Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007751.1 Hibiscus syriacus cultivar Beakdansim tig00110017_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: 1434969
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 6
Found at i:5033 original size:3 final size:3
Alignment explanation
Indices: 5025--5052 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
5015 AAAAACACAC
5025 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
5053 TTTTTTTAAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13158 original size:21 final size:21
Alignment explanation
Indices: 13132--13218 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
13122 GTGTTGCATT
*
13132 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
*
13153 TCGCGTTGCGATAGTTAAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
13174 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
13194 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
13215 TCGC
1 TCGC
13219 AACGTGAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.28
21 38 0.72
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:13255 original size:28 final size:29
Alignment explanation
Indices: 13199--13256 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
13189 CCATTTCGCG
*
13199 TTGCGATAGTTGAAAATCGCAACGTGAAT
1 TTGCGATAGTTGAAAATCGCAACGCGAAT
* * *
13228 TTGCGATAG-TGGAGATCGCAATGCGAAT
1 TTGCGATAGTTGAAAATCGCAACGCGAAT
13256 T
1 T
13257 AGAGATCGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 16 0.64
29 9 0.36
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGCGATAGTTGAAAATCGCAACGCGAAT
Found at i:17067 original size:25 final size:25
Alignment explanation
Indices: 17034--17090 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
17024 GGCTATTTTC
* * *
17034 TCACCGATACACCAATCTGAACTTT
1 TCACTGATACACCAATCTAAACCTT
*
17059 TCACTGATACACCCATCTAAACCTT
1 TCACTGATACACCAATCTAAACCTT
*
17084 CCACTGA
1 TCACTGA
17091 ATTAGTCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.35, G:0.07, T:0.26
Consensus pattern (25 bp):
TCACTGATACACCAATCTAAACCTT
Found at i:23173 original size:19 final size:18
Alignment explanation
Indices: 23145--23183 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
23135 AATACTGGCC
23145 TATGGGTATCGATACGAA
1 TATGGGTATCGATACGAA
*
23163 TATGTGGTATCGATACTAA
1 TATG-GGTATCGATACGAA
23182 TA
1 TA
23184 CCTTATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (18 bp):
TATGGGTATCGATACGAA
Found at i:23450 original size:20 final size:20
Alignment explanation
Indices: 23422--23472 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
23412 AGTGAACTTG
23422 GTATCGATACCAC-CCTATGA
1 GTATCGATACCACACCTAT-A
* *
23442 GTATTGATACCTCACCTATA
1 GTATCGATACCACACCTATA
23462 GTATCGATACC
1 GTATCGATACC
23473 CATTGTATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (20 bp):
GTATCGATACCACACCTATA
Found at i:25382 original size:26 final size:26
Alignment explanation
Indices: 25346--25407 Score: 124
Period size: 26 Copynumber: 2.4 Consensus size: 26
25336 GAATATCAAG
25346 CAATGGTTGCTATCACGTGTGAAATA
1 CAATGGTTGCTATCACGTGTGAAATA
25372 CAATGGTTGCTATCACGTGTGAAATA
1 CAATGGTTGCTATCACGTGTGAAATA
25398 CAATGGTTGC
1 CAATGGTTGC
25408 AGTTTCTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (26 bp):
CAATGGTTGCTATCACGTGTGAAATA
Found at i:28902 original size:13 final size:13
Alignment explanation
Indices: 28884--28908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28874 ATCTAACCAT
28884 TGCTCTAATTCCA
1 TGCTCTAATTCCA
28897 TGCTCTAATTCC
1 TGCTCTAATTCC
28909 CTTTTTTCTT
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:0.20, C:0.32, G:0.08, T:0.40
Consensus pattern (13 bp):
TGCTCTAATTCCA
Found at i:33290 original size:16 final size:16
Alignment explanation
Indices: 33269--33302 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
33259 TTACTATTCA
*
33269 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
33285 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
33301 CG
1 CG
33303 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:40249 original size:25 final size:25
Alignment explanation
Indices: 40221--40269 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
40211 TATCAAATTC
* *
40221 AAATTCAAAATTCAATGTTTAAAAT
1 AAATTCAAAATCCAATGTCTAAAAT
* *
40246 AAATTTAAAGTCCAATGTCTAAAA
1 AAATTCAAAATCCAATGTCTAAAA
40270 ATATATATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (25 bp):
AAATTCAAAATCCAATGTCTAAAAT
Found at i:41914 original size:39 final size:39
Alignment explanation
Indices: 41871--41953 Score: 100
Period size: 39 Copynumber: 2.1 Consensus size: 39
41861 AAGACTTCAT
41871 GAGTGCAC-ATCATCTTCAGACCAATG-G-ATAAGACTCTAG
1 GAGTGCACGA-CATCTTCAGACCAA-GCGTAT-AGACTCTAG
* *
41910 GAGTGCACGACTTCTTCATACCAAGCGTATAGACTCTAG
1 GAGTGCACGACATCTTCAGACCAAGCGTATAGACTCTAG
41949 GAGTG
1 GAGTG
41954 TACAACGTCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
38 1 0.03
39 35 0.90
40 3 0.08
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (39 bp):
GAGTGCACGACATCTTCAGACCAAGCGTATAGACTCTAG
Found at i:42646 original size:24 final size:24
Alignment explanation
Indices: 42602--42647 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
42592 CATGCCATAA
* *
42602 TAATTTTTTTACGATATAAAAAAC
1 TAATTTTTTAACAATATAAAAAAC
42626 TAATTTTATTAACAATA-AAAAA
1 TAATTTT-TTAACAATATAAAAA
42648 TATCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (24 bp):
TAATTTTTTAACAATATAAAAAAC
Found at i:43630 original size:15 final size:15
Alignment explanation
Indices: 43610--43644 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
43600 CCGTAGGACC
43610 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
43625 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
43640 ACTAC
1 ACTAC
43645 AATACCCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:44303 original size:36 final size:36
Alignment explanation
Indices: 44256--44326 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
44246 TTCATTTAGG
44256 GGGAATCGATACCCCCCCA-AGGGGAATCTGTTCCCT
1 GGGAATCGATA-CCCCCCATAGGGGAATCTGTTCCCT
*
44292 GGGAATCGATACCCCCCATGGGGGAATCTGTTCCC
1 GGGAATCGATACCCCCCATAGGGGAATCTGTTCCC
44327 CCTGCACATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 7 0.21
36 26 0.79
ACGTcount: A:0.21, C:0.32, G:0.27, T:0.20
Consensus pattern (36 bp):
GGGAATCGATACCCCCCATAGGGGAATCTGTTCCCT
Found at i:47541 original size:2 final size:2
Alignment explanation
Indices: 47534--47576 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47524 TCAATCAAAT
47534 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
47576 T
1 T
47577 TCTAATGATA
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:49651 original size:15 final size:15
Alignment explanation
Indices: 49631--49665 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
49621 CCGTAGGACC
*
49631 ACTACGTCCTGAAGG
1 ACTACGTCCCGAAGG
49646 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
49661 ACTAC
1 ACTAC
49666 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:50336 original size:35 final size:36
Alignment explanation
Indices: 50277--50347 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 36
50267 TTCATTTAGG
* *
50277 GGGGAATCGATACTCCTCCAAGGGGAATCTGTTCCC
1 GGGGAATCAATACTCCCCCAAGGGGAATCTGTTCCC
50313 GGGGAATCAATAC-CCCCCAAGGGGAATCTGTTCCC
1 GGGGAATCAATACTCCCCCAAGGGGAATCTGTTCCC
50348 CCTGCACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
35 21 0.64
36 12 0.36
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.20
Consensus pattern (36 bp):
GGGGAATCAATACTCCCCCAAGGGGAATCTGTTCCC
Found at i:52683 original size:31 final size:31
Alignment explanation
Indices: 52645--52800 Score: 242
Period size: 31 Copynumber: 5.0 Consensus size: 31
52635 CCCGAAGGAC
* *
52645 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TTCCGAAGAACATAGGTAAA
* *
52676 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
52707 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
52738 CAGTCCATATGTTCAGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
*
52769 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTTCCGAAGAACATAGGTAAA
52800 C
1 C
52801 CCTCGACCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTTCCGAAGAACATAGGTAAA
Found at i:53698 original size:21 final size:21
Alignment explanation
Indices: 53668--53712 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
