAACACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:54116 original size:7 final size:7
Alignment explanation
Indices: 54101--54168 Score: 73
Period size: 7 Copynumber: 9.6 Consensus size: 7
54091 GTTTATAAAA
54101 AAACTCCT
1 AAAC-CCT
54109 AAACCCT
1 AAACCCT
*
54116 AAACTCT
1 AAACCCT
* *
54123 AAAACAT
1 AAACCCT
54130 AAACCCT
1 AAACCCT
*
54137 AAACCTT
1 AAACCCT
*
54144 TAACCCT
1 AAACCCT
54151 AAACCCT
1 AAACCCT
*
54158 AACCCCT
1 AAACCCT
54165 AAAC
1 AAAC
54169 TATATATGTA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
7 44 0.92
8 4 0.08
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:54238 original size:24 final size:25
Alignment explanation
Indices: 54211--54264 Score: 92
Period size: 24 Copynumber: 2.2 Consensus size: 25
54201 ACCCATGTAT
54211 AGTATATATATATAA-ACTATATAA
1 AGTATATATATATAATACTATATAA
54235 AGTATATATATATAATTACTATATAA
1 AGTATATATATATAA-TACTATATAA
54261 AGTA
1 AGTA
54265 AATTACTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 15 0.54
26 13 0.46
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
AGTATATATATATAATACTATATAA
Found at i:54257 original size:17 final size:17
Alignment explanation
Indices: 54237--54279 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
54227 CTATATAAAG
54237 TATATATA-TATAATTAC
1 TATATATAGTA-AATTAC
*
54254 TATATAAAGTAAATTAC
1 TATATATAGTAAATTAC
54271 T-TATATAGT
1 TATATATAGT
54280 TTATAGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (17 bp):
TATATATAGTAAATTAC
Found at i:54373 original size:21 final size:20
Alignment explanation
Indices: 54347--54385 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
54337 ATTCTAAACC
*
54347 CTAAACTTTAAACCATTAACA
1 CTAAACTCTAAACC-TTAACA
54368 CTAAACTCTAAACCTTAA
1 CTAAACTCTAAACCTTAA
54386 ATCCTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (20 bp):
CTAAACTCTAAACCTTAACA
Found at i:54392 original size:21 final size:21
Alignment explanation
Indices: 54341--54392 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
54331 ATAGAAATTC
*
54341 TAAACCCTAAACTTTAAACCAT
1 TAAA-CCTAAACTCTAAACCAT
54363 T-AACACTAAACTCTAAACC-T
1 TAAAC-CTAAACTCTAAACCAT
54383 TAAATCCTAA
1 TAAA-CCTAA
54393 TATAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 3 0.12
21 21 0.81
22 2 0.08
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAACCTAAACTCTAAACCAT
Found at i:54817 original size:27 final size:28
Alignment explanation
Indices: 54766--54844 Score: 53
Period size: 27 Copynumber: 2.9 Consensus size: 28
54756 TGTATAAACC
* *
54766 AAGTATAGTATATATAAACTA-TATATATA
1 AAGTATA-TATATATATA-TAGTTTATATA
*
54795 TA-TATATATATAT--ATAGTTTATATA
1 AAGTATATATATATATATAGTTTATATA
*
54820 AAGTAAAT-TACT-TATATAGTTTATA
1 AAGTATATATA-TATATATAGTTTATA
54845 GAAATGCTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.05
25 12 0.29
26 5 0.12
27 17 0.41
28 4 0.10
29 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (28 bp):
AAGTATATATATATATATAGTTTATATA
Found at i:54819 original size:2 final size:2
Alignment explanation
Indices: 54769--54810 Score: 57
Period size: 2 Copynumber: 20.0 Consensus size: 2
54759 ATAAACCAAG
*
54769 TA TA GTA TA TA TA AA CTA 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
54811 GTTTATATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 33 0.92
3 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:54919 original size:21 final size:21
Alignment explanation
Indices: 54893--54946 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
54883 ATAGTTTTAT
*
54893 ATAAACCCTAAATCTTAAATC
1 ATAAACCCTAAATCTTAAACC
*
54914 ATAAACCCTAAATTTTAAACC
1 ATAAACCCTAAATCTTAAACC
* *
54935 GTAAACACTAAA
1 ATAAACCCTAAA
54947 CACTAAACCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAAACCCTAAATCTTAAACC
Found at i:55349 original size:558 final size:556
Alignment explanation
Indices: 54208--55604 Score: 1745
Period size: 558 Copynumber: 2.5 Consensus size: 556
54198 ATAACCCATG
* *
54208 TATAGTATATATATATAAACTATATAAAGTATATATATATAATTACTATATAAAGTAAATTACTT
1 TATA-TATATATATATATA-TATATATA-TATATATATATAATTA-TATATAAAGTAAATTACTT
* * *
54273 ATATAGTTTATAGAAATACTATGCATAAACTATATAAAGTAATAAAGTATATAATTTTATAGAAA
62 ATATAGTTTATAGAAATGCTATGCATAAACTATATAAAGTAATAAAATATATAGTTTTATAGAAA
** * * * *
54338 TTCTAAACCCTAAACTTTAAACC---ATTAACAC-TAAACTCTAAACCTTAAATCCTAATATAAA
127 CCCTAAACCTTAAACTTTAAACCTAAATTAAC-CGTAAACACTAAACCATAAA-CCTAATGTAAA
** * ** *
54399 TATACTAGCACTAATGCATATATATTTGTAATAAAATAGTGGGCTTATGTATTGAACCTGTGTAA
190 TGGACTAGCACTAATGCATATATATTTGTAATAAAATAGTGTGCTTATGTATTGGGCCTATGTAA
54464 ACTAATGTAAATGGACTAGCACTAATGTAAATGGACTTATTTTTGGGTTTTACTATTACTTATTC
255 ACTAATGTAAATGGACTAGCAC--A--T-AATGGACTTATTTTTGGGTTTTACTATTACTTATTC
* *
54529 ATAACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAATATGCAACTAAAATATTAATTAT
315 ATAACAACAAAATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTAT
* *
54594 GCAAATGAAATTAATATGACATGTACTATTATTTATGAGCCATATAATATACAATGTGACATACT
380 GCAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATACAATGTGACATACT
54659 AATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTA
445 AATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTA
* * *
54724 ATAAATAATTTTATATAATATATATG-TATGTATGTATAAACCAAGTA
510 ATAAATAATTTTATAAAATATATATGATATATATATATAAA-CAAGTA
* *
54771 TAGTATATATAAACTATATATATATATATATATATATATAGTT-TATATAAAGTAAATTACTTAT
1 TA-TATATATATA-TATATATATATATATATATATATATAATTATATATAAAGTAAATTACTTAT
* *
54835 ATAGTTTATAGAAATGCTATGCATAGACTATATAAAGTAATAAAATATATAGTTTTATATAAACC
64 ATAGTTTATAGAAATGCTATGCATAAACTATATAAAGTAATAAAATATATAGTTTTATAGAAACC
* *
54900 CTAAATCTTAAA-TCATAAACCCTAAATTTTAAACCGTAAACACTAAA-CACTAAACCGTAATGT
129 CTAAACCTTAAACT-TTAAA-CCTAAA--TT-AACCGTAAACACTAAACCA-TAAACC-TAATGT
* * * *
54963 AAACGGACTAGCACAAATGCATATATATTTGTAATAAAAGAGTGTGCTTATGTATTGGGCCTATA
187 AAATGGACTAGCACTAATGCATATATATTTGTAATAAAATAGTGTGCTTATGTATTGGGCCTATG
* *
55028 TAAACTAATGTAGATGGACTAGCAC-T-ATGG-CTTATTTTT-GGTTTTATTATTACTTATTCAT
252 TAAACTAATGTAAATGGACTAGCACATAATGGACTTATTTTTGGGTTTTACTATTACTTATTCAT
55089 AACAACAAAATAAAT-GGTCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATG
317 AACAACAAAATAAATGGGT-TATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATG
* *
55153 TAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTA
381 CAAATGAAATTAATATGACATGTACTACTATTTATGAACCATATAATATACAATGTGACATACTA
* * *
55218 ATTATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTTAATGATTTTATTAAATAATT
446 ATTATTTAACACATAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATT-AAT--TT
* * * * * * *
55283 TTATAATATGTATGTATAAACCATGTATAGTATATATATATATATATATATATATATATATATA
508 TAATAA-AT-AAT-TTTATA--A---A-A-TATATAT-GATATATATATATA-A-ACA-A-GTA
55347 TATATATATATATATATATATATATATATATATATATATATATAAACTATATAAAGTAAATTACT
1 TATATATATATATATATATATATATATATATATATATA-AT-T--A-TATATAAAGTAAATTACT
* *
55412 TATATAGTTTATAGAAATAG-TATGCATAAACTATATAAAATAATAAAATATATAG-TTTATAGG
61 TATATAGTTTATAGAAAT-GCTATGCATAAACTATATAAAGTAATAAAATATATAGTTTTATAGA
* *
55475 AACCCTAAACCTTAAACTTTAAATCATAAA-T-A--GTAAACAATAAACCATAAACTCTAATGTA
125 AACCCTAAACCTTAAACTTTAAA-CCTAAATTAACCGTAAACACTAAACCATAAAC-CTAATGTA
55536 AATGGACTAGCACTAATGCATATATATTTGTAATAAAATAGT-TGACTTATGTATTGGGCCTATG
188 AATGGACTAGCACTAATGCATATATATTTGTAATAAAATAGTGTG-CTTATGTATTGGGCCTATG
55600 TAAAC
252 TAAAC
55605 AAATATATTG
Statistics
Matches: 727, Mismatches: 63, Indels: 79
0.84 0.07 0.09
