Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006400.1 Hibiscus syriacus cultivar Beakdansim tig00015426_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: 1412076
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:569088 original size:21 final size:20
Alignment explanation
Indices: 569021--569095 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
569011 CAGTTTCCAA
* * *
569021 AATCGCAACGCGATTCTTGAC
1 AATCGCAATGCGATT-TTCAT
569042 AATCGCAATGCGATTTTCAT
1 AATCGCAATGCGATTTTCAT
* *
569062 ATTCGCATTGCGATTTTCCAT
1 AATCGCAATGCGATTTT-CAT
*
569083 AATCGCAACGCGA
1 AATCGCAATGCGA
569096 ATATGAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 18 0.40
21 27 0.60
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (20 bp):
AATCGCAATGCGATTTTCAT
Found at i:569108 original size:20 final size:20
Alignment explanation
Indices: 569083--569152 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
569073 GATTTTCCAT
* *
569083 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
569103 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
569123 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
569143 AATCGCAACG
1 AATCGCAACG
569153 TGTATCCGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.93
21 2 0.05
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.14
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:569157 original size:20 final size:20
Alignment explanation
Indices: 569121--569311 Score: 215
Period size: 20 Copynumber: 9.6 Consensus size: 20
569111 CGCGAACACA
*
569121 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGTGTATCCG
569141 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGTGTATCCG
* *
569161 TAAATCACAACGCGTATCCG
1 TAAATCGCAACGTGTATCCG
* *
569181 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGTGTATCCG
*
569201 TATATCGCAACGTGTATCCG
1 TAAATCGCAACGTGTATCCG
*
569221 TAAATCGCAACGAT-AATCCG
1 TAAATCGCAACG-TGTATCCG
* * *
569241 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGTGTATCCG
*
569261 TAAATCGCAACGAT-AATCCG
1 TAAATCGCAACG-TGTATCCG
* * *
569281 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACGTGTATCCG
*
569301 TAAATCACAAC
1 TAAATCGCAAC
569312 ACTGAAATTT
Statistics
Matches: 150, Mismatches: 17, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
20 149 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (20 bp):
TAAATCGCAACGTGTATCCG
Found at i:569166 original size:60 final size:59
Alignment explanation
Indices: 569102--569311 Score: 242
Period size: 60 Copynumber: 3.5 Consensus size: 59
569092 GCGAATATGA
*
569102 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAAC-CGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
* * * *
569162 AAATCACAACGCGTATCCGTAAATCGCAATGCGTATCCGTATATCGCAACGTGTATCCGT
1 AAATCGCAACGCG-AACCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
** * * * *
569222 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGAT-AATCCGT
1 AAATCGCAACGCGAA-CCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
* * *
569282 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGCGAA-CCGTAAATCGCAAC
569312 ACTGAAATTT
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
59 1 0.01
60 125 0.97
61 3 0.02
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (59 bp):
AAATCGCAACGCGAACCGTAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:570043 original size:24 final size:23
Alignment explanation
Indices: 570004--570049 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
569994 AAATTTGGTC
570004 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGA-TTTGATA
570028 TTGGTCAATA-CACGGATTTGAT
1 TTGGTCAATATC-CGGATTTGAT
570050 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (23 bp):
TTGGTCAATATCCGGATTTGATA
Found at i:570240 original size:12 final size:12
Alignment explanation
Indices: 570223--570247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
570213 ATATAATCCT
570223 GAAGAAGAAAAA
1 GAAGAAGAAAAA
570235 GAAGAAGAAAAA
1 GAAGAAGAAAAA
570247 G
1 G
570248 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:572639 original size:72 final size:72
Alignment explanation
Indices: 572546--572779 Score: 286
Period size: 72 Copynumber: 3.3 Consensus size: 72
572536 GCAACGAGAG
572546 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
572611 AAATGAA
66 AAATGAA
* * * *
572618 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCA
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
572683 AAATGAA
66 AAATGAA
* * * * * *
572690 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAA--
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
*
572750 CG--A-GAG
64 CGAAATGAA
572756 AATCGCAATGCGGAAATGAAAATC
1 AATCGCAATGC-GAAATGAAAATC
572780 GCAATGCGAA
Statistics
Matches: 139, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
66 17 0.12
67 3 0.02
69 1 0.01
71 16 0.12
72 92 0.66
73 8 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:572660 original size:105 final size:103
Alignment explanation
Indices: 572532--572801 Score: 395
Period size: 105 Copynumber: 2.6 Consensus size: 103
572522 CGGAAATTAC
572532 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA-C-AA-GAAAATCGCAATGCGGA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCCCAAGCAAATGAAAATCGCAA--C-G-
572593 AATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
62 -A-GAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
572637 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCAAAATGAAAATCGCAACGAG
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCCCAA-GC-AAATGAAAATCGCAACGAG
*
572702 AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
572742 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCCCAA-GC-AAATGAAAATCGCA
572802 TGCGATTTTC
Statistics
Matches: 156, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
105 124 0.79
106 16 0.10
108 2 0.01
109 1 0.01
110 2 0.01
111 11 0.07
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (103 bp):
AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCCCAAGCAAATGAAAATCGCAACGAGAA
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:572667 original size:53 final size:52
Alignment explanation
Indices: 572532--572801 Score: 406
Period size: 53 Copynumber: 5.1 Consensus size: 52
572522 CGGAAATTAC
*
572532 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C--AA-GAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
572579 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
572637 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCAAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
572690 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
572742 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
572795 AATCGCA
1 AATCGCA
572802 TGCGATTTTC
Statistics
Matches: 205, Mismatches: 5, Indels: 20
0.89 0.02 0.09
Matches are distributed among these distances:
47 8 0.04
49 1 0.00
50 1 0.00
52 65 0.32
53 114 0.56
55 2 0.01
56 1 0.00
57 2 0.01
58 11 0.05
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:572780 original size:72 final size:69
Alignment explanation
Indices: 572513--572805 Score: 266
Period size: 72 Copynumber: 4.2 Consensus size: 69
572503 GCATTTGACT
** * * *
572513 ATCGCAACACGGAAATTACAATCGCAACG-AGAGAATCGCAATGCGAAATGAAAATCCCAAC-AA
1 ATCGCAATGCGGAAATGAAAATCGCAACGAAGAGAATCGCAATGCGAAATGAAAATCGCAACGAA
572576 GAAA
66 GAAA
*