53658 ATTCTGTCGT
* *
53668 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
53689 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
53710 TTG
1 TTG
53713 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:56913 original size:31 final size:31
Alignment explanation
Indices: 56847--57000 Score: 206
Period size: 31 Copynumber: 5.0 Consensus size: 31
56837 CCCGAATGAC
* * *
56847 CAGTCCATA-GATTCCG-AGAACCTA-GTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
56876 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
56907 CAGTCCATATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* **
56938 CAGTCCATATGTTCAAAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
56969 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
57000 C
1 C
57001 CCTCGACCCT
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 13 0.12
30 7 0.06
31 91 0.82
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:57891 original size:21 final size:20
Alignment explanation
Indices: 57861--57904 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
57851 ATTCTGTCGT
* *
57861 TTGAAGGGTATCGGTTCCCC
1 TTGAAGGGTACCGATTCCCC
57881 TTGAATGGGTACCGATTCCCC
1 TTGAA-GGGTACCGATTCCCC
57902 TTG
1 TTG
57905 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGAAGGGTACCGATTCCCC
Found at i:59197 original size:32 final size:32
Alignment explanation
Indices: 59156--59223 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
59146 TACTAGAGAG
59156 TAATGCAGAGACACATGAATACCTTTAGAAAA
1 TAATGCAGAGACACATGAATACCTTTAGAAAA
* *
59188 TAATGCAGAGACACGTGAGTACCTTTAGAAAA
1 TAATGCAGAGACACATGAATACCTTTAGAAAA
59220 TAAT
1 TAAT
59224 ACCAAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.24
Consensus pattern (32 bp):
TAATGCAGAGACACATGAATACCTTTAGAAAA
Found at i:62973 original size:10 final size:10
Alignment explanation
Indices: 62950--62985 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
62940 TGTGTTGCTT
62950 GTTTATGTTC
1 GTTTATGTTC
* *
62960 GTTTACGTTT
1 GTTTATGTTC
62970 GTTTATGTTC
1 GTTTATGTTC
62980 GTTTAT
1 GTTTAT
62986 CATTTAAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.11, C:0.08, G:0.19, T:0.61
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:67662 original size:128 final size:128
Alignment explanation
Indices: 67434--68447 Score: 1994
Period size: 128 Copynumber: 7.9 Consensus size: 128
67424 CTATAATCGG
67434 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
67499 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
67562 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
67627 TATCATTGCCCTATTATGTCACTCATGTCCCTC-GGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
67689 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
67754 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
67817 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
67882 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
67945 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
68010 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
68073 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
68138 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
68201 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
68266 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
68329 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
*
68394 TATCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATCAGT
66 TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGT
68448 TTGAATAACT
Statistics
Matches: 881, Mismatches: 4, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
127 126 0.14
128 755 0.86
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (128 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGT
TATCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:68900 original size:33 final size:34
Alignment explanation
Indices: 68839--68932 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 34
68829 AAATTTAATG
*
68839 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
68873 TTAAATTT-GAAT-A-AT-A-TTAT-TTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
68900 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
68933 AACATTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 5 0.10
30 3 0.06
31 3 0.06
32 3 0.06
33 8 0.16
34 9 0.18
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:68902 original size:27 final size:28
Alignment explanation
Indices: 68839--68932 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
68829 AAATTTAATG
*
68839 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATA--AT-A-TTAT-TTTT-ATT
68873 TTAAATTT-GAATAATATTATTTTTATT
1 TTAAATTTCGAATAATATTATTTTTATT
* *
68900 TTAAATTTCGAATAATATAATTTGTATT
1 TTAAATTTCGAATAATATTATTTTTATT
68928 TTAAA
1 TTAAA
68933 AACATTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 10 0.18
28 26 0.46
29 4 0.07
30 1 0.02
31 2 0.04
33 5 0.09
34 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (28 bp):
TTAAATTTCGAATAATATTATTTTTATT
Found at i:69540 original size:21 final size:21
Alignment explanation
Indices: 69452--69545 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
69442 TATGGTATAA
*
69452 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
69473 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
69494 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
69515 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
69536 AACCCTGCGG
1 AACCCTGCGG
69546 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:69575 original size:21 final size:21
Alignment explanation
Indices: 69549--69596 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
69539 CCTGCGGAGA
*
69549 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
69570 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
69591 GGGCAT
1 TGGCAT
69597 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:71360 original size:32 final size:31
Alignment explanation
Indices: 71318--71402 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 31
71308 TTAATAATTC
* *
71318 TAAATAAATAATAATTATATAAATTATTTTAA
1 TAAAAAAATAATAATTATATAAA-TATATTAA
*
71350 TAAAAAAATAAT-ATT-TATATATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
71379 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
71403 AAAATACTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 9 0.20
30 15 0.34
31 5 0.11
32 15 0.34
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:71361 original size:29 final size:31
Alignment explanation
Indices: 71321--71391 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 31
71311 ATAATTCTAA
* *
71321 ATAAATAATAATTATATAAAT-TATTTTAAT
1 ATAAAAAATAATTATATAAATATATATTAAT
* *
71351 A-AAAAAATAA-TATTTATATATATATTAAT
1 ATAAAAAATAATTATATAAATATATATTAAT
71380 ATAAAAAATAAT
1 ATAAAAAATAAT
71392 AACTATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 7 0.21
29 17 0.50
30 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
ATAAAAAATAATTATATAAATATATATTAAT
Found at i:72326 original size:60 final size:60
Alignment explanation
Indices: 72240--72362 Score: 176
Period size: 60 Copynumber: 2.0 Consensus size: 60
72230 ATACGTAATT
* * *
72240 TTAGGGTAGGTTTGTTTGCATATAATTGGTTTTTCGGAAAATGAATTATTGGAATTTGAA
1 TTAGGGTAGGTTTGTTTGCATATAATTGGTTTTTCAGAAAATGAATTACTGAAATTTGAA
** *
72300 TTAGGGTCTGTTTGTTTAGC-TGTAATTGGTTTTTCAGAAAATGAATTACTGAAATTTGAA
1 TTAGGGTAGGTTTGTTT-GCATATAATTGGTTTTTCAGAAAATGAATTACTGAAATTTGAA
72360 TTA
1 TTA
72363 CTGGAATTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (60 bp):
TTAGGGTAGGTTTGTTTGCATATAATTGGTTTTTCAGAAAATGAATTACTGAAATTTGAA
Found at i:72361 original size:15 final size:15
Alignment explanation
Indices: 72341--72406 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
72331 TTTCAGAAAA
72341 TGAATTACTGAAATT
1 TGAATTACTGAAATT
*
72356 TGAATTACTGGAATT
1 TGAATTACTGAAATT
*
72371 TGAATTACTGGAAA-A
1 TGAATTACT-GAAATT
*
72386 TGAATTACTGGAATT
1 TGAATTACTGAAATT
72401 TGAATT
1 TGAATT
72407 CTGGAAAATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
14 3 0.07
15 38 0.86
16 3 0.07
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (15 bp):
TGAATTACTGAAATT
Found at i:72385 original size:45 final size:44
Alignment explanation
Indices: 72336--72422 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 44
72326 TGGTTTTTCA