Matches are distributed among these distances:
557 3 0.00
558 194 0.27
559 13 0.02
560 97 0.13
561 9 0.01
562 17 0.02
563 18 0.02
564 12 0.02
566 6 0.01
567 101 0.14
569 1 0.00
570 1 0.00
571 9 0.01
572 85 0.12
573 13 0.02
574 29 0.04
575 12 0.02
576 6 0.01
579 30 0.04
580 70 0.10
581 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (556 bp):
TATATATATATATATATATATATATATATATATATATAATTATATATAAAGTAAATTACTTATAT
AGTTTATAGAAATGCTATGCATAAACTATATAAAGTAATAAAATATATAGTTTTATAGAAACCCT
AAACCTTAAACTTTAAACCTAAATTAACCGTAAACACTAAACCATAAACCTAATGTAAATGGACT
AGCACTAATGCATATATATTTGTAATAAAATAGTGTGCTTATGTATTGGGCCTATGTAAACTAAT
GTAAATGGACTAGCACATAATGGACTTATTTTTGGGTTTTACTATTACTTATTCATAACAACAAA
ATAAATGGGTTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAAT
TAATATGACATGTACTACTATTTATGAACCATATAATATACAATGTGACATACTAATTATTTAAC
ACATAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTAATAAATAATTT
TATAAAATATATATGATATATATATATAAACAAGTA
Found at i:55399 original size:2 final size:2
Alignment explanation
Indices: 55308--55390 Score: 157
Period size: 2 Copynumber: 41.0 Consensus size: 2
55298 ATAAACCATG
55308 TA TA GTA TA TA 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 TA TA TA TA TA
55351 TA TA TA TA 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 TA TA TA TA
55391 AACTATATAA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 78 0.98
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:55713 original size:14 final size:14
Alignment explanation
Indices: 55694--55740 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
55684 ATTATTTTTT
55694 TATATAAATTAAAC
1 TATATAAATTAAAC
55708 TATAT-AATT----
1 TATATAAATTAAAC
55717 TATATAAATTAAAC
1 TATATAAATTAAAC
*
55731 TATATTAATT
1 TATATAAATT
55741 TTCCTTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:55718 original size:23 final size:24
Alignment explanation
Indices: 55692--55741 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
55682 ATATTATTTT
55692 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
55715 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
55739 TTT
1 TTT
55742 TCCTTTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:57366 original size:19 final size:19
Alignment explanation
Indices: 57342--57378 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
57332 ACAAAAATCC
57342 CGGTTTTTTCCGGTTTTCT
1 CGGTTTTTTCCGGTTTTCT
*
57361 CGGTTTTTTTCGGTTTTC
1 CGGTTTTTTCCGGTTTTC
57379 AGCCGGTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.22, T:0.59
Consensus pattern (19 bp):
CGGTTTTTTCCGGTTTTCT
Found at i:60266 original size:69 final size:68
Alignment explanation
Indices: 60152--60281 Score: 224
Period size: 69 Copynumber: 1.9 Consensus size: 68
60142 TCTCTCTCTT
* *
60152 TCATTTTTTCTGTTATCTATTCCATTATTCGATTATTATGGAGGGATTACTGAAGCTTTATCGAA
1 TCATTTTTTCTCTTATCTATTCCATTATTCGATTATTATGAAGGGATTACTGAAGCTTTATCGAA
60217 TGC
66 TGC
*
60220 TCATTTTTCTCTCTTATTTATTCCATTATTCGATTATTATGAAGGGATTACTGAAGCTTTAT
1 TCATTTTT-TCTCTTATCTATTCCATTATTCGATTATTATGAAGGGATTACTGAAGCTTTAT
60282 TGAAGGCATA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
68 8 0.14
69 50 0.86
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.48
Consensus pattern (68 bp):
TCATTTTTTCTCTTATCTATTCCATTATTCGATTATTATGAAGGGATTACTGAAGCTTTATCGAA
TGC
Found at i:60357 original size:26 final size:22
Alignment explanation
Indices: 60327--60385 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
60317 GAAGGCGATT
60327 TTTATTTATTTATTTTGAATAA
1 TTTATTTATTTATTTTGAATAA
60349 TTTATTTATTTATTTTGAATAA
1 TTTATTTATTTATTTTGAATAA
*
60371 TTTATTTATATATTT
1 TTTATTTATTTATTT
60386 ATTTGAAGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (22 bp):
TTTATTTATTTATTTTGAATAA
Found at i:60854 original size:20 final size:21
Alignment explanation
Indices: 60831--60877 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
60821 TAAATTTACG
*
60831 TTTATTTATTTTG-ATTTTTA
1 TTTATTTATATTGAATTTTTA
*
60851 TTTA-TAATATTGAATTTTTA
1 TTTATTTATATTGAATTTTTA
60871 TTTATTT
1 TTTATTT
60878 TATGTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 6 0.27
20 15 0.68
21 1 0.05
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTATTTATATTGAATTTTTA
Found at i:60934 original size:18 final size:18
Alignment explanation
Indices: 60871--60934 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 18
60861 TGAATTTTTA
*
60871 TTTATTTTATG-TTATTT
1 TTTATTTTATGATAATTT
** *
60888 TAAATTTTTCTGATAATTT
1 TTTA-TTTTATGATAATTT
*
60907 TTATAATTTATGATAATTT
1 TT-TATTTTATGATAATTT
60926 TTTATTTTA
1 TTTATTTTA
60935 CAGTGATTTG
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
17 2 0.06
18 12 0.34
19 20 0.57
20 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTATTTTATGATAATTT
Found at i:62273 original size:15 final size:15
Alignment explanation
Indices: 62249--62287 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
62239 GTGGTAGTGG
62249 TGGTGATGATATTGA
1 TGGTGATGATATTGA
* *
62264 TGGTGGTGATGTTGA
1 TGGTGATGATATTGA
*
62279 TGTTGATGA
1 TGGTGATGA
62288 AGATAGATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
TGGTGATGATATTGA
Found at i:70143 original size:19 final size:20
Alignment explanation
Indices: 70119--70158 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
70109 GATGTTTGGT
70119 TTTTAAAATGTAAAAT-TAA
1 TTTTAAAATGTAAAATGTAA
70138 TTTTAAAATGTAAAATGTAA
1 TTTTAAAATGTAAAATGTAA
70158 T
1 T
70159 ACTCTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
TTTTAAAATGTAAAATGTAA
Found at i:71054 original size:4 final size:4
Alignment explanation
Indices: 71045--71070 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
71035 TTAATCATTG
71045 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
71071 CTAATATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:74215 original size:6 final size:6
Alignment explanation
Indices: 74204--74249 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
74194 CAATATCGGG
* *
74204 TTGCAT TTGCAT TTGCAT ATGCATCT TTGCAT TTGCAT GTGCAT TT
1 TTGCAT TTGCAT TTGCAT TTGCA--T TTGCAT TTGCAT TTGCAT TT
74250 TTTGTATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 29 0.85
8 5 0.15
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
TTGCAT
Found at i:74234 original size:20 final size:20
Alignment explanation
Indices: 74209--74247 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
74199 TCGGGTTGCA
74209 TTTGCATTTGCATATGCATC
1 TTTGCATTTGCATATGCATC
*
74229 TTTGCATTTGCATGTGCAT
1 TTTGCATTTGCATATGCAT
74248 TTTTTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (20 bp):
TTTGCATTTGCATATGCATC
Found at i:75026 original size:3 final size:3
Alignment explanation
Indices: 75018--75042 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
75008 GGGGGCAAAT
75018 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
75043 ATAAATGAAA
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:75472 original size:13 final size:13
Alignment explanation
Indices: 75454--75523 Score: 59
Period size: 14 Copynumber: 5.0 Consensus size: 13
75444 GAAAATATAT
75454 AAAAAAGGAAAGA
1 AAAAAAGGAAAGA
*
75467 AAAAAAGATAGAAAAA
1 AAAAAAG---GAAAGA
*
75483 AAAGAAAAGAAAGA
1 AAA-AAAGGAAAGA
*
75497 AAAAAAGAAAAAGA
1 AAAAAAG-GAAAGA
*
75511 AAAAAAAGAAAGA
1 AAAAAAGGAAAGA
75524 GAGATAGAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 15 0.33
14 19 0.42
16 8 0.18
17 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (13 bp):