572580 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--CG-AA-GAGAATCGCAATGCGAAATGAAAATCGCAA
*
572645 CG-AGAGA
62 CGAAGAAA
* * *
572652 ATCGCAATGCGGAAATGAAAATCGCAATGCAAAATGAAAATCGCAA--CG--A-GAGAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C-GAA-GAGAATCGCAATGCGAAATGAAAATCGCAA
572712 TGCGAAATGAAA
62 --CG-AA-GAAA
572724 ATCGCAATGC-GAAATGAAAATCGCAACG-AGAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 ATCGCAATGCGGAAATGAAAATCGCAACGAAGAGAATCGCAATGC-GAAATGAAAATCGCAA--C
572787 GAAATGAAA
63 G-AA-GAAA
572796 ATCGC-ATGCG
1 ATCGCAATGCG
572806 ATTTTCATTT
Statistics
Matches: 194, Mismatches: 13, Indels: 33
0.81 0.05 0.14
Matches are distributed among these distances:
66 10 0.05
67 34 0.18
68 2 0.01
69 6 0.03
70 2 0.01
71 23 0.12
72 117 0.60
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (69 bp):
ATCGCAATGCGGAAATGAAAATCGCAACGAAGAGAATCGCAATGCGAAATGAAAATCGCAACGAA
GAAA
Found at i:572820 original size:19 final size:19
Alignment explanation
Indices: 572797--572888 Score: 124
Period size: 19 Copynumber: 5.1 Consensus size: 19
572787 GAAATGAAAA
572797 TCGCA-TGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
572815 TCCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTTTCATT
*
572835 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
572851 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
572868 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
572887 TC
1 TC
572889 AACATAATGC
Statistics
Matches: 65, Mismatches: 2, Indels: 13
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.09
16 7 0.11
17 7 0.11
18 1 0.02
19 30 0.46
20 14 0.22
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:572998 original size:14 final size:14
Alignment explanation
Indices: 572979--573015 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
572969 CATCAATTAC
572979 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
572993 ACAAATCATCTTTT
1 ACAAATCAACTTTT
573007 ACAAATCAA
1 ACAAATCAA
573016 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:574494 original size:42 final size:42
Alignment explanation
Indices: 574418--574542 Score: 101
Period size: 44 Copynumber: 2.9 Consensus size: 42
574408 GTGAATCGGG
* ** *
574418 CTCTTGAATGGTGGGA-GGGACCTCTTC-AATAATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGAATGACAGGGGC
*
574460 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACA--GGGGC
* * * * * *
574504 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGG
574543 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.40
43 4 0.06
44 34 0.51
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGACAGGGGC
Found at i:575002 original size:38 final size:35
Alignment explanation
Indices: 574937--575109 Score: 156
Period size: 33 Copynumber: 4.8 Consensus size: 35
574927 TAGTTTACTT
* * *
574937 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAAC-CAAAATCGCAA-GCG-AA-CAGAA
* *
574976 TCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAATCGCAA-GCG-AA-CAGAA
**
575014 TCGCAACGCGAAATGAAAATCGCAA-CG-ACAGAA
1 TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
*
575047 TCGCAACGCGAAACCAAAATCGCAA-CG-AGAGAA
1 TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
**
575080 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAACGCGAAACCAAAATCGCAA-GCGA
575110 TTTTGGTTTC
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
33 57 0.49
34 1 0.01
35 2 0.02
36 2 0.02
38 42 0.36
39 12 0.10
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (35 bp):
TCGCAACGCGAAACCAAAATCGCAAGCGAACAGAA
Found at i:575050 original size:14 final size:14
Alignment explanation
Indices: 575031--575087 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
575021 GCGAAATGAA
575031 AATCGCAACGACAG
1 AATCGCAACGACAG
*
575045 AATCGCAACGCGAAACCAA
1 AATCGCAA--CG--A-CAG
*
575064 AATCGCAACGAGAG
1 AATCGCAACGACAG
575078 AATCGCAACG
1 AATCGCAACG
575088 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.28, G:0.21, T:0.07
Consensus pattern (14 bp):
AATCGCAACGACAG
Found at i:575054 original size:33 final size:33
Alignment explanation
Indices: 575012--575104 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
575002 GCGAAACCAA
575012 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
** *
575045 AATCGCAACGCGAAACCAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
575078 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
575105 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:575071 original size:52 final size:55
Alignment explanation
Indices: 574937--575073 Score: 190
Period size: 52 Copynumber: 2.5 Consensus size: 55
574927 TAGTTTACTT
* * *
574937 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAATGAAAATCGCAAC-AG-AACCAAAA
*
574995 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAAC-G-A-CAGAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
575047 TCGCAACGCGAAACCAAAATCGCAACG
1 TCGCAACGCGAAACCAAAATCGCAACG
575074 AGAGAATCGC
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
52 31 0.41
53 1 0.01
55 1 0.01
57 29 0.39
58 13 0.17
ACGTcount: A:0.46, C:0.27, G:0.18, T:0.09
Consensus pattern (55 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
Found at i:575101 original size:52 final size:52
Alignment explanation
Indices: 574971--575109 Score: 165
Period size: 52 Copynumber: 2.7 Consensus size: 52
574961 AACGCGAAAT
* * *
574971 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
* ** *
575023 GA-AAT-GAAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAACGCGAAACCAAAATCGCAACGA
* *
575075 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAACGCGA
575110 TTTTGGTTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
50 8 0.11
51 4 0.06
52 45 0.64
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.08
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:575102 original size:19 final size:19
Alignment explanation
Indices: 574937--575109 Score: 150
Period size: 19 Copynumber: 9.6 Consensus size: 19
574927 TAGTTTACTT
* *
574937 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
574957 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
574976 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
574995 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
575014 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
575033 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
**
575047 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
575066 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
575080 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
575099 TCGCAATGCGA
1 TCGCAACGCGA
575110 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 17, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 7 0.06
17 6 0.05
18 1 0.01
19 82 0.65
20 12 0.10
ACGTcount: A:0.46, C:0.25, G:0.20, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:575127 original size:19 final size:18
Alignment explanation
Indices: 575105--575196 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
575095 AAAATCGCAA
575105 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGGTTTC-CGT
575124 TGCGATTTT-G--T-CGT
1 TGCGATTTTGGTTTCCGT
575138 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTC-CGT
*
575157 TGCGATTCT-G--T-CGT
1 TGCGATTTTGGTTTCCGT
**
575171 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTC-CGT
575190 TGCGATT
1 TGCGATT
575197 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGGTTTCCGT
Found at i:575140 original size:14 final size:14
Alignment explanation
Indices: 575121--575179 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
575111 TTTGGTTTCA
575121 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
575135 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
575152 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
575168 CGTTGCGATTTT
1 CGTTGCGATTTT
575180 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:575147 original size:33 final size:33
Alignment explanation
Indices: 575105--575228 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
575095 AAAATCGCAA
* *
575105 TGCGATTTTGGTTTCACGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
575138 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
575171 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
575204 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
575229 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:575206 original size:14 final size:14
Alignment explanation
Indices: 575154--575210 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
575144 TTTGGTTTCG
*
575154 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
575168 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
575187 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
575201 CGTTGCGATT
1 CGTTGCGATT
575211 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:575485 original size:93 final size:93
Alignment explanation
Indices: 575326--575734 Score: 800
Period size: 93 Copynumber: 4.4 Consensus size: 93
575316 TCAGGGTATT
*
575326 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
575391 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
575419 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
575484 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
575512 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
575577 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
575605 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
575670 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
575698 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
575735 AAGCAATCTA
Statistics
Matches: 314, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 314 1.00
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:577440 original size:20 final size:20
Alignment explanation
Indices: 577409--577505 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
577399 TTTTGGTTGA
577409 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
577429 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
577449 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
577468 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
577483 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
577503 AAT
1 AAT
577506 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:577461 original size:21 final size:21
Alignment explanation
Indices: 577407--577471 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
577397 TCTTTTGGTT
577407 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
577428 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
577448 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
577469 GAA
1 GAA
577472 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:577475 original size:14 final size:14
Alignment explanation
Indices: 577456--577512 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
577446 GAGAAATGAA
577456 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
577470 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
577489 AATCGCAACGAGAG
1 AATCGCAACGAGAG
577503 AATCGCAACG
1 AATCGCAACG
577513 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:577488 original size:33 final size:33
Alignment explanation
Indices: 577407--577529 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
577397 TCTTTTGGTT
*
577407 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
577448 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
577481 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
577514 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
577530 TGCGATTTTC
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:580858 original size:4 final size:4
Alignment explanation
Indices: 580849--580875 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
580839 TTCAACTATG
580849 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
580876 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:581028 original size:3 final size:3
Alignment explanation
Indices: 581020--581054 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
581010 GAATAGGGTT
581020 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
581055 AATGGTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:581384 original size:12 final size:12
Alignment explanation
Indices: 581369--581393 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
581359 GATTTTTATC
581369 TTTCTTTTAAGG
1 TTTCTTTTAAGG
581381 TTTCTTTTAAGG
1 TTTCTTTTAAGG
581393 T
1 T
581394 GATAAAAACG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTCTTTTAAGG
Found at i:581961 original size:21 final size:21
Alignment explanation
Indices: 581917--581961 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
581907 GATTTCTAGG
* * *
581917 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
581938 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
581959 CAA
1 CAA
581962 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:582034 original size:23 final size:22
Alignment explanation
Indices: 581986--582034 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
581976 ACAGAATGTC
581986 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
582007 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
582030 AAGGA
1 AAGGA
582035 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:582480 original size:2 final size:2
Alignment explanation
Indices: 582473--582515 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
582463 AAGATCTTTG
582473 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
582515 A
1 A
582516 AATAAATGAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:583462 original size:23 final size:23
Alignment explanation
Indices: 583432--583486 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
583422 AGTTATATGT
*
583432 TACGGTGCAATTCTATGCGGCAC
1 TACGGTGCAATTCTACGCGGCAC
*
583455 TACGGTGCAATTCTACGTGGCAC
1 TACGGTGCAATTCTACGCGGCAC
*
583478 TTCGGTGCA
1 TACGGTGCA
583487 TTTATATGAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
TACGGTGCAATTCTACGCGGCAC
Found at i:586732 original size:21 final size:21
Alignment explanation
Indices: 586688--586732 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
586678 GATTTCTGGG
* * *
586688 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
586709 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
586730 CAA
1 CAA
586733 ACGAACCAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:586805 original size:23 final size:22
Alignment explanation
Indices: 586757--586805 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
586747 ACAGAATGTC
586757 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
586778 CAGGAGGGAACCGATTCCCCCTA
1 AAGGAGGGAACCGATACCCCC-A
586801 AAGGA
1 AAGGA
586806 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:588459 original size:103 final size:103