**
72336 GAAAATGAATTACTGAAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGAAATTTGAATT-CTGGAAAATGAATTACTG
*
72381 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGAAATTTGAATTCTGGAAAATGAATTAC
72423 ATTTCTGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 14 0.36
45 25 0.64
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGAAATTTGAATTCTGGAAAATGAATTACTG
Found at i:72420 original size:29 final size:30
Alignment explanation
Indices: 72341--72422 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
72331 TTTCAGAAAA
*
72341 TGAATTACT-GAAATTTGAATTACTGGAATT
1 TGAATTACTGGAAA-ATGAATTACTGGAATT
72371 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
72401 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
72423 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
29 16 0.32
30 30 0.60
31 4 0.08
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:72428 original size:20 final size:20
Alignment explanation
Indices: 72405--72474 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
72395 GGAATTTGAA
72405 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
72425 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
72445 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
72465 TTCTGGAAAA
1 TTCTGGAAAA
72475 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:72685 original size:26 final size:26
Alignment explanation
Indices: 72642--72737 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 26
72632 TTACTAAAAT
72642 ATTATTGAAATATATAAATAATATTATT-C
1 ATTATT-AAATATA-AAA-AA-ATTATTAC
*
72671 ATTATTAAATATAAAAAAATTATTAT
1 ATTATTAAATATAAAAAAATTATTAC
* *
72697 ATTATTAAA-ATAAAATATAATATCTTAT
1 ATTATTAAATATAAAA-A-AAT-TATTAC
72725 ATTATT-AATATAA
1 ATTATTAAATATAA
72738 TTGATTATTT
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
25 12 0.20
26 12 0.20
27 8 0.13
28 22 0.37
29 6 0.10
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (26 bp):
ATTATTAAATATAAAAAAATTATTAC
Found at i:72790 original size:23 final size:21
Alignment explanation
Indices: 72749--72791 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
72739 TGATTATTTA
72749 TATAATATTAAAATATAATAT
1 TATAATATTAAAATATAATAT
*
72770 TATATTATTATAAATATTAATA
1 TATAATATTA-AAATA-TAATA
72792 AATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATATTAAAATATAATAT
Found at i:72810 original size:9 final size:9
Alignment explanation
Indices: 72765--72806 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
72755 ATTAAAATAT
72765 AATATTAT-
1 AATATTATA
*
72773 ATTATTATA
1 AATATTATA
72782 AATATTAATA
1 AATATT-ATA
*
72792 AATATTTTA
1 AATATTATA
72801 AATATT
1 AATATT
72807 TTAATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 7 0.24
9 13 0.45
10 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATTATA
Found at i:73054 original size:42 final size:42
Alignment explanation
Indices: 72995--73111 Score: 225
Period size: 42 Copynumber: 2.8 Consensus size: 42
72985 ATGAATTACA
*
72995 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
73037 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
73079 TTCCGGAAAACGAATTACGTGAAACAAACACGG
1 TTCCGGAAAACGAATTACGTGAAACAAACACGG
73112 AAATTCAGGG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:73185 original size:15 final size:15
Alignment explanation
Indices: 73165--73227 Score: 92
Period size: 15 Copynumber: 4.3 Consensus size: 15
73155 AAACAGACCC
73165 TTACTGGAATTTGAA
1 TTACTGGAATTTGAA
73180 TTACTGGAATTTGAA
1 TTACTGGAATTTGAA
*
73195 TTACTGAAATTTGAA
1 TTACTGGAATTTGAA
**
73210 TT-CTGGAAAATGAA
1 TTACTGGAATTTGAA
73224 TTAC
1 TTAC
73228 ATTTCAGGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.26
15 32 0.74
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (15 bp):
TTACTGGAATTTGAA
Found at i:73237 original size:20 final size:20
Alignment explanation
Indices: 73214--73259 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
73204 TTTGAATTCT
73214 GGAAAATGAATTACATTTCA
1 GGAAAATGAATTACATTTCA
*
73234 GGAAAATGAATTACATTTCT
1 GGAAAATGAATTACATTTCA
73254 GGAAAA
1 GGAAAA
73260 CATCTGGAAA
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:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (20 bp):
GGAAAATGAATTACATTTCA
Found at i:73641 original size:30 final size:28
Alignment explanation
Indices: 73584--73749 Score: 98
Period size: 30 Copynumber: 5.9 Consensus size: 28
73574 CTTTACTAAA
*
73584 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
73613 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
73643 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATATATAAA-A-AATAT-TAT
* ** *
73672 ATATTATTATAATATAATTAATTATTTTAT
1 ATATTATTA-AATAT-ATAAAAAATATTAT
* *
73702 ATAATATTAAA-A-AT--ATAATATTAT
1 ATATTATTAAATATATAAAAAATATTAT
*
73726 ATTATTA-TAAATAT-TAATAAATAT
1 A-TATTATTAAATATATAAAAAATAT
73750 ATTTTAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
24 13 0.12
25 6 0.06
26 2 0.02
27 5 0.05
28 15 0.14
29 28 0.26
30 31 0.29
31 5 0.05
32 3 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:73656 original size:59 final size:59
Alignment explanation
Indices: 73584--73733 Score: 157
Period size: 59 Copynumber: 2.6 Consensus size: 59
73574 CTTTACTAAA
*
73584 ATATTATTGAAATATATAA-ATAATATTATTCATTATTAAATATATAAAAAATT-TATTAT
1 ATATTATTAAAATATATAATATAATATTATT-ATTATTAAA-ATATAAAAAATTATATTAT
* * ** *
73643 ATATTATTAAAATA-AAAATATAATATCT-TATATTATTATAATATAATTAATTATTTTAT
1 ATATTATTAAAATATATAATATAATAT-TAT-TATTATTAAAATATAAAAAATTATATTAT
* *
73702 ATAATATTAAAA-ATATAATATTATATTATTAT
1 ATATTATTAAAATATATAATATAATATTATTAT
73734 AAATATTAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
58 18 0.24
59 56 0.74
60 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (59 bp):
ATATTATTAAAATATATAATATAATATTATTATTATTAAAATATAAAAAATTATATTAT
Found at i:73695 original size:18 final size:19
Alignment explanation
Indices: 73661--73706 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
73651 AAAATAAAAA
*
73661 TATAATAT-CTTATATTAT
1 TATAATATAATTATATTAT
73679 TATAATATAATTA-ATTAT
1 TATAATATAATTATATTAT
*
73697 T-TTATATAAT
1 TATAATATAAT
73707 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATATAATTATATTAT
Found at i:73718 original size:31 final size:32
Alignment explanation
Indices: 73672--73769 Score: 96
Period size: 31 Copynumber: 3.1 Consensus size: 32
73662 ATAATATCTT
*
73672 ATATTATTATAATATAATTAATTATTTTATATA
1 ATATTAATA-AATATAATTAATTATTTTATATA
*
73705 ATATTAA-AAATATAA-T-ATTATATTATTATAA
1 ATATTAATAAATATAATTAATTATTTTA-TAT-A
* *
73736 ATATTAATAAATATATTTTAAATATTTTA-ATA
1 ATATTAATAAATATA-ATTAATTATTTTATATA
73768 AT
1 AT
73770 TAATATTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
29 8 0.15
30 4 0.07
31 15 0.28
32 11 0.20
33 8 0.15
34 1 0.02
35 7 0.13
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (32 bp):
ATATTAATAAATATAATTAATTATTTTATATA
Found at i:73726 original size:22 final size:23
Alignment explanation
Indices: 73701--73744 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
73691 AATTATTTTA
73701 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
73723 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
73745 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:73749 original size:22 final size:22
Alignment explanation
Indices: 73672--73761 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 22
73662 ATAATATCTT
* *
73672 ATATTATTATAATATAAT-TAA
1 ATATTAATATAATATATTATAA
* * *
73693 TTATT-TTAT-ATAATATTAAAA
1 ATATTAATATAAT-ATATTATAA
*
73714 ATA-TAATATTATATTATTATAA
1 ATATTAATATAATA-TATTATAA
*
73736 ATATTAATA-AATATATTTTAA
1 ATATTAATATAATATATTATAA
73757 ATATT
1 ATATT
73762 TTAATAATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.04
20 9 0.16
21 24 0.44
22 15 0.27
23 5 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTAATATAATATATTATAA
Found at i:73760 original size:52 final size:51
Alignment explanation
Indices: 73641--73761 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 51
73631 AAAATTTATT
*
73641 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTA
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
73692 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
73746 ATATATTTTAAATATT
1 ATATATTTTAAATATT
73762 TTAATAATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.11
54 23 0.38
55 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:74054 original size:42 final size:42