AAAAAAGGAAAGA
Found at i:75472 original size:24 final size:24
Alignment explanation
Indices: 75438--75483 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
75428 ACACAGAGAT
* * *
75438 AAAGAAGAAAATATATAAAAAAGG
1 AAAGAAAAAAAGATAGAAAAAAGG
75462 AAAGAAAAAAAGATAGAAAAAA
1 AAAGAAAAAAAGATAGAAAAAA
75484 AAGAAAAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (24 bp):
AAAGAAAAAAAGATAGAAAAAAGG
Found at i:75488 original size:9 final size:9
Alignment explanation
Indices: 75454--75521 Score: 56
Period size: 9 Copynumber: 8.1 Consensus size: 9
75444 GAAAATATAT
*
75454 AAAAAAGGA
1 AAAAAAGAA
*
75463 AAGAAA-AA
1 AAAAAAGAA
* *
75471 AAGATAGAA
1 AAAAAAGAA
75480 AAAAAAGAA
1 AAAAAAGAA
*
75489 AAGAAAG-A
1 AAAAAAGAA
75497 AAAAAAG--
1 AAAAAAGAA
75504 -AAAAAGAA
1 AAAAAAGAA
75512 AAAAAAGAA
1 AAAAAAGAA
75521 A
1 A
75522 GAGAGATAGA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
6 6 0.12
8 13 0.27
9 29 0.60
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:75492 original size:18 final size:17
Alignment explanation
Indices: 75438--75521 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
75428 ACACAGAGAT
* * *
75438 AAAGAAGAAAATATATA
1 AAAGAAGAAAAAAAAGA
* *
75455 AAA-AAGGAAAGAAA-A
1 AAAGAAGAAAAAAAAGA
75470 AAAGATAGAAAAAAAAGA
1 AAAGA-AGAAAAAAAAGA
75488 AAAGAA-AGAAAAAAAG-
1 AAAGAAGA-AAAAAAAGA
75504 AAA-AAGAAAAAAAAGA
1 AAAGAAGAAAAAAAAGA
75520 AA
1 AA
75522 GAGAGATAGA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
15 14 0.25
16 16 0.29
17 20 0.36
18 6 0.11
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAGAAGAAAAAAAAGA
Found at i:75522 original size:4 final size:4
Alignment explanation
Indices: 75461--75564 Score: 70
Period size: 4 Copynumber: 26.0 Consensus size: 4
75451 TATAAAAAAG
* * * *
75461 GAAA GAAA AAAA GATA GAAAA AAAA GAAAA GAAA GAAA AAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA G-AAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA
* * * * * *
75509 GAAAA AAAA GAAA GAGA GATA GAGA GAAA TAAA GAAA TAAA GAAA G-AA
1 G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
75557 GAAA GAAA
1 GAAA GAAA
75565 ATCAATCAAT
Statistics
Matches: 76, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
3 7 0.09
4 60 0.79
5 9 0.12
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:77735 original size:90 final size:90
Alignment explanation
Indices: 77471--77767 Score: 506
Period size: 90 Copynumber: 3.3 Consensus size: 90
77461 TAACATGATA
* *
77471 TTTTCAAATTAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCAGGCCA
1 TTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
*
77536 TCCATAAGACCTTCGGTGCAGGATG
66 TCCATAAGACCTTCAGTGCAGGATG
* *
77561 TTTTTAAATTAGATTTTAGAAACTAAGCCTTC-GGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
1 TTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
77625 TCCATAAGACCTTCAGTGCAGGATG
66 TCCATAAGACCTTCAGTGCAGGATG
77650 TTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
1 TTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
* * *
77715 TCCATAAGACCTCCATTGCAGGATA
66 TCCATAAGACCTTCAGTGCAGGATG
*
77740 TTTTCAAATGAGTTTTTAGAAACTAAGC
1 TTTTCAAATGAGATTTTAGAAACTAAGC
77768 ATGATTTTCA
Statistics
Matches: 197, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
89 85 0.43
90 112 0.57
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (90 bp):
TTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCA
TCCATAAGACCTTCAGTGCAGGATG
Found at i:77904 original size:37 final size:37
Alignment explanation
Indices: 77815--77904 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
77805 AAAAAAAAAG
**
77815 AATTTCATCTCACTTGAGACAATTTTTACTCAAAACA
1 AATTTCATCTCTTTTGAGACAATTTTTACTCAAAACA
* ** *
77852 AGTTTTGTCTCTTTTGAGACAA-TTTTCCTCAAAACA
1 AATTTCATCTCTTTTGAGACAATTTTTACTCAAAACA
77888 AATTTCATCTCGTTTTG
1 AATTTCATCTC-TTTTG
77905 TCTCGCTTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
36 21 0.49
37 22 0.51
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (37 bp):
AATTTCATCTCTTTTGAGACAATTTTTACTCAAAACA
Found at i:78038 original size:67 final size:67
Alignment explanation
Indices: 77899--78271 Score: 313
Period size: 67 Copynumber: 5.6 Consensus size: 67
77889 ATTTCATCTC
* * * * ** * **
77899 GTTTTGTCTCGCTTGAGACAGTTTCTTTTGAAAAAAAAAATCTTTGA-ATATATTTCTCTCGAAA
1 GTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGAT-CGTTTCCCTTTAAA
*
77963 AAA
65 CAA
* *
77966 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAAAC
1 GTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGATCGTTTCCCTTTAAAC
78031 AA
66 AA
* * *
78033 GTTTTGTATCTCTTGAGACAGTTT-TCCTTGAAACACT--GATCTTTGAGATCGTTTCCCTTT-A
1 GTTTTGTCTCCCTTGAGACAGTTTCT-CTTGAAACA-TAAAATCTTTGAGATCGTTTCCCTTTAA
78094 ACTGAA
64 AC--AA
* * *
78100 -TTTTGTCTCCCTAT-AGACAATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAAA
1 GTTTTGTCTCCCT-TGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGATCGTTTCCCTTTAAA
**
78163 CGT
65 CAA
* * * *
78166 GTTTTGTCTCTCTTAAGACAGTTT-TCCTTGAAACACT--GATCTTTGAGATCGTTTCCC-TTGA
1 GTTTTGTCTCCCTTGAGACAGTTTCT-CTTGAAACA-TAAAATCTTTGAGATCGTTTCCCTTTAA
78227 ACTGAA
64 AC--AA
* * *
78233 -TTTTGTCTCCCTAT-AGACAATTCCTCTTGAAACACAAAA
1 GTTTTGTCTCCCT-TGAGACAGTTTCTCTTGAAACATAAAA
78272 CCCTTGATTG
Statistics
Matches: 248, Mismatches: 38, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
65 9 0.04
66 95 0.38
67 138 0.56
68 6 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (67 bp):
GTTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGATCGTTTCCCTTTAAAC
AA
Found at i:78104 original size:66 final size:68
Alignment explanation
Indices: 77965--78266 Score: 310
Period size: 66 Copynumber: 4.5 Consensus size: 68
77955 TCTCGAAAAA
*
77965 AATTTTGTCTCCCTTGAGACAG-TTTCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAA
1 AATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACAT-AAATCTTTGAGATCGTTTCCCTTTAA
78029 AC--
65 ACTG
* * *
78031 AAGTTTTGTATCTCTTGAGACAGTTTTC-CTTGAAACACT-GATCTTTGAGATCGTTTCCCTTT-
1 AA-TTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACA-TAAATCTTTGAGATCGTTTCCCTTTA
78093 AACTG
64 AACTG
* * *
78098 AATTTTGTCTCCCTAT-AGACA-ATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTA
1 AATTTTGTCTCCCT-TGAGACAGTTTTCTCTTGAAACAT-AAATCTTTGAGATCGTTTCCCTTTA
78161 AACGTG
64 AAC-TG
* * * *
78167 --TTTTGTCTCTCTTAAGACAGTTTTC-CTTGAAACACT-GATCTTTGAGATCGTTTCCC-TTGA
1 AATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACA-TAAATCTTTGAGATCGTTTCCCTTTAA
78227 ACTG
65 ACTG
* *
78231 AATTTTGTCTCCCTAT-AGACA-ATTCCTCTTGAAACA
1 AATTTTGTCTCCCT-TGAGACAGTTTTCTCTTGAAACA
78267 CAAAACCCTT
Statistics
Matches: 199, Mismatches: 19, Indels: 36
0.78 0.07 0.14
Matches are distributed among these distances:
64 2 0.01
65 15 0.08
66 91 0.46
67 77 0.39
68 12 0.06
69 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (68 bp):
AATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAATCTTTGAGATCGTTTCCCTTTAAA
CTG
Found at i:78292 original size:133 final size:133
Alignment explanation
Indices: 77965--78271 Score: 526
Period size: 133 Copynumber: 2.3 Consensus size: 133
77955 TCTCGAAAAA
* *
77965 AATTTTGTCTCCCT-TGAGACAGTTTCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAA
1 AATTTTGTCTCCCTAT-AGACAATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAA
* *
78029 ACAAGTTTTGTATCTCTTGAGACAGTTTTCCTTGAAACACTGATCTTTGAGATCGTTTCCCTTTA