Alignment explanation
Indices: 588275--588479 Score: 356
Period size: 103 Copynumber: 2.0 Consensus size: 103
588265 TCTACGCGGT
* * *
588275 CCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGATCCT
1 CCTTCGGAACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATACTTGATCCC
*
588340 TGGCATATGTAAATGATTCTTAAGGAATGATATGTGGC
66 TAGCATATGTAAATGATTCTTAAGGAATGATATGTGGC
588378 CCTTCGGAACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATACTTGATCCC
1 CCTTCGGAACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATACTTGATCCC
* *
588443 TAGTATATGTATATGATTCTTAAGGAATGATATGTGG
66 TAGCATATGTAAATGATTCTTAAGGAATGATATGTGG
588480 TTCTTATGGA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (103 bp):
CCTTCGGAACATATATGTATTCTTTGGAACATGTATGAAGTCTGGTGAGACACATACTTGATCCC
TAGCATATGTAAATGATTCTTAAGGAATGATATGTGGC
Found at i:588526 original size:23 final size:23
Alignment explanation
Indices: 588496--588560 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
588486 TGGACATTAT
588496 TATGCGGCACTACGGTGCAATTC
1 TATGCGGCACTACGGTGCAATTC
588519 TATGCGGCACTACGGTGCAATTC
1 TATGCGGCACTACGGTGCAATTC
* * *
588542 TACGTGGCACTTCGGTGCA
1 TATGCGGCACTACGGTGCA
588561 TTTATATGAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
TATGCGGCACTACGGTGCAATTC
Found at i:590206 original size:21 final size:21
Alignment explanation
Indices: 590162--590206 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
590152 AAATTATACG
*
590162 TTTAGTACCTAAACTATTAGT
1 TTTAGTACCTAAACTATTAAT
*
590183 TTTAGTACTTAAACT-TTCAAT
1 TTTAGTACCTAAACTATT-AAT
590204 TTT
1 TTT
590207 TTCAAAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (21 bp):
TTTAGTACCTAAACTATTAAT
Found at i:590827 original size:41 final size:42
Alignment explanation
Indices: 590717--590865 Score: 219
Period size: 42 Copynumber: 3.5 Consensus size: 42
590707 GCAAATCAGT
* * * *
590717 TTCCAAATTCGTAACGCGATAGTCAAAGTTCGCATTACGATTTA
1 TTCCAAATTCGT--TGCGATAGTCGAAGTTCGCGTTACGATTCA
* *
590761 TTCCAAATTCGTTGCGATAGGCGAAGTTCGCGTTGCGATTCA
1 TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTACGATTCA
590803 TTCCAAA-TCGTTGCGATAGTCGAAGTTCGCGTTACGATTCA
1 TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTACGATTCA
590844 TTCCAAATTCGTTGCGATAGTC
1 TTCCAAATTCGTTGCGATAGTC
590866 CAAATATTGC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 39 0.41
42 45 0.47
44 12 0.12
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTACGATTCA
Found at i:590972 original size:10 final size:11
Alignment explanation
Indices: 590941--590974 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
590931 TACACGTATT
590941 ACCACGACCACG
1 ACCACGACC-CG
590953 ACCACGACCCG
1 ACCACGACCCG
590964 ACC-CGACCCG
1 ACCACGACCCG
590974 A
1 A
590975 GACGGGACGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 8 0.36
11 5 0.23
12 9 0.41
ACGTcount: A:0.29, C:0.53, G:0.18, T:0.00
Consensus pattern (11 bp):
ACCACGACCCG
Found at i:591787 original size:21 final size:19
Alignment explanation
Indices: 591760--591994 Score: 87
Period size: 21 Copynumber: 11.3 Consensus size: 19
591750 ATATTTGGAC
* *
591760 TATCGCAACGAATTTGGAA
1 TATCGCAACGAACTTCGAA
**
591779 TGAATCGCAATGCGAACTTCGCC
1 T--ATCGCAA--CGAACTTCGAA
* *
591802 TATCGCAACGAATTTGGAA
1 TATCGCAACGAACTTCGAA
**
591821 TGAATCGCAACGTGAACTTCGCC
1 T--ATCGCAAC--GAACTTCGAA
**
591844 TATCGCAACGCGAACTTCGCC
1 TATCGCAA--CGAACTTCGAA
*
591865 TATCGCAACGAA-TTGGAA
1 TATCGCAACGAACTTCGAA
*
591883 TGAATCGCAACACGAACTTCGAC
1 T--ATCGC-A-ACGAACTTCGAA
* *
591906 TATCGCAACG-ATTTGGAA
1 TATCGCAACGAACTTCGAA
**
591924 TGAATCGCAACGCGAACTTCGCC
1 T--ATCGCAA--CGAACTTCGAA
* *
591947 TATCGCAACGAATTTGGAA
1 TATCGCAACGAACTTCGAA
*
591966 TAAATCGCAATGCGAACTTCGAC
1 T--ATCGCAA--CGAACTTCGAA
591989 TATCGC
1 TATCGC
591995 GTTACGAATC
Statistics
Matches: 161, Mismatches: 31, Indels: 46
0.68 0.13 0.19
Matches are distributed among these distances:
18 10 0.06
19 24 0.15
20 13 0.08
21 72 0.45
22 7 0.04
23 35 0.22
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (19 bp):
TATCGCAACGAACTTCGAA
Found at i:591805 original size:42 final size:42
Alignment explanation
Indices: 591759--591853 Score: 172
Period size: 42 Copynumber: 2.3 Consensus size: 42
591749 AATATTTGGA
*
591759 CTATCGCAACGAATTTGGAATGAATCGCAATGCGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
*
591801 CTATCGCAACGAATTTGGAATGAATCGCAACGTGAACTTCGC
1 CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
591843 CTATCGCAACG
1 CTATCGCAACG
591854 CGAACTTCGC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (42 bp):
CTATCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGC
Found at i:591891 original size:20 final size:20
Alignment explanation
Indices: 591866--591935 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
591856 AACTTCGCCT
591866 ATCGCAACGAATTGGAATGA
1 ATCGCAACGAATTGGAATGA
* *
591886 ATCGCAACACGAACTTCGACT--
1 ATCGC-A-ACGAA-TTGGAATGA
*
591907 ATCGCAACGATTTGGAATGA
1 ATCGCAACGAATTGGAATGA
591927 ATCGCAACG
1 ATCGCAACG
591936 CGAACTTCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
18 5 0.12
19 4 0.10
20 15 0.38
21 6 0.15
22 5 0.12
23 5 0.12
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAATTGGAATGA
Found at i:591899 original size:41 final size:41
Alignment explanation
Indices: 591845--591994 Score: 237
Period size: 41 Copynumber: 3.6 Consensus size: 41
591835 AACTTCGCCT
*
591845 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTGGAATGA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTGGAATGA
* *
591886 ATCGCAACACGAACTTCGACTATCGCAACGATTTGGAATGA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAATTGGAATGA
* *
591927 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAA-TTGGAATGA
*
591969 ATCGCAATGCGAACTTCGACTATCGC
1 ATCGCAACGCGAACTTCGACTATCGC
591995 GTTACGAATC
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 67 0.68
42 32 0.32
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAATTGGAATGA
Found at i:591912 original size:62 final size:63
Alignment explanation
Indices: 591782--591915 Score: 225
Period size: 62 Copynumber: 2.1 Consensus size: 63
591772 TTTGGAATGA
* ** *
591782 ATCGCAATGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACGTGAACTTCGCCT
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACACGAACTTCGACT
591845 ATCGCAACGCGAACTTCGCCTATCGCAACGAA-TTGGAATGAATCGCAACACGAACTTCGACT
1 ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACACGAACTTCGACT
591907 ATCGCAACG
1 ATCGCAACG
591916 ATTTGGAATG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 36 0.54
63 31 0.46
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (63 bp):
ATCGCAACGCGAACTTCGCCTATCGCAACGAATTTGGAATGAATCGCAACACGAACTTCGACT
Found at i:595801 original size:2 final size:2
Alignment explanation
Indices: 595794--595845 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
595784 TTAATGTTTT
595794 TA TA TA TA TA TA TA TA -A 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
595835 TA TA TA TA TA T
1 TA TA TA TA TA T
595846 TTGTATGCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:596562 original size:21 final size:21
Alignment explanation
Indices: 596536--596584 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
596526 CGGTCATCCA
*
596536 ATTTTTTTAACCCCAGACCGG
1 ATTTTTTTAACCCCAGACAGG
*
596557 A-TTTTTAAACCCCAGACAGG
1 ATTTTTTTAACCCCAGACAGG
596577 ATTTTTTT
1 ATTTTTTT