Alignment explanation
Indices: 73949--74067 Score: 213
Period size: 41 Copynumber: 2.9 Consensus size: 42
73939 ATGAATTACA
*
73949 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
73991 TTCC-GAAAACAAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
74032 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
74068 TTCAGGGAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
41 39 0.53
42 34 0.47
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:74508 original size:42 final size:42
Alignment explanation
Indices: 74449--74565 Score: 207
Period size: 42 Copynumber: 2.8 Consensus size: 42
74439 TTTCCCTGAA
*
74449 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
* *
74491 TTCCCGTGTTTGTTTCACGTAATTTGTTTTTCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
74533 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCG
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCG
74566 AAATGTAATT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.47
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:74814 original size:20 final size:22
Alignment explanation
Indices: 74756--74816 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
74746 TAATTATTAA
* *
74756 AATATTTAAAAT-ATATTTATT
1 AATATTTATAATAATATATATT
74777 AATATTTATAATAATATATATT
1 AATATTTATAATAATATATATT
*
74799 -ATATTT-TAATATTATATA
1 AATATTTATAATAATATATA
74817 AAATAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.31
21 17 0.47
22 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTATAATAATATATATT
Found at i:74890 original size:20 final size:22
Alignment explanation
Indices: 74857--74897 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
74847 ATATTATATT
74857 TTTTTTAATAATATATAATAAA
1 TTTTTTAATAATATATAATAAA
*
74879 TTTTTT-AT-ATATTTAATAA
1 TTTTTTAATAATATATAATAA
74898 TGAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTTAATAATATATAATAAA
Found at i:74897 original size:30 final size:28
Alignment explanation
Indices: 74787--74929 Score: 109
Period size: 30 Copynumber: 5.0 Consensus size: 28
74777 AATATTTATA
*
74787 ATAATA-TATATTATAT-TTTAATATTAT
1 ATAATATTAT-TTATATATTTAATAATAT
* * *
74814 ATAAAATAATTAATTATATTATAATAATAT
1 ATAATATTATTTA-TATATT-TAATAATAT
*
74844 A-AGATATTATATT-T-TTTTTAATAATAT
1 ATA-ATATTAT-TTATATATTTAATAATAT
*
74871 ATAATAAATTTTTTATATATTTAATAATGA-
1 ATAAT--ATTATTTATATATTTAATAAT-AT
74901 ATAATATTATTTATATATTTCAATAATAT
1 ATAATATTATTTATATATTT-AATAATAT
74930 TTTAGTAAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
27 19 0.21
28 26 0.29
29 15 0.16
30 29 0.32
31 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (28 bp):
ATAATATTATTTATATATTTAATAATAT
Found at i:75311 original size:20 final size:20
Alignment explanation
Indices: 75254--75303 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
75244 TTTCCAGATG
75254 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
75274 TTTTCCTGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
75294 TTTTCCAGAA
1 TTTTCCAGAA
75304 TTCAAATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:75338 original size:30 final size:30
Alignment explanation
Indices: 75286--75367 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
75276 TTCCTGAAAT
**
75286 GTAATTCATTTTCCAG-AATTCAAATTTCA
1 GTAATTCAAATTCCAGTAATTCAAATTTCA
75315 GTAATTCAAATTCCAGTAATTCAAATTTCA
1 GTAATTCAAATTCCAGTAATTCAAATTTCA
* *
75345 GTAATTCAAATTCTAATAATTCA
1 GTAATTCAAATTCCAGTAATTCA
75368 TTTTCCGAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 14 0.29
30 34 0.71
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (30 bp):
GTAATTCAAATTCCAGTAATTCAAATTTCA
Found at i:75367 original size:15 final size:15
Alignment explanation
Indices: 75302--75356 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
75292 CATTTTCCAG
75302 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
*
75317 AATTCAAATTCCAGT
1 AATTCAAATTTCAGT
75332 AATTCAAATTTCAGT
1 AATTCAAATTTCAGT
75347 AATTCAAATT
1 AATTCAAATT
75357 CTAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTCAAATTTCAGT
Found at i:86855 original size:15 final size:15
Alignment explanation
Indices: 86831--86882 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
86821 ATATTTAGTT
*
86831 GGGCGGGCGGATGCG
1 GGGCGAGCGGATGCG
*
86846 GGGCGAGCGGATGAG
1 GGGCGAGCGGATGCG
*
86861 GGGC-AGGCAGATGCG
1 GGGCGA-GCGGATGCG
*
86876 AGGCGAG
1 GGGCGAG
86883 TAATGTCTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.17, C:0.17, G:0.60, T:0.06
Consensus pattern (15 bp):
GGGCGAGCGGATGCG
Found at i:89910 original size:12 final size:12
Alignment explanation
Indices: 89870--89911 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
89860 TTTGAGGGTG
89870 ATAATATGGC-A
1 ATAATATGGCGA
89881 ATAAT-TAGGCGA
1 ATAATAT-GGCGA
89893 ATAATATGGCGA
1 ATAATATGGCGA
89905 ATAATAT
1 ATAATAT
89912 ATAGAATACC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 8 0.29
12 18 0.64
13 1 0.04
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (12 bp):
ATAATATGGCGA
Found at i:90558 original size:32 final size:32
Alignment explanation
Indices: 90522--90598 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
90512 TTATAGCGTA
* *
90522 AATGGAGTGAGGATAACGACAATTGCAGCATC
1 AATGGAGTGAGGAGAACGACAATTGAAGCATC
* *
90554 AATGGAGTGAGGAGGACGACTATTGAAGCATC
1 AATGGAGTGAGGAGAACGACAATTGAAGCATC
*
90586 CATGGAGTGAGGA
1 AATGGAGTGAGGA
90599 CGAAGACGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (32 bp):
AATGGAGTGAGGAGAACGACAATTGAAGCATC
Found at i:92319 original size:2 final size:2
Alignment explanation
Indices: 92312--92342 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
92302 GCGGAAAACT
92312 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
92343 TATCATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:95394 original size:12 final size:12
Alignment explanation
Indices: 95373--95411 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
95363 ACTTTCTTCA
* *
95373 TTCTCACTTCTT
1 TTCTCCCTTCTC
95385 TTCTCCCTTCTC
1 TTCTCCCTTCTC
*
95397 TTCTTCCTTCTC
1 TTCTCCCTTCTC
95409 TTC
1 TTC
95412 CTCTCCAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.41, G:0.00, T:0.56
Consensus pattern (12 bp):
TTCTCCCTTCTC
Found at i:96156 original size:7 final size:7
Alignment explanation
Indices: 96144--96231 Score: 162
Period size: 7 Copynumber: 12.9 Consensus size: 7
96134 GTCTTCTTCT
96144 CTTCTCC
1 CTTCTCC
96151 CTTCTCC
1 CTTCTCC
96158 CTTCTCC
1 CTTCTCC
96165 CTTCTCC
1 CTTCTCC
96172 CTTCTCC
1 CTTCTCC
96179 CTTCT-C
1 CTTCTCC
96185 CTTCT-C
1 CTTCTCC
96191 CTTCTCC
1 CTTCTCC
96198 CTTCTCC
1 CTTCTCC
96205 CTTCTCC
1 CTTCTCC
96212 CTTCTCC
1 CTTCTCC
96219 CTTCTCC
1 CTTCTCC
96226 CTTCTC
1 CTTCTC
96232 TTCCTCTCCA
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
6 12 0.15
7 68 0.85
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (7 bp):
CTTCTCC
Found at i:96201 original size:47 final size:46
Alignment explanation
Indices: 96139--96231 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 46
96129 ATTTCGTCTT
96139 CTTCTCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTC
1 CTTCTCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTC
96185 CTTCTCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTC
1 CTTCT-CTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTC
96232 TTCCTCTCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 5 0.11
47 41 0.89
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (46 bp):
CTTCTCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTCCCTTCTC
Found at i:107670 original size:14 final size:14
Alignment explanation
Indices: 107651--107680 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
107641 TCAGTTGATT
107651 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
107665 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
107679 GT
1 GT
107681 CAACAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (14 bp):
GTGAGAAAGAACAA
Found at i:115425 original size:31 final size:31
Alignment explanation
Indices: 115387--115449 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
115377 ACCAAGTCAG
115387 TTACTCCAATTATATATTAGTAGAAATTCTA
1 TTACTCCAATTATATATTAGTAGAAATTCTA
115418 TTACTCCAATTATATATTAGTAGAAATTCTA
1 TTACTCCAATTATATATTAGTAGAAATTCTA
115449 T
1 T
115450 CTTTGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (31 bp):