65 ACAAGTTTTGTATCTCTTAAGACAGTTTTCCTTGAAACACTGATCTTTGAGATCGTTTCCCTTGA
78094 ACTG
130 ACTG
78098 AATTTTGTCTCCCTATAGACAATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAAA
1 AATTTTGTCTCCCTATAGACAATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAAA
** *
78163 CGTGTTTTGTCTCTCTTAAGACAGTTTTCCTTGAAACACTGATCTTTGAGATCGTTTCCCTTGAA
66 CAAGTTTTGTATCTCTTAAGACAGTTTTCCTTGAAACACTGATCTTTGAGATCGTTTCCCTTGAA
78228 CTG
131 CTG
*
78231 AATTTTGTCTCCCTATAGACAATTCCTCTTGAAACACAAAA
1 AATTTTGTCTCCCTATAGACAATTCCTCTTGAAACATAAAA
78272 CCCTTGATTG
Statistics
Matches: 165, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
133 164 0.99
134 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (133 bp):
AATTTTGTCTCCCTATAGACAATTCCTCTTGAAACATAAAATCTTTGAGGTCGTTTCCCTTTAAA
CAAGTTTTGTATCTCTTAAGACAGTTTTCCTTGAAACACTGATCTTTGAGATCGTTTCCCTTGAA
CTG
Found at i:79077 original size:92 final size:91
Alignment explanation
Indices: 78668--79205 Score: 745
Period size: 91 Copynumber: 5.9 Consensus size: 91
78658 GATAAATCGA
* * * *
78668 TCAACATTGCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGGGGGAGAAGAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
78733 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * **
78759 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCAAATAAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
78824 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * * * *
78850 TCAACATTTCTAGTGGAGAGTTCATAATGAGAATAACTCATTCAATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
* *
78915 ATGAGAAGAACTTGTTCAACTTTGGT
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
78941 TCAAGATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
* *
79006 ATGAGAAGAGCTTGTTTCAACCTTAGC
66 ATGAGAAGAACTTG-TTCAACCTTGGC
* * * *
79033 TCAACATTTCCAACGAAGAGTTCATAATGAGAAGAACTCGTCCAACGAAGGAGAAGAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
* * **
79098 ATGAAAAGAGCTTGTTTCAACCTTAAC
66 ATGAGAAGAACTTG-TTCAACCTTGGC
* * ** *
79125 TCAACATTTCCAACGAAGAGTTCATAATGAGAAGAACTTGTCCAACGAAGGAGAAGAAGTTCATA
1 TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
*
79190 ATGAAAAGAAC-TGTTC
66 ATGAGAAGAACTTGTTC
79206 CTTCTGGCTC
Statistics
Matches: 412, Mismatches: 34, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
90 3 0.01
91 243 0.59
92 166 0.40
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (91 bp):
TCAACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGGC
Found at i:79355 original size:44 final size:44
Alignment explanation
Indices: 79217--79450 Score: 172
Period size: 44 Copynumber: 5.4 Consensus size: 44
79207 TTCTGGCTCG
* * * * *
79217 TCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCA-CTCGATT
1 TCTATCACAGAAGGAGTTGGATCAACATCAAC-TTTTAGCTCGA-T
* * * * * *
79262 TCCATCACAGAAGGAGGTGGATCGACAT----TTGTTCGCTCAAA
1 TCTATCACAGAAGGAGTTGGATCAACATCAACTT-TTAGCTCGAT
* * * *
79303 TCCATCACAGAAAGAGTTGGATCAACATCAACTTTTTGCTCGTT
1 TCTATCACAGAAGGAGTTGGATCAACATCAACTTTTAGCTCGAT
* * * * * *
79347 TCTATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGAA
1 TCTATCACAGAAGGAGTTGGATCAACATCAACTTTTAGCTCGAT
* * * * *
79391 TCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCAAT
1 TCTATCACAGAAGGAGTTGGATCAACATCAACTTTTAGCTCGAT
79435 TCTATCACAGAAGGAG
1 TCTATCACAGAAGGAG
79451 GTAGATCAGC
Statistics
Matches: 145, Mismatches: 38, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
40 2 0.01
41 26 0.18
42 4 0.03
44 88 0.61
45 25 0.17
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (44 bp):
TCTATCACAGAAGGAGTTGGATCAACATCAACTTTTAGCTCGAT
Found at i:79396 original size:88 final size:88
Alignment explanation
Indices: 79293--79458 Score: 260
Period size: 88 Copynumber: 1.9 Consensus size: 88
79283 TCGACATTTG
* **
79293 TTCGCTCAAATCCATCACAGAAAGAGTTGGATCAACATCAACTTTTTGCTCGTTTCTATCACAGA
1 TTCGCTCAAATCCATCACAGAAAGAGTTGGATCAACATCAACTTTTAGCTCAATTCTATCACAGA
79358 AGGAGGTAGATCAACACCAACAT
66 AGGAGGTAGATCAACACCAACAT
* * * * *
79381 TTCGCTCGAATCCATCGCAGAAGGAGTTGGATCAGCGTCAACTTTTAGCTCAATTCTATCACAGA
1 TTCGCTCAAATCCATCACAGAAAGAGTTGGATCAACATCAACTTTTAGCTCAATTCTATCACAGA
79446 AGGAGGTAGATCA
66 AGGAGGTAGATCA
79459 GCACACACAC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 70 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (88 bp):
TTCGCTCAAATCCATCACAGAAAGAGTTGGATCAACATCAACTTTTAGCTCAATTCTATCACAGA
AGGAGGTAGATCAACACCAACAT
Found at i:79767 original size:132 final size:128
Alignment explanation
Indices: 79350--79768 Score: 392
Period size: 132 Copynumber: 3.2 Consensus size: 128
79340 GCTCGTTTCT
* * * *
79350 ATCACAGAAGGAGGTAGATCAACACCAACATTTCGCTCGA-ATCCATCGCAGAAGGAGTTGGATC
1 ATCACAGAAGGAGGTGGATCAACATC-TCATTTC-CTC-ATATCCATCGCATAAGGAGTTGGATC
* * * *
79414 AGCGTCAACTTTTAGCTCAATTCTATCACAGAAGGAGGTAGATCAGCACACACACCTT-GTTTTG
63 AACATCAACTTTT-GCTCAATTCTATCACAGAAGGAGGTAGATCAGCACAGACA--TTCG-TTCG
79478 ATTCC
124 ATTCC
* * * * *
79483 ATCACAGAATGAGATGGATC--GA--T-ATTT--TCAT-T-CATCACATATGGAGTTGGATCAAC
1 ATCACAGAAGGAGGTGGATCAACATCTCATTTCCTCATATCCATCGCATAAGGAGTTGGATCAAC
* * *
79539 ATCAACTTTTTGCTCGATTCTATCACAAAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCC
66 ATCAAC-TTTTGCTCAATTCTATCACAGAAGGAGGTAGATCAGCACAGACAT-TCGTTCGATTCC
* * * ** * * *
79604 ATCGCAAAATGAGGTGGATTGACGTTTTCATTTCACTCATATCCATCGCATAAGGATTTGGATCA
1 ATCACAGAAGGAGGTGGATCAAC-ATCTCATTTC-CTCATATCCATCGCATAAGGAGTTGGATCA
* *
79669 ACATCAACATTTTGCTCAAATCTATCACAGAAGGAGGTAGATCAGCACTGACATTACGTTCGATT
64 ACATCAAC-TTTTGCTCAATTCTATCACAGAAGGAGGTAGATCAGCACAGACATT-CGTTCGATT
79734 CC
127 CC
*
79736 ATCACAGAAGGAGGTGGATCAATATCGTCATTT
1 ATCACAGAAGGAGGTGGATCAACATC-TCATTT
79769 TTGCTAGATT
Statistics
Matches: 232, Mismatches: 37, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
120 1 0.00
121 25 0.11
122 62 0.27
123 6 0.03
124 2 0.01
126 1 0.00
127 8 0.03
130 4 0.02
131 4 0.02
132 102 0.44
133 17 0.07
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (128 bp):
ATCACAGAAGGAGGTGGATCAACATCTCATTTCCTCATATCCATCGCATAAGGAGTTGGATCAAC
ATCAACTTTTGCTCAATTCTATCACAGAAGGAGGTAGATCAGCACAGACATTCGTTCGATTCC
Found at i:86576 original size:241 final size:240
Alignment explanation
Indices: 86154--86633 Score: 836
Period size: 241 Copynumber: 2.0 Consensus size: 240
86144 ATCTGTCTGC
*
86154 AAAAAGTTTATTTTTTCGATTACTTCCACCAAATTCTTAAAAAGGTCAATTCAACCCCTCTTAGC
1 AAAAAGTTTATTTTTTCGATTACTTCCACCAAATTCTTAAAAAAGTCAATTCAACCCCTCTTAGC
* * *
86219 GTTATTCGGTTGACCGATAAAGTTATCGCATAATCTCTAAAGAAAACGGTGATTAATTTTTAATA
66 GTTATTCGGTTAACCGATAAAGTTATCACATAAACTCTAAAGAAAACGGTGATTAATTTTTAATA
* * *
86284 TTTATTTTCAATTAAAAAATTTATGTTATGAAACAATTAAACAAAGACTTGGTCATCGATTAATG
131 TTTATTTACAATTAAAAAATTTACGTTATGAAACAATTAAACAAAGACTTGGTCATCAATTAATG
86349 TCAATAATGAAGCTAACATTATAGTTATATGAGAATGGGTTGTGT
196 TCAATAATGAAGCTAACATTATAGTTATATGAGAATGGGTTGTGT
* *
86394 AAAAAGTTTATTTTTTCGATTACTTCCACCAAATT-TTAAAAAAAAGTCAATTTAACCTCTCTTA
1 AAAAAGTTTATTTTTTCGATTACTTCCACCAAATTCTT--AAAAAAGTCAATTCAACCCCTCTTA
86458 GCGTTATTCGGTTAACCGATAAAGTTATCACATAAACTCTAAAGAAAACGGTGATTAATTTTTAA
64 GCGTTATTCGGTTAACCGATAAAGTTATCACATAAACTCTAAAGAAAACGGTGATTAATTTTTAA
*
86523 TATTTATTTACAATTAAAAAATTTACGTTATGGAACAATTAAACAAAGACTTGGTCATCAATTAA
129 TATTTATTTACAATTAAAAAATTTACGTTATGAAACAATTAAACAAAGACTTGGTCATCAATTAA
*
86588 TGTCAATAATGAAGCTGACATTATAGTTATATGAGAATGGGTTGTG
194 TGTCAATAATGAAGCTAACATTATAGTTATATGAGAATGGGTTGTG
86634 GTCCTTGCAT
Statistics