596585 CCGGATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (21 bp):
ATTTTTTTAACCCCAGACAGG
Found at i:596723 original size:19 final size:20
Alignment explanation
Indices: 596683--596720 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
596673 CGGTTATACT
* *
596683 ATCCGGTTTTAAAATATCCG
1 ATCCGGTTTAAAAAAATCCG
596703 ATCCGGTTTAAAAAAATC
1 ATCCGGTTTAAAAAAATC
596721 GATTTTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
ATCCGGTTTAAAAAAATCCG
Found at i:601075 original size:31 final size:31
Alignment explanation
Indices: 601036--601113 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
601026 ATTTTAAAGC
*
601036 TAACAAATTGGTCACTAACATTAACGATTTG
1 TAACAAATTGGTCACTAACATTAAAGATTTG
* * *
601067 TAATAAATTGGTCGCTAACGTTAAAGATTTG
1 TAACAAATTGGTCACTAACATTAAAGATTTG
*
601098 TAACAAATTAGTCACT
1 TAACAAATTGGTCACT
601114 CGATGTTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (31 bp):
TAACAAATTGGTCACTAACATTAAAGATTTG
Found at i:612393 original size:19 final size:19
Alignment explanation
Indices: 612357--612395 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
612347 CCTATTTTTA
612357 TTTAACAAAAATAATATTT
1 TTTAACAAAAATAATATTT
* * *
612376 TTTAATAAATATATTATTT
1 TTTAACAAAAATAATATTT
612395 T
1 T
612396 GAGTCAGATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAACAAAAATAATATTT
Found at i:614105 original size:26 final size:26
Alignment explanation
Indices: 614050--614123 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
614040 CTTGATTGAT
* *
614050 GGGCTAAATTGTTTTTTTCAAGTTCGA
1 GGGCTAAATTATTTTTTT-AAGTTCAA
*
614077 GGGCTAAATTATTTTTTTAAGTTTAA
1 GGGCTAAATTATTTTTTTAAGTTCAA
* * *
614103 GGGTTTATTTGATTTTTTTAA
1 GGGCTAAATT-ATTTTTTTAA
614124 AGATAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 13 0.32
27 27 0.68
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.51
Consensus pattern (26 bp):
GGGCTAAATTATTTTTTTAAGTTCAA
Found at i:614172 original size:24 final size:23
Alignment explanation
Indices: 614145--614216 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
614135 TTTAAATTCA
*
614145 AAATATAAAAATATTCAAAAATTT
1 AAATATAAAAATACT-AAAAATTT
*
614169 AAATATAATAATACTAAAAA--T
1 AAATATAAAAATACTAAAAATTT
* * *
614190 AAAAATTAAATTACTAAAATATTT
1 AAATATAAAAATACTAAAA-ATTT
614214 AAA
1 AAA
614217 AATATATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 16 0.41
22 1 0.03
23 5 0.13
24 17 0.44
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATAAAAATACTAAAAATTT
Found at i:614210 original size:29 final size:30
Alignment explanation
Indices: 614161--614220 Score: 72
Period size: 29 Copynumber: 2.0 Consensus size: 30
614151 AAAAATATTC
614161 AAAAATTTAAATATAATAATA-CTAAAAAT
1 AAAAATTTAAATATAATAATATCTAAAAAT
*
614190 AAAAA-TTAAATTACTAA-AATATTTAAAAAT
1 AAAAATTTAAA-TA-TAATAATATCTAAAAAT
614220 A
1 A
614221 TATATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.19
29 11 0.41
30 11 0.41
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATTTAAATATAATAATATCTAAAAAT
Found at i:615215 original size:2 final size:2
Alignment explanation
Indices: 615208--615233 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
615198 ATTTTATGTA
615208 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
615234 TATCGTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:617275 original size:12 final size:12
Alignment explanation
Indices: 617258--617289 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
617248 ACGAGCTTAA
617258 CGAGCAACGAAT
1 CGAGCAACGAAT
617270 CGAGCAACGAAT
1 CGAGCAACGAAT
617282 CGAGCAAC
1 CGAGCAAC
617290 AAAATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.25, T:0.06
Consensus pattern (12 bp):
CGAGCAACGAAT
Found at i:618634 original size:37 final size:37
Alignment explanation
Indices: 618571--618667 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 37
618561 TATATATTTG
*
618571 TTTTTTTAACAAATTGAAAA-AT---ATTTATAT-A-
1 TTTTTTTAAAAAATTGAAAATATAAAATTTATATAAC
*
618602 TTTTCTTTAAAAAATTTAAAATCATAAAATTTATATAAC
1 TTTT-TTTAAAAAATTGAAAAT-ATAAAATTTATATAAC
*
618641 TTTTTTTACAAAATTGAAAATATAAAA
1 TTTTTTTAAAAAATTGAAAATATAAAA
618668 ATGTTCAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 4 0.07
32 14 0.26
34 2 0.04
37 14 0.26
38 16 0.30
39 4 0.07
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (37 bp):
TTTTTTTAAAAAATTGAAAATATAAAATTTATATAAC
Found at i:619611 original size:19 final size:19
Alignment explanation
Indices: 619580--619626 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
619570 GGATGGTATG
* *
619580 AATTTATAA-AAATATTATT
1 AATTTAAAATAAATATGA-T
619599 AA-TTAAAATAAATATGAT
1 AATTTAAAATAAATATGAT
619617 AATTTAAAAT
1 AATTTAAAAT
619627 TTTTAGGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
AATTTAAAATAAATATGAT
Found at i:621488 original size:28 final size:28
Alignment explanation
Indices: 621437--621490 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
621427 TAAGCTTGTT
* *
621437 AAAATTTTATTCAACTTGTGCTCGTTAA
1 AAAATTTTATTCAACTCGTACTCGTTAA
621465 AAAATTATTATTCAACTCG-ACTCGTT
1 AAAATT-TTATTCAACTCGTACTCGTT
621491 GTTCATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (28 bp):
AAAATTTTATTCAACTCGTACTCGTTAA
Found at i:621651 original size:85 final size:85
Alignment explanation
Indices: 621556--621712 Score: 305
Period size: 85 Copynumber: 1.8 Consensus size: 85
621546 GTGTATTAAA
621556 TTAATAGTTTAATATTTTTTATTGTTTATTAGAAAATTAATAGATTAATAAAATTAGTAGTAATT
1 TTAATAGTTTAATATTTTTTATTGTTTATTAGAAAATTAATAGATTAATAAAATTAGTAGTAATT
621621 ATTAATTATTAATTTAGTAT
66 ATTAATTATTAATTTAGTAT
*
621641 TTAATAGTTTAATATTTTTTATTGTTTTTTAGAAAATTAATAGATTAATAAAATTAGTAGTAATT
1 TTAATAGTTTAATATTTTTTATTGTTTATTAGAAAATTAATAGATTAATAAAATTAGTAGTAATT
621706 ATTAATT
66 ATTAATT
621713 TAGTATTTTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (85 bp):
TTAATAGTTTAATATTTTTTATTGTTTATTAGAAAATTAATAGATTAATAAAATTAGTAGTAATT
ATTAATTATTAATTTAGTAT
Found at i:626742 original size:16 final size:17
Alignment explanation
Indices: 626712--626744 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
626702 AATTTTTAAG
626712 AAAATATATTAATTTAT
1 AAAATATATTAATTTAT
*
626729 AAAA-ATATTTATTTAT
1 AAAATATATTAATTTAT
626745 TTAGAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATATATTAATTTAT
Found at i:627158 original size:15 final size:14
Alignment explanation
Indices: 627128--627187 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
627118 TATCAAACGT
627128 AATAATAAAA-TAA
1 AATAATAAAATTAA
627141 AATAATAATAATTAA
1 AATAATAA-AATTAA
627156 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
627171 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
627186 AA
1 AA
627188 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:628546 original size:3 final size:3
Alignment explanation
Indices: 628534--628590 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
628524 ACTGTTTGTA
* *
628534 AAT AAT -AT AAT AAT AAT ATTT AAT AAT AAT AAA AAT AAT AA- AA-
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
628577 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
628591 AAACCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 6 0.13
3 39 0.83
4 2 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:628564 original size:19 final size:19
Alignment explanation
Indices: 628536--628590 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
628526 TGTTTGTAAA
*
628536 TAAT-ATAATAATAATATT
1 TAATAATAATAATAATAAT
*