TTACTCCAATTATATATTAGTAGAAATTCTA
Found at i:115698 original size:17 final size:17
Alignment explanation
Indices: 115676--115710 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
115666 TTTCGGTTTG
115676 AAAAAAACCGATTTTTA
1 AAAAAAACCGATTTTTA
*
115693 AAAAAAACCGGTTTTTA
1 AAAAAAACCGATTTTTA
115710 A
1 A
115711 TCTAGTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (17 bp):
AAAAAAACCGATTTTTA
Found at i:116939 original size:30 final size:30
Alignment explanation
Indices: 116903--116959 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
116893 TTGGTTCCCT
116903 ACCAAAGATGAATTTTCCAATAAGTTGGCC
1 ACCAAAGATGAATTTTCCAATAAGTTGGCC
116933 ACCAAAGATGAATTTTCCAATAAGTTG
1 ACCAAAGATGAATTTTCCAATAAGTTG
116960 AGCTAGCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (30 bp):
ACCAAAGATGAATTTTCCAATAAGTTGGCC
Found at i:121164 original size:22 final size:22
Alignment explanation
Indices: 121139--121181 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
121129 ATTTGTATTT
* * *
121139 TAATTTATTCAGGATTTCATAA
1 TAATTTACTCAGAAGTTCATAA
121161 TAATTTACTCAGAAGTTCATA
1 TAATTTACTCAGAAGTTCATA
121182 CAAGGGCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (22 bp):
TAATTTACTCAGAAGTTCATAA
Found at i:123734 original size:4 final size:4
Alignment explanation
Indices: 123721--123773 Score: 99
Period size: 4 Copynumber: 13.5 Consensus size: 4
123711 TCATATGAGG
123721 TATC -ATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
123768 TATC TA
1 TATC TA
123774 CTTACCTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 3 0.06
4 45 0.94
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (4 bp):
TATC
Found at i:128156 original size:73 final size:72
Alignment explanation
Indices: 128026--128160 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 72
128016 ATGCCCATTT
* * * *
128026 TAAAATATGAATTTTCTTCTATGAGTTACTTATTTTACTGATGGTGTCCATCCTGAAAATTTTGT
1 TAAAATATGAATTTTCTTCGATGAGTTACTTATTTTACGGACGATGTCCATCCTG-AAATTTTGT
128091 ACCCGTCC
65 ACCCGTCC
* * * *
128099 TAAAATCTGAGTTTTCTTCGATTAGTTACTTATTTTACGGACGATGTCTA-CCTTGAAATTTT
1 TAAAATATGAATTTTCTTCGATGAGTTACTTATTTTACGGACGATGTCCATCC-TGAAATTTT
128161 ATTTGTACTC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
72 9 0.17
73 44 0.83
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (72 bp):
TAAAATATGAATTTTCTTCGATGAGTTACTTATTTTACGGACGATGTCCATCCTGAAATTTTGTA
CCCGTCC
Found at i:128622 original size:35 final size:34
Alignment explanation
Indices: 128579--128733 Score: 112
Period size: 35 Copynumber: 4.2 Consensus size: 34
128569 AAATGCGAAT
128579 TTGAAAGTGTTATGCCTCCTTTCGTTCTACTTGAA
1 TTGAAAGTGTTATGCCTCCTTT-GTTCTACTTGAA
** **
128614 TTGAAAGTGCGATGTTTCCTATTGTTCTACTTTAGACGAGAA
1 TTGAAAGTGTTATGCCTCCT-TTGTTCTAC-TT------GAA
* *
128656 TTAAAAGTGTTATGCCTCCATTTGTTCTACTTAAA
1 TTGAAAGTGTTATGCCTCC-TTTGTTCTACTTGAA
** * *
128691 TCAAAAGTGTTATGTCTCCTTTCGTTCTACTTGTA
1 TTGAAAGTGTTATGCCTCCTTT-GTTCTACTTGAA
*
128726 TCGAAAGT
1 TTGAAAGT
128734 TCGATGTTTC
Statistics
Matches: 95, Mismatches: 15, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
34 3 0.03
35 59 0.62
36 4 0.04
41 2 0.02
42 26 0.27
43 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (34 bp):
TTGAAAGTGTTATGCCTCCTTTGTTCTACTTGAA
Found at i:128779 original size:112 final size:112
Alignment explanation
Indices: 128582--128799 Score: 323
Period size: 112 Copynumber: 1.9 Consensus size: 112
128572 TGCGAATTTG
* * *
128582 AAAGTGTTATGCCTCCTTTCGTTCTACTTGAATTGAAAGTGCGATGTTTCCTATTGTTCTACTTT
1 AAAGTGTTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGCGATGTTTCCTATCGTACTACTTT
* *
128647 AGACGAGAATTAAAAGTGTTATGCCTCCATTT-GTTCTACTTAAATCA
66 AGACGAGAATCAAAAGTGTTATGACTCC-TTTCGTTCTACTTAAATCA
* * *
128694 AAAGTGTTATGTCTCCTTTCGTTCTACTTGTATCGAAAGTTCGATGTTTCCT-TCCGTACTACTT
1 AAAGTGTTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGCGATGTTTCCTAT-CGTACTACTT
*
128758 TAGATGAGAATCAAAAGTGTTATGACTCCTTTCGTTCTACTT
65 TAGACGAGAATCAAAAGTGTTATGACTCCTTTCGTTCTACTT
128800 TAGACGACAA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
111 4 0.04
112 91 0.96
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (112 bp):
AAAGTGTTATGCCTCCTTTCGTTCTACTTGAATCGAAAGTGCGATGTTTCCTATCGTACTACTTT
AGACGAGAATCAAAAGTGTTATGACTCCTTTCGTTCTACTTAAATCA
Found at i:133191 original size:31 final size:31
Alignment explanation
Indices: 133154--133220 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
133144 AATTCGTAGA
*
133154 CACTTTCGTTTCATTTTAATTAAAATATGAT
1 CACTTTCATTTCATTTTAATTAAAATATGAT
* *
133185 CACTTTCATTTCGTTTTAATTAAGATATGAT
1 CACTTTCATTTCATTTTAATTAAAATATGAT
133216 CACTT
1 CACTT
133221 ATTATAAACG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (31 bp):
CACTTTCATTTCATTTTAATTAAAATATGAT
Found at i:136632 original size:16 final size:15
Alignment explanation
Indices: 136611--136644 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
136601 AGGAGAAAGA
136611 GGAGGAGAGGAGGAGG
1 GGAGGAGAGGAGG-GG
*
136627 GGAGGAGGGGAGGGG
1 GGAGGAGAGGAGGGG
136642 GGA
1 GGA
136645 AGAACTTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.26, C:0.00, G:0.74, T:0.00
Consensus pattern (15 bp):
GGAGGAGAGGAGGGG
Found at i:146969 original size:19 final size:18
Alignment explanation
Indices: 146938--146973 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
146928 TTTGGTTTCG
*
146938 TAAAATATTATTTAAAAT
1 TAAAATATAATTTAAAAT
146956 TAAATATATAATTTAAAA
1 TAAA-ATATAATTTAAAA
146974 ATATTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATAATTTAAAAT
Found at i:146999 original size:17 final size:16
Alignment explanation
Indices: 146940--146995 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 16
146930 TGGTTTCGTA
*
146940 AAATATTATTTAAAATT
1 AAATATTATTTTAAA-T
*
146957 AAATATATAATTTAAA-
1 AAATAT-TATTTTAAAT
146973 AATATTATTATTTTAAAT
1 AA-A-TATTATTTTAAAT
146991 AAATA
1 AAATA
146996 ATTAATAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 4 0.12
17 16 0.50
18 12 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATTATTTTAAAT
Found at i:147095 original size:22 final size:21
Alignment explanation
Indices: 147067--147107 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
147057 TATAATTTTT
147067 TTTATAATA-ATTTAATATAAAA
1 TTTATAA-ACATTTAA-ATAAAA
147089 TTTATAAACATTTAAATAA
1 TTTATAAACATTTAAATAA
147108 TTATTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTATAAACATTTAAATAAAA
Found at i:148296 original size:17 final size:18
Alignment explanation
Indices: 148276--148310 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
148266 TTAAAATTAA
*
148276 AATTAATT-TTAATAAAT
1 AATTAATTCTAAATAAAT
148293 AATTAATTCTAAATAAAT
1 AATTAATTCTAAATAAAT
148311 TCTTATACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTAATTCTAAATAAAT
Found at i:150546 original size:31 final size:31
Alignment explanation
Indices: 150461--150547 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
150451 TTCGATAATA
* *
150461 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAATTATTTTATAATTTTTTA-ATAAATT
* * *
150492 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAATTATTTTATAATTTTTTAATAAATT
150523 TAATAATTATTTTATAATTTTTTAA
1 TAATAATTATTTTATAATTTTTTAA
150548 ACTTTATTGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 42 0.89
32 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (31 bp):
TAATAATTATTTTATAATTTTTTAATAAATT
Found at i:151328 original size:31 final size:31
Alignment explanation
Indices: 151280--151353 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
151270 TTTAAAAATG
*
151280 ATAAAA-TACTTATTAAATTTAT-TAAA-AGGTT
1 ATAAAATTA-TTAATAAATTTATCTAAATA-G-T
151311 ATAAAATTATTAATAAATTTATCTAAATAGT
1 ATAAAATTATTAATAAATTTATCTAAATAGT
*
151342 ATAAAATAATTA
1 ATAAAATTATTA
151354 TTATATTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
31 30 0.79
32 7 0.18
33 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (31 bp):
ATAAAATTATTAATAAATTTATCTAAATAGT
Found at i:153002 original size:12 final size:12
Alignment explanation
Indices: 152985--153010 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
152975 GTGATAAGAT
152985 TGAGATTAAAAA
1 TGAGATTAAAAA
152997 TGAGATTAAAAA
1 TGAGATTAAAAA
153009 TG
1 TG
153011 GGGAATGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (12 bp):
TGAGATTAAAAA
Found at i:163283 original size:15 final size:15
Alignment explanation