Matches: 227, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
239 2 0.01
240 35 0.15
241 190 0.84
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (240 bp):
AAAAAGTTTATTTTTTCGATTACTTCCACCAAATTCTTAAAAAAGTCAATTCAACCCCTCTTAGC
GTTATTCGGTTAACCGATAAAGTTATCACATAAACTCTAAAGAAAACGGTGATTAATTTTTAATA
TTTATTTACAATTAAAAAATTTACGTTATGAAACAATTAAACAAAGACTTGGTCATCAATTAATG
TCAATAATGAAGCTAACATTATAGTTATATGAGAATGGGTTGTGT
Found at i:87221 original size:73 final size:74
Alignment explanation
Indices: 87091--87227 Score: 240
Period size: 73 Copynumber: 1.9 Consensus size: 74
87081 ATACCTAAAG
87091 AGAACAAAATTATCTTTTCAGCATAAAAAATTTAATTTTAACCAATAAAACCACTTGTTGAATTA
1 AGAACAAAATTATCTTTTCAGCATAAAAAATTTAATTTTAACCAATAAAACCACTTGTTGAATTA
87156 ACCCGAAAA
66 ACCCGAAAA
* * *
87165 AGAACAAAATTATCTTTTTAGTATAAAAAA-TTACTTTTAACCAATAAAACCACTTGTTGAATT
1 AGAACAAAATTATCTTTTCAGCATAAAAAATTTAATTTTAACCAATAAAACCACTTGTTGAATT
87228 CGCCCAAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
73 32 0.53
74 28 0.47
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (74 bp):
AGAACAAAATTATCTTTTCAGCATAAAAAATTTAATTTTAACCAATAAAACCACTTGTTGAATTA
ACCCGAAAA
Found at i:94276 original size:14 final size:14
Alignment explanation
Indices: 94254--94307 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
94244 TTCGTGAACA
94254 TTCGATTATGTTCG
1 TTCGATTATGTTCG
*
94268 TTCGGTTATG-T--
1 TTCGATTATGTTCG
*
94279 TT-GTTTATGTTCG
1 TTCGATTATGTTCG
94292 TTCGATTATGTTCG
1 TTCGATTATGTTCG
94306 TT
1 TT
94308 TATGTTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
13 3 0.09
14 21 0.64
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (14 bp):
TTCGATTATGTTCG
Found at i:94286 original size:24 final size:24
Alignment explanation
Indices: 94259--94328 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
94249 GAACATTCGA
*
94259 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCGTTCGATTATGTTTGT
*
94283 TTATGTTCGTTCGATTATGTTCGT
1 TTATGTTCGTTCGATTATGTTTGT
*
94307 TTATGTTCATTC-ATTTATGTTT
1 TTATGTTCGTTCGA-TTATGTTT
94329 AACCCAATCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.02
24 40 0.98
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTCGATTATGTTTGT
Found at i:95069 original size:10 final size:10
Alignment explanation
Indices: 95054--95128 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
95044 GGGTCTCCAA
95054 CGTTTATGTT
1 CGTTTATGTT
95064 CGTTTATGTT
1 CGTTTATGTT
95074 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
95085 ATGTTCGTGTT
1 -CGTTTATGTT
95096 CGTTTATGTT
1 CGTTTATGTT
95106 CG----TGTT
1 CGTTTATGTT
95112 CGTTTATGTT
1 CGTTTATGTT
95122 CGTTTAT
1 CGTTTAT
95129 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:95085 original size:16 final size:16
Alignment explanation
Indices: 95060--95124 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
95050 CCAACGTTTA
95060 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
95076 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
95092 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
95108 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
95124 T
1 T
95125 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:95218 original size:16 final size:16
Alignment explanation
Indices: 95194--95226 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
95184 AAAAAAATTT
*
95194 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
95210 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
95226 T
1 T
95227 CTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:98876 original size:17 final size:18
Alignment explanation
Indices: 98854--98898 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
98844 TCACAGAATG
*
98854 TAAGATTATTGGTGG-AA
1 TAAGATTATTGGCGGAAA
**
98871 TAAGATTACCGGCGGAAA
1 TAAGATTATTGGCGGAAA
98889 TAAGATTATT
1 TAAGATTATT
98899 AGAAATATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (18 bp):
TAAGATTATTGGCGGAAA
Found at i:99527 original size:22 final size:22
Alignment explanation
Indices: 99502--99546 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
99492 CCAAACACGT
99502 CCTATAAATGTTTAAAAAACGC
1 CCTATAAATGTTTAAAAAACGC
99524 CCTATAAATGTTTAAAAAACGC
1 CCTATAAATGTTTAAAAAACGC
99546 C
1 C
99547 TTTCCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
CCTATAAATGTTTAAAAAACGC
Found at i:101285 original size:14 final size:14
Alignment explanation
Indices: 101266--101292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101256 AAAACTTAAC
101266 ATTAAATTTTCAAA
1 ATTAAATTTTCAAA
101280 ATTAAATTTTCAA
1 ATTAAATTTTCAA
101293 CAAAGTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATTTTCAAA
Found at i:101471 original size:18 final size:18
Alignment explanation
Indices: 101429--101483 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
101419 ATTGAATTAG
*
101429 TAATTTAATTTTTAT-TT
1 TAATTTATTTTTTATATT
* *
101446 TTA-GTATTTTTTATATT
1 TAATTTATTTTTTATATT
**
101463 TAATTTATTTTAAATATT
1 TAATTTATTTTTTATATT
101481 TAA
1 TAA
101484 ATAATTTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
16 9 0.31
17 6 0.21
18 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TAATTTATTTTTTATATT
Found at i:102525 original size:19 final size:19
Alignment explanation
Indices: 102503--102552 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
102493 TTTTTTTCTT
*
102503 TTTATTTTATT-TTATTAAA
1 TTTATTTT-TTATTATAAAA
102522 TTTATTTTTTATTATAAAA
1 TTTATTTTTTATTATAAAA
* *
102541 TTAAATTTTTAT
1 TTTATTTTTTAT
102553 AATATTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATTTTTTATTATAAAA
Found at i:102927 original size:93 final size:91
Alignment explanation
Indices: 102748--102929 Score: 319
Period size: 93 Copynumber: 2.0 Consensus size: 91
102738 ATTAGAAATT
102748 TAAACGTTTAACAATAAGTGAAAGTCAAATAAAATGAAATTATAAATTAAAGTAAAGATAGTGCA
1 TAAACGTTTAACAATAAGTGAAAGTCAAATAAAATGAAATTATAAATTAAAGTAAAGATAGTGCA
102813 AAGATTCTAATATAAACAAGTATGTA
66 AAGATTCTAATATAAACAAGTATGTA
* * *
102839 TAAACGTTTAACAATAAGTGAAAGTCAAATAAATATGAAATTATAAAATTATAGTACAGATTGTG
1 TAAACGTTTAACAATAAGTGAAAGTCAAATAAA-ATGAAATTAT-AAATTAAAGTAAAGATAGTG
102904 CAAAGATTCTAATATAAACAAGTATG
64 CAAAGATTCTAATATAAACAAGTATG
102930 GTCCAACTTC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
91 33 0.38
92 10 0.12
93 43 0.50
ACGTcount: A:0.51, C:0.07, G:0.13, T:0.29
Consensus pattern (91 bp):
TAAACGTTTAACAATAAGTGAAAGTCAAATAAAATGAAATTATAAATTAAAGTAAAGATAGTGCA
AAGATTCTAATATAAACAAGTATGTA
Found at i:103317 original size:2 final size:2
Alignment explanation
Indices: 103310--103345 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
103300 TATACTTACA
103310 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
103346 TGGTATATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105036 original size:29 final size:29
Alignment explanation
Indices: 104991--105049 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
104981 ATTTTCACCT
*
104991 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
105020 AACTAAATTGATATAAGCAATGACATCAA
1 AACTAAATTGATATAAGCAATGACATCAA
105049 A
1 A
105050 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATATAAGCAATGACATCAA
Found at i:109717 original size:29 final size:29
Alignment explanation
Indices: 109675--109733 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
109665 ATTTTCACCT
109675 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
109704 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