628554 TAATAATAATAAAAATAAT
1 TAATAATAATAATAATAAT
* *
628573 AAAAAATAATAATAATAA
1 TAATAATAATAATAATAA
628591 AAACCAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
18 4 0.13
19 27 0.87
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATAATAATAATAAT
Found at i:628570 original size:22 final size:22
Alignment explanation
Indices: 628533--628587 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
628523 AACTGTTTGT
* **
628533 AAATAAT-ATAATAATAATATT
1 AAATAATAATAAAAATAATAAA
*
628554 TAATAATAATAAAAATAATAAA
1 AAATAATAATAAAAATAATAAA
628576 AAATAATAATAA
1 AAATAATAATAA
628588 TAAAAACCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATAATAAAAATAATAAA
Found at i:628580 original size:16 final size:16
Alignment explanation
Indices: 628561--628593 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
628551 ATTTAATAAT
628561 AATAAAAATAATAAAA
1 AATAAAAATAATAAAA
*
628577 AATAATAATAATAAAA
1 AATAAAAATAATAAAA
628593 A
1 A
628594 CCAAAATAAA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAAATAATAAAA
Found at i:629588 original size:454 final size:456
Alignment explanation
Indices: 628740--630285 Score: 2893
Period size: 454 Copynumber: 3.4 Consensus size: 456
628730 GAGGTCTTAA
* * *
628740 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
628805 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGACGGTTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
*
628870 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
628935 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
*
629000 CCGACGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
261 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
629065 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
326 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
629130 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTG
391 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
629194 G
456 G
629195 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
629260 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
*
629325 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCA-TGAAGGGCTTACAGATGACCCGAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
*
629389 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
*
629454 CCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
261 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
*
629519 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATG
326 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
*
629584 CACTGAAGGGCTTACAGATGACCCGACGGTTTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTG
391 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
629648 G
456 G
629649 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
629714 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC-A
66 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
629778 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
629843 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
196 GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
*
629908 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGC
261 CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
*
629973 TTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
326 TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
* *
630038 CACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
391 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
630103 G
456 G
*
630104 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
630169 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
66 AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
* * *
630234 AAACCTCCCGAAGGCTTTTGGGAAACATCATGCACTGAAGGGCTTACAGATG
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
630286 TGGGAAATAG
Statistics
Matches: 1063, Mismatches: 24, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
453 35 0.03
454 669 0.63
455 309 0.29
456 50 0.05
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (456 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTT
GAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGAC
CCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAC
TTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATG
CACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTG
G
Found at i:630313 original size:76 final size:76
Alignment explanation
Indices: 628740--630285 Score: 2839
Period size: 76 Copynumber: 20.4 Consensus size: 76
628730 GAGGTCTTAA
* * *
628740 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
628805 AGGCTTTTTGG
66 AGGCTTTTTGG
*
628816 AAACATCATGCACTGAAGGGCTTACAGATGACCCGACGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
628881 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
628892 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
628957 AGGCTTTTTGG
66 AGGCTTTTTGG
*
628968 AAACATCATGCACTGAAGGGCTTACAGATGACCCGACGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629033 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
629044 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629109 AGGCTTTTTGG
66 AGGCTTTTTGG
629120 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629184 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
629195 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629260 AGGCTTTTTGG
66 AGGCTTTTTGG
629271 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629336 AGGCTTTTTGG
66 AGGCTTTTTGG
629347 AAACATCATGCA-TGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629411 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
629422 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629487 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
629498 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629563 AGGCTTTTTGG
66 AGGCTTTTTGG
*
629574 AAACATCATGCACTGAAGGGCTTACAGATGACCCGACGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629639 AGGC-TTTTGG
66 AGGCTTTTTGG
* *
629649 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629714 AGGCTTTTTGG
66 AGGCTTTTTGG
629725 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629789 AGGCTTTTTGG
66 AGGCTTTTTGG
*
629800 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629865 AGGCTTTTTGG
66 AGGCTTTTTGG
629876 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
629941 AGGCTTTTTGG
66 AGGCTTTTTGG
629952 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
630017 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
630028 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
630093 AGGCTTTTTGG
66 AGGCTTTTTGG
*
630104 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
630169 AGGCTTTTTGG
66 AGGCTTTTTGG
*
630180 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAACCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
*
630245 AGGCTTTTGGG
66 AGGCTTTTTGG
630256 AAACATCATGCACTGAAGGGCTTACAGATG
1 AAACATCATGCACTGAAGGGCTTACAGATG
630286 TGGGAAATAG
Statistics
Matches: 1427, Mismatches: 39, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
75 294 0.21
76 1133 0.79
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:630989 original size:22 final size:22
Alignment explanation
Indices: 630964--631018 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
630954 CATAAAGCTT
630964 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* *
630986 TCATCTTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