Indices: 163263--163297 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
163253 CCGTAGGACC
*
163263 ACTACGTTCCGAAGG
1 ACTACGTCCCGAAGG
163278 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
163293 ACTAC
1 ACTAC
163298 AATACCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:163934 original size:35 final size:36
Alignment explanation
Indices: 163888--163957 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
163878 TCATTTAGGG
*
163888 GGGAATCGATACCCCCCA-GGGGGAATCTGTTCCCA
1 GGGAATCGATACCCCCAAGGGGGGAATCTGTTCCCA
*
163923 GGGAATCGATACCCCTAAGGGGGGAATCTGTTCCC
1 GGGAATCGATACCCCCAAGGGGGGAATCTGTTCCC
163958 CTTGTACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.23, C:0.29, G:0.30, T:0.19
Consensus pattern (36 bp):
GGGAATCGATACCCCCAAGGGGGGAATCTGTTCCCA
Found at i:170702 original size:35 final size:36
Alignment explanation
Indices: 170651--170721 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
170641 TTTATTTAGG
170651 GGGGAATCGATA-CCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
*
170686 GGGGTATCGATACCCCCCCAGGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
170722 CCTGCACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 11 0.32
36 23 0.68
ACGTcount: A:0.18, C:0.32, G:0.31, T:0.18
Consensus pattern (36 bp):
GGGGAATCGATACCCCCCCAGGGGGAATCTGTTCCC
Found at i:174833 original size:30 final size:30
Alignment explanation
Indices: 174762--174821 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
174752 ACAATTTAAG
174762 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
174792 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
174822 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:175008 original size:21 final size:21
Alignment explanation
Indices: 174982--175078 Score: 169
Period size: 21 Copynumber: 4.7 Consensus size: 21
174972 ATGCAATTAG
174982 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
175003 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
175024 TGCATCGATGCATTCTTGCCA
1 TGCATCGATGCATCCTTGCCA
175045 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
175065 TGCATCCATGCATC
1 TGCATCGATGCATC
175079 AAGGCTGCAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
20 18 0.25
21 55 0.75
ACGTcount: A:0.20, C:0.33, G:0.19, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:175472 original size:34 final size:32
Alignment explanation
Indices: 175433--175502 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
175423 TTTTGTAAAG
* *
175433 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
175467 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
175499 GGGA
1 GGGA
175503 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:178380 original size:30 final size:30
Alignment explanation
Indices: 178309--178368 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
178299 ACAATTTAAG
*
178309 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTAGACTTGAATTGAATTT
*
178339 GCAAAATGTTTTTAGATTTGAATTGAATTT
1 GCAAAATGTTTTTAGACTTGAATTGAATTT
178369 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTAGACTTGAATTGAATTT
Found at i:178591 original size:20 final size:21
Alignment explanation
Indices: 178550--178604 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
178540 ATGCAATTAG
178550 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
178571 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
178591 TGCATCCATGCATC
1 TGCATCGATGCATC
178605 AAGGCTGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:183742 original size:6 final size:7
Alignment explanation
Indices: 183725--183752 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
183715 TTGAAATTTG
183725 TTTTTTA
1 TTTTTTA
183732 TTTTTTA
1 TTTTTTA
183739 TTTTTTA
1 TTTTTTA
183746 TTTTTTA
1 TTTTTTA
183753 AATTTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTA
Found at i:189949 original size:46 final size:46
Alignment explanation
Indices: 189893--189992 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 46
189883 GTTAGCGGTG
189893 TTTGAGAACAAAAAACGCCGCAATAGGTCAAGATCTATAGCGGCGTT
1 TTTG-GAACAAAAAACGCCGCAATAGGTCAAGATCTATAGCGGCGTT
* * *
189940 TTTGGAAC---AAATGCCGCAATAGGTCGATATCTATAGCGGCGTT
1 TTTGGAACAAAAAACGCCGCAATAGGTCAAGATCTATAGCGGCGTT
189983 TTT-GAACAAA
1 TTTGGAACAAA
189993 CGCCGTATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
42 4 0.09
43 35 0.74
46 4 0.09
47 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (46 bp):
TTTGGAACAAAAAACGCCGCAATAGGTCAAGATCTATAGCGGCGTT
Found at i:189958 original size:43 final size:42
Alignment explanation
Indices: 189905--190127 Score: 232
Period size: 43 Copynumber: 5.2 Consensus size: 42
189895 TGAGAACAAA
*
189905 AAACGCCGCAATAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAATAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
*
189948 AAATGCCGCAATAGGTCGATATCTATAGCGGCGTTTTT-GAAC
1 AAACGCCGCAATAGGTC-ATATCTATAGCGGCGTTTTTGGAAC
* * * * * * * *
189990 AAACGCCGTATAAAGTTGATATTTATAACGGCATTTTTGGAAT
1 AAACGCCGCA-ATAGGTCATATCTATAGCGGCGTTTTTGGAAC
* * * * * *
190033 AAACGTCGCAAAAAGTCAGATCTATAGAGGCGTTTTTAGATAC
1 AAACGCCGCAATAGGTCATATCTATAGCGGCGTTTTTGGA-AC
* *
190076 AAACGCCGCAAAAGGTCATATCTATAGCGACGTTTTTGGATAC
1 AAACGCCGCAATAGGTCATATCTATAGCGGCGTTTTTGGA-AC
190119 AAACGCCGC
1 AAACGCCGC
190128 TAATTACCTT
Statistics
Matches: 147, Mismatches: 30, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
42 50 0.34
43 97 0.66
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (42 bp):
AAACGCCGCAATAGGTCATATCTATAGCGGCGTTTTTGGAAC
Found at i:190031 original size:85 final size:85
Alignment explanation
Indices: 189905--190127 Score: 252
Period size: 85 Copynumber: 2.6 Consensus size: 85
189895 TGAGAACAAA
* * * * * *
189905 AAACGCCGCAATAGGTCAAGATCTATAGCGGCGTTTTTGGAACAAATGCCGCAATAGGTCGATAT
1 AAACGCCGCAAAAGGTC-ATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTC-AGAT
*
189970 CTATAGCGGCGTTTTT-GA-AC
64 CTATAGAGGCGTTTTTAGATAC
* * * * * * * *
189990 AAACGCCGTATAAAGTTGATATTTATAACGGCATTTTTGGAATAAACGTCGCAAAAAGTCAGATC
1 AAACGCCGCA-AAAGGTCATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCAGATC
190055 TATAGAGGCGTTTTTAGATAC
65 TATAGAGGCGTTTTTAGATAC
*
190076 AAACGCCGCAAAAGGTCATATCTATAGCGACGTTTTTGGATACAAACGCCGC
1 AAACGCCGCAAAAGGTCATATCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
190128 TAATTACCTT
Statistics
Matches: 110, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
84 18 0.16
85 68 0.62
86 24 0.22
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCATATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAAGTCAGATCT
ATAGAGGCGTTTTTAGATAC
Found at i:190913 original size:36 final size:37
Alignment explanation
Indices: 190870--190943 Score: 141
Period size: 36 Copynumber: 2.0 Consensus size: 37
190860 GAAAGAAACT
190870 AAGGCAAACAGTGAAAAAG-AAAAAAGAAAGTGGCTA
1 AAGGCAAACAGTGAAAAAGAAAAAAAGAAAGTGGCTA
190906 AAGGCAAACAGTGAAAAAGAAAAAAAGAAAGTGGCTA
1 AAGGCAAACAGTGAAAAAGAAAAAAAGAAAGTGGCTA
190943 A
1 A
190944 TATTCATATC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.59, C:0.08, G:0.24, T:0.08
Consensus pattern (37 bp):
AAGGCAAACAGTGAAAAAGAAAAAAAGAAAGTGGCTA
Found at i:191764 original size:29 final size:29
Alignment explanation
Indices: 191722--191780 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
191712 ATTTTCACCT
191722 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
191751 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
191780 A
1 A
191781 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:196446 original size:29 final size:29
Alignment explanation
Indices: 196404--196462 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
196394 ATTTTCACCT
196404 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
196433 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
196462 A
1 A
196463 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:197638 original size:12 final size:12
Alignment explanation
Indices: 197621--197652 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
197611 AGAGAAAGAG
197621 GGAAATGGGCAA
1 GGAAATGGGCAA
197633 GGAAATGGGCAA
1 GGAAATGGGCAA
*
197645 GAAAATGG
1 GGAAATGG
197653 TGGGAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.41, T:0.09
Consensus pattern (12 bp):
GGAAATGGGCAA
Found at i:198000 original size:41 final size:41
Alignment explanation