109733 A
1 A
109734 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:111230 original size:12 final size:12
Alignment explanation
Indices: 111213--111237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111203 TTCTCTTCCC
111213 CGTTCATCTCCT
1 CGTTCATCTCCT
111225 CGTTCATCTCCT
1 CGTTCATCTCCT
111237 C
1 C
111238 CGACTGTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.08, T:0.40
Consensus pattern (12 bp):
CGTTCATCTCCT
Found at i:117372 original size:162 final size:162
Alignment explanation
Indices: 117102--117477 Score: 449
Period size: 162 Copynumber: 2.3 Consensus size: 162
117092 ACAAAACGCG
* * * * * * *
117102 CTTCCCTTATAGTCGAGAGGCTTTTTCATAAATTTTTCACGCAAAACGATATTGCCTTGATTTTA
1 CTTCCCTTATAGTCGGGAGACTTTTCCATAGATTTTCCACACAAAACGACATTGCCTTGATTTTA
*
117167 TTTATTATTAAAAATAATATATTGTTATATCTAAAAATTAAGAAAAATATTCAAATAAAAATGA-
66 TTTAATATTAAAAATAATATATTGTTATATCTAAAAATTAAGAAAAATATTCAAATAAAAA-GAG
* * *
117231 TACTATTTTGTATGAGCAATCCTCAGAAACT-CA
130 TACCATTTTGTATGAGAAATCCTC-GAAAATACA
* * * * *
117264 CTTCCCTTGTAGTCGGGAGACTTTACCATAGATTTTCCACATAAAATGACATTGTCTTGATTTTA
1 CTTCCCTTATAGTCGGGAGACTTTTCCATAGATTTTCCACACAAAACGACATTGCCTTGATTTTA
* * *
117329 TTTAATATTAAGAATAATATATCACTG-TAT-TC-AAAACTTAAGAAAAATATTCGAATAAAAAG
66 TTTAATATTAAAAATAATATAT---TGTTATATCTAAAAATTAAGAAAAATATTCAAATAAAAAG
* *
117391 AGTACCCTTTTGTATGAGAAATCGTCGAAAATACA
128 AGTACCATTTTGTATGAGAAATCCTCGAAAATACA
* * *
117426 CTTTCCTTATAGTCGGTAGACTTTTCCATAGATTTTCCACAC-AATCGACATT
1 CTTCCCTTATAGTCGGGAGACTTTTCCATAGATTTTCCACACAAAACGACATT
117478 AAAAATATCT
Statistics
Matches: 181, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
161 15 0.08
162 159 0.88
163 2 0.01
164 3 0.02
165 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (162 bp):
CTTCCCTTATAGTCGGGAGACTTTTCCATAGATTTTCCACACAAAACGACATTGCCTTGATTTTA
TTTAATATTAAAAATAATATATTGTTATATCTAAAAATTAAGAAAAATATTCAAATAAAAAGAGT
ACCATTTTGTATGAGAAATCCTCGAAAATACA
Found at i:119072 original size:19 final size:19
Alignment explanation
Indices: 119036--119072 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
119026 ATATATATAT
* *
119036 ATATATGTATATATGTATG
1 ATATATGTACATAAGTATG
119055 ATATATGTACATAAGTAT
1 ATATATGTACATAAGTAT
119073 ATACATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.43
Consensus pattern (19 bp):
ATATATGTACATAAGTATG
Found at i:119097 original size:2 final size:2
Alignment explanation
Indices: 118935--119089 Score: 136
Period size: 2 Copynumber: 76.5 Consensus size: 2
118925 GAACAAAATA
* * * *
118935 AT AT AT AT AA AT AT AT AT AA AT AA AT AA AT AT AT AT AT A- AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
* *
118977 GT AT GA- AGT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
119020 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT GAT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
* * *
119063 AC AT A- AGT AT AT AC AT AA AT AT AT AT A
1 AT AT AT A-T AT AT AT AT AT AT AT AT AT A
119090 AGTATATAGC
Statistics
Matches: 121, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
1 3 0.02
2 113 0.93
3 5 0.04
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (2 bp):
AT
Found at i:119474 original size:10 final size:10
Alignment explanation
Indices: 119459--119558 Score: 87
Period size: 10 Copynumber: 9.5 Consensus size: 10
119449 TTTACAAAAA
119459 ATATAAGTAT
1 ATATAAGTAT
*
119469 ATATAAATAT
1 ATATAAGTAT
*
119479 AAATAAGTAT
1 ATATAAGTAT
119489 ATATAAGTAT
1 ATATAAGTAT
119499 AAATATAAGTAT
1 --ATATAAGTAT
*
119511 ATA-CA-TAT
1 ATATAAGTAT
119519 ATAAGTATAGTAT
1 AT-A-TA-AGTAT
119532 ATATAAGTAT
1 ATATAAGTAT
*
119542 ATACATAAATAT
1 AT--ATAAGTAT
119554 ATATA
1 ATATA
119559 TGTAAGTATA
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 39 0.53
11 2 0.03
12 21 0.28
13 5 0.07
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (10 bp):
ATATAAGTAT
Found at i:119478 original size:16 final size:16
Alignment explanation
Indices: 119457--119554 Score: 70
Period size: 16 Copynumber: 6.4 Consensus size: 16
119447 TATTTACAAA
119457 AAATATAAGTATATAT
1 AAATATAAGTATATAT
119473 AAATATAA--ATA-AGT
1 AAATATAAGTATATA-T
*
119487 ATATATAAG----TAT
1 AAATATAAGTATATAT
*
119499 AAATATAAGTATATAC
1 AAATATAAGTATATAT
*
119515 ATATATAAGTATAGTAT
1 AAATATAAGTATA-TAT
119532 --ATATAAGTATATACAT
1 AAATATAAGTATAT--AT
119548 AAATATA
1 AAATATA
119555 TATATGTAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 22
0.71 0.05 0.24
Matches are distributed among these distances:
12 9 0.14
13 2 0.03
14 12 0.18
15 11 0.17
16 24 0.37
17 2 0.03
18 5 0.08
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (16 bp):
AAATATAAGTATATAT
Found at i:119486 original size:20 final size:20
Alignment explanation
Indices: 119461--119558 Score: 97
Period size: 22 Copynumber: 4.7 Consensus size: 20
119451 TACAAAAAAT
119461 ATAAGTATATATAAATATAA
1 ATAAGTATATATAAATATAA
*
119481 ATAAGTATATATAAGTATAAA
1 ATAAGTATATATAAATAT-AA
* *
119502 TATAAGTATATACATATATAA
1 -ATAAGTATATATAAATATAA
* *
119523 GTATAGTATATATAAGTATATAC
1 ATA-AGTATATATAA--ATATAA
*
119546 ATAAATATATATA
1 ATAAGTATATATA
119559 TGTAAGTATA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 19 0.30
21 13 0.21
22 24 0.38
23 7 0.11
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
ATAAGTATATATAAATATAA
Found at i:119494 original size:14 final size:14
Alignment explanation
Indices: 119475--119571 Score: 53
Period size: 14 Copynumber: 7.3 Consensus size: 14
119465 GTATATATAA
119475 ATATAAATAAGTAT
1 ATATAAATAAGTAT
* *
119489 ATATAAGT-A-TAA
1 ATATAAATAAGTAT
*
119501 ATATAAGT-A-TAT
1 ATATAAATAAGTAT
* *
119513 ACATATATAAGTAT
1 ATATAAATAAGTAT
*
119527 AGTATATATAAG--T
1 A-TATAAATAAGTAT
* *
119540 ATATACATAAATAT
1 ATATAAATAAGTAT
**
119554 ATATATGTAAGTAT
1 ATATAAATAAGTAT
119568 ATAT
1 ATAT
119572 GTATCATGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
12 26 0.39
13 4 0.06
14 27 0.41
15 9 0.14
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (14 bp):
ATATAAATAAGTAT
Found at i:119549 original size:12 final size:11
Alignment explanation
Indices: 119461--119570 Score: 72
Period size: 10 Copynumber: 10.0 Consensus size: 11
119451 TACAAAAAAT
119461 ATAAGTATAT-
1 ATAAGTATATA
*
119471 ATAAATATA-A
1 ATAAGTATATA
119481 ATAAGTATAT-
1 ATAAGTATATA
*
119491 ATAAGTATAAA
1 ATAAGTATATA
119502 TATAAGTATATA
1 -ATAAGTATATA
119514 CAT-A-TATA-A
1 -ATAAGTATATA
*
119523 GTATAGTATAT-
1 ATA-AGTATATA
119534 ATAAGTATATA
1 ATAAGTATATA
*
119545 CATAAATATATA
1 -ATAAGTATATA
119557 TATGTAAGTATATA
1 -A--TAAGTATATA
119571 TGTATCATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
8 1 0.01
9 1 0.01
10 37 0.47
11 7 0.09
12 23 0.29
14 9 0.12
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (11 bp):
ATAAGTATATA
Found at i:119989 original size:48 final size:48
Alignment explanation
Indices: 119927--120023 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
119917 AAAAACAAAG
*
119927 CAAATAACATCATCATAATGTTCCAAGTTGTGACAATTAAACAAAAAA
1 CAAATAACATCATCAAAATGTTCCAAGTTGTGACAATTAAACAAAAAA
* *
119975 CAAATAGCATCATCAAAATGTTCCAAGTTGTGACACTTAAACAAAAAA
1 CAAATAACATCATCAAAATGTTCCAAGTTGTGACAATTAAACAAAAAA
120023 C
1 C
120024 TAAACGAAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (48 bp):
CAAATAACATCATCAAAATGTTCCAAGTTGTGACAATTAAACAAAAAA
Found at i:121102 original size:20 final size:20
Alignment explanation
Indices: 121074--121112 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