631008 TCATCTTTGAA
1 TCATCTTTGAA
631019 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:638448 original size:36 final size:36
Alignment explanation
Indices: 638408--638507 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
638398 CATAAATGCC
* * *
638408 AAAAA-TAAAAATGCAAAATGTGCAATTCAAAGATAT
1 AAAAAGTAAAAATACAAAATG-GAAATGCAAAGATAT
* *
638444 AAAAAGTAAGAATACAAAATGGAAATGCAAAGATGT
1 AAAAAGTAAAAATACAAAATGGAAATGCAAAGATAT
* * *
638480 AAAAAGTAAGAATA-AGAATGTAAATGCA
1 AAAAAGTAAAAATACAAAATGGAAATGCA
638508 TGTATGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
35 12 0.21
36 31 0.55
37 13 0.23
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (36 bp):
AAAAAGTAAAAATACAAAATGGAAATGCAAAGATAT
Found at i:641104 original size:16 final size:17
Alignment explanation
Indices: 641074--641106 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
641064 AATTTTTAAG
641074 AAAATATATTAATTTAT
1 AAAATATATTAATTTAT
*
641091 AAAA-ATATTTATTTAT
1 AAAATATATTAATTTAT
641107 TTAGAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAATATATTAATTTAT
Found at i:641522 original size:15 final size:14
Alignment explanation
Indices: 641492--641551 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 14
641482 TATCAAACGT
641492 AATAATAAAA-TAA
1 AATAATAAAATTAA
641505 AATAATAATAATTAA
1 AATAATAA-AATTAA
641520 AATGAA-AGAAATTAA
1 AAT-AATA-AAATTAA
*
641535 AAGTAATAATATTAA
1 AA-TAATAAAATTAA
641550 AA
1 AA
641552 ACTAATGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 25 0.62
16 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (14 bp):
AATAATAAAATTAA
Found at i:642871 original size:26 final size:26
Alignment explanation
Indices: 642842--642892 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
642832 GGTTGGTCTG
* *
642842 GGCCGATTCTGTTTTGTTTGTAACTA
1 GGCCGATCCAGTTTTGTTTGTAACTA
*
642868 GGCCGGTCCAGTTTTGTTTGTAACT
1 GGCCGATCCAGTTTTGTTTGTAACT
642893 GTTTGTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.43
Consensus pattern (26 bp):
GGCCGATCCAGTTTTGTTTGTAACTA
Found at i:642912 original size:3 final size:3
Alignment explanation
Indices: 642900--642943 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
642890 ACTGTTTGTA
* *
642900 AAT AAT -AT AAT AAT ATTT AAT AAT AAT AAA AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
642944 AAACAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 31 0.89
4 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:642935 original size:15 final size:15
Alignment explanation
Indices: 642899--642961 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
642889 AACTGTTTGT
642899 AAATAAT-ATAATAA
1 AAATAATAATAATAA
**
642913 TATTTAATAATAATAA
1 -AAATAATAATAATAA
642929 AAATAATAATAATAA
1 AAATAATAATAATAA
* *
642944 AAACAAAAATAA-AA
1 AAATAATAATAATAA
642958 AAAT
1 AAAT
642962 TAGTGTTTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 5 0.12
15 28 0.70
16 7 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATAATAATAATAA
Found at i:643261 original size:46 final size:46
Alignment explanation
Indices: 643194--643286 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
643184 GTCTCCATCT
643194 TGAGAGGGGGCTATTATAGTTAGTATTTTAGTTAAGCAGTTACGGG
1 TGAGAGGGGGCTATTATAGTTAGTATTTTAGTTAAGCAGTTACGGG
*
643240 TGAGAGGGGGCTATTATAGTTAGTATTTTAGTTGAGCAGTTACGGG
1 TGAGAGGGGGCTATTATAGTTAGTATTTTAGTTAAGCAGTTACGGG
643286 T
1 T
643287 TAGTTACATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.35
Consensus pattern (46 bp):
TGAGAGGGGGCTATTATAGTTAGTATTTTAGTTAAGCAGTTACGGG
Found at i:648741 original size:32 final size:31
Alignment explanation
Indices: 648672--648744 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 31
648662 TACTAATTAG
* *
648672 ACCTTAAAATTTAGATAAAATATCATTTTAA
1 ACCTTAAATTTTAAATAAAATATCATTTTAA
648703 ACCTTAAATTTTAAATAAAATATCAATTTT-A
1 ACCTTAAATTTTAAATAAAATATC-ATTTTAA
648734 ACTCTTAAATT
1 AC-CTTAAATT
648745 CAACCAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.47, C:0.11, G:0.01, T:0.41
Consensus pattern (31 bp):
ACCTTAAATTTTAAATAAAATATCATTTTAA
Found at i:649397 original size:20 final size:19
Alignment explanation
Indices: 649340--649401 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
649330 GTTACTTTAT
649340 TTTTTATTTTTTATCTAATTA
1 TTTTTATTTTTT-TC-AATTA
* **
649361 TTGTTA-TTTTTAAAATTA
1 TTTTTATTTTTTTCAATTA
649379 TATTTTATTTTTTTCAATTA
1 T-TTTTATTTTTTTCAATTA
649399 TTT
1 TTT
649402 ACCATGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 6 0.18
19 6 0.18
20 16 0.48
21 5 0.15
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATTTTTTTCAATTA
Found at i:649465 original size:11 final size:11
Alignment explanation
Indices: 649443--649485 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
649433 GACATATTTA
649443 AATTATTTTTT
1 AATTATTTTTT
649454 AATT-TTTATTT
1 AATTATTT-TTT
649465 AATTATTTTTT
1 AATTATTTTTT
*
649476 CATT-TTTTTT
1 AATTATTTTTT
649486 GACAAGATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.31
11 17 0.59
12 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:649483 original size:23 final size:23
Alignment explanation
Indices: 649437--649482 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
649427 TGATGTGACA
649437 TATTTAAATTATTTTTTAATTTT
1 TATTTAAATTATTTTTTAATTTT
*
649460 TATTT-AATTATTTTTTCATTTT
1 TATTTAAATTATTTTTTAATTTT
649482 T
1 T
649483 TTTGACAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTAAATTATTTTTTAATTTT
Found at i:649917 original size:14 final size:15
Alignment explanation
Indices: 649898--649927 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
649888 AATTAAAATA
649898 AAATTGTA-AAATTT
1 AAATTGTAGAAATTT
649912 AAATTGTAGAAATTT
1 AAATTGTAGAAATTT
649927 A
1 A
649928 GATTACTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
AAATTGTAGAAATTT
Found at i:654165 original size:23 final size:23
Alignment explanation
Indices: 654098--654166 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
654088 CACCACAGCT
*
654098 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
654121 TGTAGAATTGCACCGTAA-TGCCG
1 CGTAGAAATGCACCG-AAGTGCCA
*
654144 CGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
654167 TATAAGGTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 2 0.06
23 32 0.89
24 2 0.06
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:654668 original size:2 final size:2
Alignment explanation
Indices: 654663--654694 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
654653 TACCTTATTC
654663 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
654695 CCGCAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:658239 original size:2 final size:2
Alignment explanation
Indices: 658232--658269 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
658222 CACATATGCA
658232 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
658270 CATTACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:658605 original size:23 final size:23
Alignment explanation
Indices: 658571--658639 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
658561 CACCACAGCT
*
658571 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
658594 CGTAGAATTGCACCGTAA-TGCCG
1 CGTAGAAATGCACCG-AAGTGCCA
* *
658617 TGTAGAAATACACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
658640 TATAAGGTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 2 0.05
23 33 0.89
24 2 0.05