Indices: 197949--198044 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
197939 GCGTTTTCTG
* *
197949 AAAACGCCACTATAG-ATTAACCATATTACGGCGTTTGTATA
1 AAAACGCCACTAAAGTATTAACC-TATTACGGCATTTGTATA
* * *
197990 AAAACGCCACTAAAGTATTAATCTGTTATGGCATTTGTATA
1 AAAACGCCACTAAAGTATTAACCTATTACGGCATTTGTATA
*
198031 AAAACGCCGCTAAA
1 AAAACGCCACTAAA
198045 ATACTATTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 42 0.88
42 6 0.12
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (41 bp):
AAAACGCCACTAAAGTATTAACCTATTACGGCATTTGTATA
Found at i:198075 original size:41 final size:41
Alignment explanation
Indices: 197974--198074 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
197964 ATTAACCATA
* *
197974 TTACGGCGTTTGTATAAAAACGCCACTAAAGTATTAATCTG
1 TTACGGCGTTTGTATAAAAACGCCACTAAAATACTAATCTG
* * * * *
198015 TTATGGCATTTGTATAAAAACGCCGCTAAAATACTATTCTT
1 TTACGGCGTTTGTATAAAAACGCCACTAAAATACTAATCTG
*
198056 TTGCGGCGTTTGT-TAAAAA
1 TTACGGCGTTTGTATAAAAA
198075 AATGACATTA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 6 0.12
41 44 0.88
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (41 bp):
TTACGGCGTTTGTATAAAAACGCCACTAAAATACTAATCTG
Found at i:198222 original size:41 final size:42
Alignment explanation
Indices: 198177--198264 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
198167 AAATGTACCA
*
198177 TATTGAGGCGTTTGTAT-AAAAAA-ACCACTAAAGTACTACTT
1 TATTGAGGCATTTGT-TGAAAAAATACCACTAAAGTACTACTT
* **
198218 TATTGCGGCATTTGTTGAAAAAATGTCACTAAAGTACTACTT
1 TATTGAGGCATTTGTTGAAAAAATACCACTAAAGTACTACTT
198260 TATTG
1 TATTG
198265 CGACGTTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 19 0.46
42 21 0.51
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (42 bp):
TATTGAGGCATTTGTTGAAAAAATACCACTAAAGTACTACTT
Found at i:198747 original size:28 final size:28
Alignment explanation
Indices: 198707--198762 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
198697 TAACTGAGAG
*
198707 TATGAATTTCCTCAAGAACATGGAAAGT
1 TATGAATTTCCTCAAGAACAGGGAAAGT
198735 TATGAATTTCCTCAAGAACAGGGAAAGT
1 TATGAATTTCCTCAAGAACAGGGAAAGT
198763 CATACATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (28 bp):
TATGAATTTCCTCAAGAACAGGGAAAGT
Found at i:217124 original size:21 final size:21
Alignment explanation
Indices: 217098--217142 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
217088 GATTTATGGG
* *
217098 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
217119 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
217140 CAA
1 CAA
217143 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:222323 original size:21 final size:21
Alignment explanation
Indices: 222297--222341 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
222287 GATTTCTGGG
* *
222297 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
222318 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
222339 CAA
1 CAA
222342 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:224205 original size:23 final size:23
Alignment explanation
Indices: 224161--224205 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
224151 ATCATTATAT
* *
224161 GGCACTACGGTGTAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
224184 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
224206 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:232085 original size:3 final size:3
Alignment explanation
Indices: 232077--232102 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
232067 TTGAACCCAA
232077 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
232103 ACAATTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:235169 original size:28 final size:28
Alignment explanation
Indices: 235125--235208 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
235115 TAAAATTCTA
* * * *
235125 CGTCCGTCCACGAGAGAGGATGCATTTG
1 CGTCCGTCTACGTGAGATGTTGCATTTG
*
235153 CGTCCGTCTACTTGAGATGTTGCATTTG
1 CGTCCGTCTACGTGAGATGTTGCATTTG
*
235181 CGTCCGTTTACGTGAGATGTTGCATTTG
1 CGTCCGTCTACGTGAGATGTTGCATTTG
235209 TGGCCCGGTT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (28 bp):
CGTCCGTCTACGTGAGATGTTGCATTTG
Found at i:237333 original size:21 final size:22
Alignment explanation
Indices: 237300--237340 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
237290 AAAAATATCA
237300 AAATAATTTATTAAATATATAT
1 AAATAATTTATTAAATATATAT
*
237322 AAATAA-TTATTATATATAT
1 AAATAATTTATTAAATATAT
237341 TTATAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATTTATTAAATATATAT
Found at i:237338 original size:19 final size:21
Alignment explanation
Indices: 237300--237340 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
237290 AAAAATATCA
237300 AAATAATTTATTAAATATATAT
1 AAATAATTTATT-AATATATAT
237322 AAATAA-TTATT-ATATATAT
1 AAATAATTTATTAATATATAT
237341 TTATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAATTTATTAATATATAT
Found at i:238683 original size:3 final size:3
Alignment explanation
Indices: 238675--238780 Score: 124
Period size: 3 Copynumber: 34.7 Consensus size: 3
238665 GGCCCGTTTG
* * *
238675 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
238722 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
238770 TAA TAA TAA TA
1 TAA TAA TAA TA
238781 TTTAAATGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
2 2 0.02
3 79 0.90
4 7 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:239841 original size:112 final size:113
Alignment explanation
Indices: 239331--240536 Score: 1622
Period size: 113 Copynumber: 10.7 Consensus size: 113
239321 TTCTTCTTCC
* * * * **
239331 TTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAAAT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
239396 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * **
239444 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGG
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATC-AAGTGATGAATTCAAGCAAAAGG
* *
239508 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
65 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * * *
239557 TTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGTT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
239622 TGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *
239670 TTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
239735 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * * * * *
239782 TTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAAGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
239847 TGAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
66 TG-AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * **
239896 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGG
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATC-AAGTGATGAATTCAAGCAAAAGG
* *
239960 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG
65 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* * *
240009 TTCTTCTCATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
240074 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *
240121 TTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
240186 TAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAG
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *** * * * *
240233 TTCTTCTCATTATGAACTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
* *
240298 TGAACATA-TTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAG
66 TGAACA-AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* *** * * * *
240345 TTCTTCTCATTATGAACTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGT
1 TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
*
240410 TGAACATA-TTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAG
66 TGAACA-AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
* ** * * * ** * * *
240457 TTCTTCTCATTATGAACTCTAACT-GACACTGCTGATCCACCGGGTGATGAATTTAAGTAAAACG
1 TTCTTCTCATTATGAACTTTCTCTGGA-AATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGG
240521 TTGAACAAGTTCTTCT
65 TTGAACAAGTTCTTCT
240537 TCTTCAAATG
Statistics
Matches: 996, Mismatches: 88, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
111 3 0.00
112 459 0.46
113 460 0.46
114 72 0.07
115 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTTCTCTGGAAATGCTAATCCATCAAGTGATGAATTCAAGCAAAAGGT
TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG
Found at i:239862 original size:339 final size:338
Alignment explanation
Indices: 239171--240536 Score: 1845