121064 TGTTGGGCTT
*
121074 GATATTACTGTAGCAGTATC
1 GATACTACTGTAGCAGTATC
121094 GATACTACTGTAGCAGTAT
1 GATACTACTGTAGCAGTAT
121113 TGGTACCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (20 bp):
GATACTACTGTAGCAGTATC
Found at i:125140 original size:28 final size:28
Alignment explanation
Indices: 125095--125154 Score: 104
Period size: 28 Copynumber: 2.1 Consensus size: 28
125085 GGGATTACTT
125095 AAGGGGTGAGTCAGTGGTAAAGAAAGAG
1 AAGGGGTGAGTCAGTGGTAAAGAAAGAG
125123 AAGGGGTGAGTC-GATGGTAAAGAAAGAG
1 AAGGGGTGAGTCAG-TGGTAAAGAAAGAG
125151 AAGG
1 AAGG
125155 AGTCGAGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.40, C:0.03, G:0.43, T:0.13
Consensus pattern (28 bp):
AAGGGGTGAGTCAGTGGTAAAGAAAGAG
Found at i:125551 original size:2 final size:2
Alignment explanation
Indices: 125544--125598 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
125534 ACCAAGATGG
125544 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
125586 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
125599 AGTATACATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125860 original size:94 final size:94
Alignment explanation
Indices: 125762--125948 Score: 311
Period size: 94 Copynumber: 2.0 Consensus size: 94
125752 TAAATGCATT
125762 ATCAAAATATGATAAATTATAAATAATAACATTTAAAATAATATAATTTAAGACTAAAGTCTAAG
1 ATCAAAATATGATAAATTATAAATAATAACATTTAAAATAATATAATTTAAGACTAAAGTCTAAG
* *
125827 GGTTTTGGTCTACAGTTAAACATGAGTGC
66 GGCTTTGATCTACAGTTAAACATGAGTGC
* * *
125856 ATCAAAATATGATAAATTATAATTAATAATATTTAAAATAATATAATTTAGGACTAAAGTCTAAG
1 ATCAAAATATGATAAATTATAAATAATAACATTTAAAATAATATAATTTAAGACTAAAGTCTAAG
* *
125921 GGCTTTGATCTATAGTTAAATATGAGTG
66 GGCTTTGATCTACAGTTAAACATGAGTG
125949 ACTAAAATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (94 bp):
ATCAAAATATGATAAATTATAAATAATAACATTTAAAATAATATAATTTAAGACTAAAGTCTAAG
GGCTTTGATCTACAGTTAAACATGAGTGC
Found at i:126251 original size:16 final size:15
Alignment explanation
Indices: 126218--126260 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
126208 GTTTACTTAA
126218 GAATGATTAAACGCT
1 GAATGATTAAACGCT
*
126233 GAATGATTCAAATGCT
1 GAATGATT-AAACGCT
126249 GAATGATTAAAC
1 GAATGATTAAAC
126261 ACTCTGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (15 bp):
GAATGATTAAACGCT
Found at i:126352 original size:27 final size:27
Alignment explanation
Indices: 126309--126374 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
126299 GATAATAGCT
126309 CTGAATCATTCAAAATGCACTTTGATG
1 CTGAATCATTCAAAATGCACTTTGATG
* * *
126336 CTGAATCATTTAGAATGTACTTTGATG
1 CTGAATCATTCAAAATGCACTTTGATG
126363 CTGAATCATTCA
1 CTGAATCATTCA
126375 GAGGTGCGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (27 bp):
CTGAATCATTCAAAATGCACTTTGATG
Found at i:126432 original size:20 final size:20
Alignment explanation
Indices: 126391--126453 Score: 90
Period size: 20 Copynumber: 3.0 Consensus size: 20
126381 CGAAACAAAC
*
126391 GCGCTGAATAATTCAACATTCA
1 GCGCTGAATAATT--TCATTCA
126413 GCGCTGAATAATTTCATTCA
1 GCGCTGAATAATTTCATTCA
*
126433 ACGCTGAATAATTTCATTCA
1 GCGCTGAATAATTTCATTCA
126453 G
1 G
126454 AGCCAAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 25 0.66
22 13 0.34
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (20 bp):
GCGCTGAATAATTTCATTCA
Found at i:126765 original size:21 final size:22
Alignment explanation
Indices: 126731--126772 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
126721 TTACATAAAA
126731 TAAATTAAACTTATA-AATATT
1 TAAATTAAACTTATATAATATT
**
126752 TAAATTAATGTTATATAATAT
1 TAAATTAAACTTATATAATAT
126773 AATAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TAAATTAAACTTATATAATATT
Found at i:126839 original size:13 final size:13
Alignment explanation
Indices: 126822--126859 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
126812 AAATTTAATG
126822 ATTATAATTAAGA
1 ATTATAATTAAGA
*
126835 TTTATAATATAAGA
1 ATTATAAT-TAAGA
126849 ATTATAATTAA
1 ATTATAATTAA
126860 TATAGAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (13 bp):
ATTATAATTAAGA
Found at i:127011 original size:16 final size:16
Alignment explanation
Indices: 126992--127024 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
126982 TGTAACTTAT
*
126992 AAGTCAGGTAAATATC
1 AAGTCAAGTAAATATC
127008 AAGTCAAGTAAATATC
1 AAGTCAAGTAAATATC
127024 A
1 A
127025 GATAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (16 bp):
AAGTCAAGTAAATATC
Found at i:127066 original size:16 final size:16
Alignment explanation
Indices: 127045--127075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
127035 ATAATAAGCG
*
127045 GAATCATTTACAAGTT
1 GAATCAATTACAAGTT
127061 GAATCAATTACAAGT
1 GAATCAATTACAAGT
127076 CATATTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
GAATCAATTACAAGTT
Found at i:128779 original size:19 final size:19
Alignment explanation
Indices: 128755--128805 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
128745 ACCAACTAAA
*
128755 TCGCAATGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
128774 TCGCAACGCGATCGATAAT
1 TCGCAACGCGATCGATAAT
128793 TCGCAACGCGATC
1 TCGCAACGCGATC
128806 TCCAGTATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (19 bp):
TCGCAACGCGATCGATAAT
Found at i:128877 original size:21 final size:21
Alignment explanation
Indices: 128853--128905 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
128843 ATTCTAACTA
128853 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
128874 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
* *
128895 TTGCAATGCGA
1 TCGCATTGCGA
128906 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:128922 original size:20 final size:20
Alignment explanation
Indices: 128897--129007 Score: 204
Period size: 20 Copynumber: 5.5 Consensus size: 20
128887 TTCCTAATTT
128897 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
128917 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
*
128937 GTAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
128957 GCAATGCGAATACGTAAATC
1 GCAATGCGAATACGTAAATC
*
128977 GCAATGCGAATACGTAAATT
1 GCAATGCGAATACGTAAATC
128997 GCAATGCGAAT
1 GCAATGCGAAT
129008 CTGACTATCG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.40, C:0.18, G:0.21, T:0.22
Consensus pattern (20 bp):
GCAATGCGAATACGTAAATC
Found at i:129020 original size:20 final size:20
Alignment explanation
Indices: 129004--129060 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
128994 ATTGCAATGC
129004 GAATCTGACTATCGCAACGA
1 GAATCTGACTATCGCAACGA
*
129024 GATTCTGACTATCGCAACGA
1 GAATCTGACTATCGCAACGA
* * *
129044 GATTTTGACTATTGCAA
1 GAATCTGACTATCGCAA
129061 TACTGAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (20 bp):
GAATCTGACTATCGCAACGA
Found at i:129929 original size:24 final size:24
Alignment explanation
Indices: 129902--129955 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
129892 GTATTCGAAA
129902 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
129926 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
129950 TTTGAT
1 TTTGAT
129956 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:130164 original size:15 final size:14
Alignment explanation
Indices: 130146--130181 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
130136 GAAAAAGAAG
130146 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
130161 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
130175 AAGAAAA
1 AAGAAAA
130182 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:131267 original size:20 final size:20
Alignment explanation
Indices: 131240--131333 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
131230 GACATTCATT
131240 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
* *
131260 TAACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
131280 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
131300 TGACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
131320 TGACTATCGCAACG
1 TGACTATCGCAACG
131334 AGAGAATCGC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
20 62 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:131393 original size:34 final size:33
Alignment explanation
Indices: 131305--131399 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
131295 GGAATTGACT
* **
131305 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
131339 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
131372 ATCGTAATGCGAAAATGAAAATCGCAAC
1 ATCGCAATGCG-AAATGAAAATCGCAAC
131400 ACGAATTTAG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.55
34 25 0.45
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:131602 original size:14 final size:14
Alignment explanation
Indices: 131583--131619 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
131573 CATCAATTAA
131583 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
131597 ACAAATCATCTTTT
1 ACAAATCAACATTT
131611 ACAAATCAA
1 ACAAATCAA
131620 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:133108 original size:42 final size:42
Alignment explanation
Indices: 133004--133112 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
132994 AGAATGTTGG
* * * *
133004 GAGGGACCTCTTCAACGATGACAGTGGCCTCTTGAACGGTGT
1 GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGT
* *
133046 GAGGGGACTCTTGAGA-GATGATAGGGGCCTCTTGAACGATAG-
1 GAGGGGCCTCTTGA-ACGATGACAGGGGCCTCTTGAACGAT-GT
133088 G-GGAGGCCTCTTGAACGATGACAGG
1 GAGG-GGCCTCTTGAACGATGACAGG
133113 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
41 3 0.05
42 50 0.91
43 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (42 bp):
GAGGGGCCTCTTGAACGATGACAGGGGCCTCTTGAACGATGT
Found at i:133615 original size:20 final size:20
Alignment explanation
Indices: 133592--133680 Score: 97
Period size: 20 Copynumber: 4.5 Consensus size: 20
133582 GAAACTTAAA
133592 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
133612 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* * **
133632 ATCACAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* ** **
133652 ATCACAATACGAATTTGACT
1 ATCGCAACGCGAAAATGACT
133672 ATCGCAACG
1 ATCGCAACG
133681 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:133785 original size:20 final size:20
Alignment explanation
Indices: 133740--133791 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
133730 GCGATTCTCT
133740 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
* *
133760 CGTTGCAATAGTCATTTTCG
1 CATTGCGATAGTCATTTTCG
*
133780 TATTGCGATAGT
1 CATTGCGATAGT
133792 AAACTATTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTCG
Found at i:135713 original size:20 final size:20
Alignment explanation
Indices: 135690--135757 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
135680 GAAACTTTAA
135690 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
135710 ATCGCAATACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* ** *
135730 ATCGCAACGCGAATTTAACT
1 ATCGCAACACGAAAATGACT
135750 ATCGCAAC
1 ATCGCAAC
135758 GCAAGAATCG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:135798 original size:33 final size:34
Alignment explanation
Indices: 135730--135802 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 34
135720 GAAAATGACT
* * *
135730 ATCGCAACGCGAATTTAACTATCGCAACGCAAGA
1 ATCGCAACGCGAAATGAACAATCGCAACGCAAGA
135764 ATCGCAACGCGAAATGAA-AATCGCAACG-ACAGA
1 ATCGCAACGCGAAATGAACAATCGCAACGCA-AGA
135797 ATCGCA
1 ATCGCA
135803 TTGCGATAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 18 0.51
34 16 0.46
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (34 bp):
ATCGCAACGCGAAATGAACAATCGCAACGCAAGA
Found at i:136190 original size:22 final size:22
Alignment explanation
Indices: 136137--136193 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
136127 ATGATTTTGC
* *
136137 CGGAGATGGAGACTGATATCGT
1 CGGAGATGGGGACTGATATCAT
*
136159 CGGAGATGGGGACTGATTTCAT
1 CGGAGATGGGGACTGATATCAT
136181 CGGAGATGGGGAC
1 CGGAGATGGGGAC
136194 AGATGTCGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.25, C:0.14, G:0.40, T:0.21
Consensus pattern (22 bp):
CGGAGATGGGGACTGATATCAT
Found at i:136411 original size:20 final size:20
Alignment explanation
Indices: 136388--136440 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
136378 CAATGGTAAG
*
136388 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
136408 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
136428 ATTCGTATTGCGA
1 ATTCGCATTGCGA
136441 ATTAGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:136463 original size:21 final size:21
Alignment explanation
Indices: 136437--136482 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
136427 TATTCGTATT
136437 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
136458 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
136479 GCGA
1 GCGA
136483 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:136495 original size:20 final size:20
Alignment explanation
Indices: 136470--136515 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
136460 GAATTTGGAA
136470 AATCGCAATGCGATAGTCAG
1 AATCGCAATGCGATAGTCAG
*
136490 AATCGCAATGTGATAGTCAG
1 AATCGCAATGCGATAGTCAG
136510 AATCGC
1 AATCGC
136516 GTTGCGAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (20 bp):
AATCGCAATGCGATAGTCAG
Found at i:139336 original size:4 final size:4
Alignment explanation
Indices: 139329--139409 Score: 146
Period size: 4 Copynumber: 20.2 Consensus size: 4
139319 GAGGCCTTTT
139329 CGTC CGTC CGTC CGTC CGTCC CGT- CGTC CGTC CGTC CGTC CGTC CGTC
1 CGTC CGTC CGTC CGTC CGT-C CGTC CGTC CGTC CGTC CGTC CGTC CGTC
139377 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC C
1 CGTC CGTC CGTC CGTC CGTC CGTC CGTC CGTC C
139410 ATCCATCCAT
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.04
4 68 0.91
5 4 0.05
ACGTcount: A:0.00, C:0.51, G:0.25, T:0.25
Consensus pattern (4 bp):
CGTC
Found at i:139414 original size:4 final size:4
Alignment explanation
Indices: 139407--139450 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
139397 CGTCCGTCCG
139407 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCC- TCCA T
1 TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA TCCA T
139451 GAATAAGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.23, C:0.50, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCA
Found at i:140883 original size:26 final size:26
Alignment explanation
Indices: 140813--140883 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 26
140803 CTATATATAC
*
140813 TTTAAAAA-ATATTTT-TTATATTAA
1 TTTAAAAATATATTTTATTAAATTAA
* *
140837 CTTATTAAATATATTTATTATTAAATTAA
1 TTTA-AAAATATA-TT-TTATTAAATTAA
140866 TTTAAAAATATATTTTAT
1 TTTAAAAATATATTTTAT
140884 GTTTACATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
24 3 0.08
25 3 0.08
26 7 0.19
27 4 0.11
28 9 0.24
29 11 0.30
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTAAAAATATATTTTATTAAATTAA
Done.