Period size: 339 Copynumber: 4.1 Consensus size: 338
239161 ATAGAATTAT
* *
239171 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAAGAGTTCTT
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * *
239236 CTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAA
63 CTCATTATGAAC-CTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAA
239300 CAAATTCTTCTCATTATGAA---CTTCTT-CTTC--C-------TTCTTCTCATTATGAACTTTC
127 CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* * * * ** *
239352 TCTGGAAAAGCTGATCCATCAAATGATGAATTTAAGCAAAAAATTGAACAAGTTCTTCTCATTAT
192 TCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTAT
*
239417 GAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCC
257 GAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCC
* * *
239482 ATCGAATGATGGATTTGA
321 ATCAAATGATGAATTTAA
* * *
239500 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
239565 ATTATGAACCTTCTCTGGCAATGATAATCCATCAAGTGATGAATTCAAACAAAAGTTTGAACAAA
66 ATTATGAACCTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
239630 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
239695 GAAATGTTAATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
196 GAAAAGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
* *
239760 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAA
261 TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
239825 ATGATGAATTTAA
326 ATGATGAATTTAA
239838 GCAAAAAGTTGAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 GCAAAAAGTTG-AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * **
239903 CATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGGTTGAACA
65 CATTATGAACCTTCTCTGGAAATGATAATCCATC-AAGTGATGAATTCAAGCAAAAGGTTGAACA
*
239967 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
129 AATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* *
240032 TGGCAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGA
194 TGGAAAAGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGA
* *
240097 ACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTAATCCATC
259 ACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATC
* **
240162 AAGTGATGAATTCGA
324 AAATGATGAATTTAA
* * *
240177 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
1 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * * *
240241 ATTATGAA-CTTCCTCTGGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGTTGAACAT
66 ATTATGAACCTT-CTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAA
* *
240305 ATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTATGAACTTCCTCT
130 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
* * * * * *
240369 GGAAAAAATAATTCATCAAGTAATGAATTCAGGGAAAAGGTTGAACATA-TTCTTCTCATTATGA
195 GGAAAAGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACA-AGTTCTTCTCATTATGA
* * * ** * *
240433 ATTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACT-GACACTGCTGATCCAC
259 ACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGA-AATGCTGATCCAT
***
240497 CGGGTGATGAATTTAA
323 CAAATGATGAATTTAA
* *
240513 GTAAAACGTTGAACAAGTTCTTCT
1 GCAAAAAGTTGAACAAGTTCTTCT
240537 TCTTCAAATG
Statistics
Matches: 925, Mismatches: 92, Indels: 33
0.88 0.09 0.03
Matches are distributed among these distances:
325 3 0.00
326 82 0.09
329 55 0.06
330 4 0.00
332 1 0.00
335 2 0.00
336 176 0.19
337 93 0.10
338 105 0.11
339 402 0.43
340 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (338 bp):
GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACCTTCTCTGGAAATGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAA
TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATAATCCATCAAGTGATGAATTCAAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAAC
TTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCAA
ATGATGAATTTAA
Found at i:241030 original size:22 final size:22
Alignment explanation
Indices: 241005--241059 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
240995 CATAAAGTTT
*
241005 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
241027 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
241049 TCATCTTTGAA
1 TCATCTTTGAA
241060 GAGTGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:243684 original size:83 final size:84
Alignment explanation
Indices: 243545--243937 Score: 623
Period size: 83 Copynumber: 4.7 Consensus size: 84
243535 GTAGTTCCTA
* * * *
243545 CCAAACCAGATCAAATAACTCAAAGAATACTTCCAGAAGATGCTATGAGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
243610 ATTCAATGATTGGTTTTG-
66 ATTCAATGATTGGTTCTGT
243628 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
*
243693 ATTCAATGATTGATTCTGT
66 ATTCAATGATTGGTTCTGT
* *
243712 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
243776 ATTCAATGATTGGTTCTGT
66 ATTCAATGATTGGTTCTGT
* * *
243795 CC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
243859 ATTCAATGATTGGTTCTG-
66 ATTCAATGATTGGTTCTGT
* * * *
243877 CTAAACCAGGTCAGATAACTCAAAGAACACTTTCAGAAGATGCTATTAACAAATTCATCTT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTT
243938 TCAGTTAATG
Statistics
Matches: 288, Mismatches: 20, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
82 1 0.00
83 285 0.99
84 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (84 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTGT
Found at i:246398 original size:2 final size:2
Alignment explanation
Indices: 246391--246430 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
246381 ACAACAAAGG
246391 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
246431 TAAAGGATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:248103 original size:25 final size:25
Alignment explanation
Indices: 248068--248120 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
248058 TAATTATGTA
*
248068 AAAATGAAAATGTAAATACAAACGT
1 AAAATGAAAATGCAAATACAAACGT
* * *
248093 AAAATGCAAATGCAAATTCAAATGT
1 AAAATGAAAATGCAAATACAAACGT
248118 AAA
1 AAA
248121 TATGTGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.21
Consensus pattern (25 bp):
AAAATGAAAATGCAAATACAAACGT
Found at i:248214 original size:7 final size:7
Alignment explanation
Indices: 248180--248221 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
248170 ATAAAAGTAT
248180 AAATGCA
1 AAATGCA
* *
248187 CAATGAA
1 AAATGCA
248194 AAATGCA
1 AAATGCA
248201 AAGATGCA
1 AA-ATGCA
248209 AAATGC-
1 AAATGCA
248215 AAATGCA
1 AAATGCA
248222 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:249783 original size:30 final size:32
Alignment explanation
Indices: 249730--249788 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
249720 TGCAAATAAA
*
249730 ATGAAATATTAATAAGAAAATATATAAATACT
1 ATGAAATATTAATAAGAAAATATAAAAATACT
* *
249762 ATGAAA-A-TAATAAGTATATATAAAAAT
1 ATGAAATATTAATAAGAAAATATAAAAAT
249789 TTTGAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 17 0.71
31 1 0.04
32 6 0.25
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (32 bp):
ATGAAATATTAATAAGAAAATATAAAAATACT
Found at i:250475 original size:21 final size:22
Alignment explanation
Indices: 250442--250482 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
250432 AAAAATATCA
250442 AAATAATTTATTAAATATATAT
1 AAATAATTTATTAAATATATAT
*
250464 AAATAA-TTATTATATATAT
1 AAATAATTTATTAAATATAT
250483 TTATAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATAATTTATTAAATATATAT
Found at i:250480 original size:19 final size:21
Alignment explanation
Indices: 250442--250482 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
250432 AAAAATATCA
250442 AAATAATTTATTAAATATATAT
1 AAATAATTTATT-AATATATAT
250464 AAATAA-TTATT-ATATATAT
1 AAATAATTTATTAATATATAT
250483 TTATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 5 0.26
22 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAATTTATTAATATATAT
Found at i:251825 original size:3 final size:3
Alignment explanation
Indices: 251817--251925 Score: 130
Period size: 3 Copynumber: 35.7 Consensus size: 3
251807 GGCCCGTTTG
* * *
251817 TAA TAA TAA TTAA TAA TAA TAT TAG TAA TAAA TAA TAA -AA TTAG TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA -TAA TAA
* * *
251864 TTA TAA TTA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
251912 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
251926 TTTAAATGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.02
3 82 0.90
4 7 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Done.