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:663042 original size:23 final size:23
Alignment explanation
Indices: 663016--663084 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
663006 CACCACATCT
*
663016 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
663039 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
** *
663062 TTTAGAAATGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
663085 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:663474 original size:14 final size:14
Alignment explanation
Indices: 663455--663498 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
663445 CTTTTTCTTT
*
663455 CATATATCTCATGG
1 CATATATCACATGG
663469 CATATATATCACATGG
1 C--ATATATCACATGG
663485 CATATATCACATGG
1 CATATATCACATGG
663499 ATCTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 14 0.52
16 13 0.48
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (14 bp):
CATATATCACATGG
Found at i:663475 original size:16 final size:16
Alignment explanation
Indices: 663456--663491 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
663446 TTTTTCTTTC
*
663456 ATATATCTCATGGCAT
1 ATATATCACATGGCAT
663472 ATATATCACATGGCAT
1 ATATATCACATGGCAT
663488 ATAT
1 ATAT
663492 CACATGGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (16 bp):
ATATATCACATGGCAT
Found at i:663599 original size:2 final size:2
Alignment explanation
Indices: 663594--663619 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
663584 TACCTTATTC
663594 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
663620 CCGCAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:672164 original size:27 final size:26
Alignment explanation
Indices: 672134--672225 Score: 89
Period size: 27 Copynumber: 3.5 Consensus size: 26
672124 AGGTTTAAAA
*
672134 TTTAAAGTAAATTTATTATTTTTACAT
1 TTTAAATTAAATTTATTATTTTTA-AT
* * *
672161 TTTAAATGAAATTCAATATTTTT--T
1 TTTAAATTAAATTTATTATTTTTAAT
* *
672185 TTCAAATTAAATTTATTATCTTTATAT
1 TTTAAATTAAATTTATTATTTTTA-AT
672212 TTCTAAATTAAATT
1 TT-TAAATTAAATT
672226 CAAAATTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 19 0.37
27 22 0.43
28 10 0.20
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTAAATTAAATTTATTATTTTTAAT
Found at i:672221 original size:28 final size:27
Alignment explanation
Indices: 672136--672225 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 27
672126 GTTTAAAATT
* *
672136 TAAAGTAAATTTATTATTTTTACATTT-
1 TAAATTAAATTTATTA-TTTTATATTTC
* * *
672163 TAAATGAAATTCAATATTTT-T-TTTC
1 TAAATTAAATTTATTATTTTATATTTC
672188 -AAATTAAATTTATTATCTTTATATTTC
1 TAAATTAAATTTATTAT-TTTATATTTC
672215 TAAATTAAATT
1 TAAATTAAATT
672226 CAAAATTTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 16 0.32
25 3 0.06
26 5 0.10
27 16 0.32
28 10 0.20
ACGTcount: A:0.39, C:0.06, G:0.02, T:0.53
Consensus pattern (27 bp):
TAAATTAAATTTATTATTTTATATTTC
Found at i:672321 original size:27 final size:27
Alignment explanation
Indices: 672283--672339 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
672273 AAATAAGTAC
*
672283 AAAAATATTAAATTTAGTTTAAAATGT
1 AAAAATAATAAATTTAGTTTAAAATGT
* *
672310 AAAAATAATAAATTTATTTTAAAATTT
1 AAAAATAATAAATTTAGTTTAAAATGT
672337 AAA
1 AAA
672340 CCTTGTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (27 bp):
AAAAATAATAAATTTAGTTTAAAATGT
Found at i:673572 original size:17 final size:17
Alignment explanation
Indices: 673550--673586 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
673540 CTCCTTTAAG
673550 CTCTGACAGCCCTCACC
1 CTCTGACAGCCCTCACC
673567 CTCTGACAGCCCTCACC
1 CTCTGACAGCCCTCACC
673584 CTC
1 CTC
673587 AGGCCACTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.54, G:0.11, T:0.19
Consensus pattern (17 bp):
CTCTGACAGCCCTCACC
Found at i:673981 original size:17 final size:17
Alignment explanation
Indices: 673939--673981 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
673929 TCCTTAGTCT
* *
673939 TTTAATTTTATGATTTA
1 TTTATTTTTAAGATTTA
*
673956 ATTACTTTTTAAGATTTA
1 TTTA-TTTTTAAGATTTA
673974 TTTATTTT
1 TTTATTTT
673982 GAAGTGACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (17 bp):
TTTATTTTTAAGATTTA
Found at i:674663 original size:2 final size:2
Alignment explanation
Indices: 674652--674685 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
674642 ATATTCAAAT
674652 TA TA -A 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 TA TA
674686 CACACATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:676846 original size:22 final size:23
Alignment explanation
Indices: 676821--676874 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
676811 TGATATGTCA
*
676821 TATATGAAAA-TAAAATATGAAT
1 TATATGAAAAGGAAAATATGAAT
**
676843 TATA-GAAAAGGATTATATGAAT
1 TATATGAAAAGGAAAATATGAAT
*
676865 TATGTGAAAA
1 TATATGAAAA
676875 AGATGATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 16 0.62
23 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (23 bp):
TATATGAAAAGGAAAATATGAAT
Found at i:676926 original size:21 final size:21
Alignment explanation
Indices: 676888--676928 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
676878 TGATTCAAAG
*
676888 CATATGTGAAGTATATATGAA
1 CATATGTGAAGTAGATATGAA
676909 CATATGTGAA-TAAGATATGA
1 CATATGTGAAGT-AGATATGA
676929 TAGACATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (21 bp):
CATATGTGAAGTAGATATGAA
Found at i:677201 original size:21 final size:21
Alignment explanation
Indices: 677175--677231 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
677165 GGGTTTCATA
*
677175 GGTCCTTCAGGACAATACAAT
1 GGTCCTTCGGGACAATACAAT
*
677196 GGTCCTTCGGGACAATACAGT
1 GGTCCTTCGGGACAATACAAT
*
677217 GGTCTTTCGGGACAA
1 GGTCCTTCGGGACAA
677232 ATTTCATATG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (21 bp):
GGTCCTTCGGGACAATACAAT
Found at i:677996 original size:22 final size:22
Alignment explanation
Indices: 677968--678032 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
677958 GTAGCAGTAA
677968 TGTAGCAGGGGAATCGGTTCCC
1 TGTAGCAGGGGAATCGGTTCCC
677990 TGTAGCAGGGGAATCGGTTCCC
1 TGTAGCAGGGGAATCGGTTCCC
*
678012 TATAGCAGGGGAATCGGTTCC
1 TGTAGCAGGGGAATCGGTTCC
678033 TATTTATAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.20, C:0.22, G:0.35, T:0.23
Consensus pattern (22 bp):
TGTAGCAGGGGAATCGGTTCCC
Found at i:678474 original size:3 final size:3
Alignment explanation
Indices: 678459--678510 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
678449 CTTTGTTTGT
* *
678459 TTC TTC TTT TTC TTC TTT TTC TTC TTC TTC TTAGC TTC TTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT--C TTC TTC TTC TTC
678505 TCTC TT
1 T-TC TT
678511 ACTCAAGCAC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 3 0.07
5 3 0.07
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:689944 original size:3 final size:3
Alignment explanation
Indices: 689931--689970 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
689921 AATATATGTA
689931 AAT AA- AAT AAT AAT AAT AAT AAT AATT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A
689971 TTTTTTGCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:690803 original size:21 final size:23
Alignment explanation
Indices: 690763--690807 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
690753 TTATCTTTTT
690763 AATTTTATAAAAAAATTATATAA
1 AATTTTATAAAAAAATTATATAA
*
690786 AATTTTA-AATAAAA-TATATAA
1 AATTTTATAAAAAAATTATATAA
690807 A
1 A
690808 TTAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 6 0.29
23 7 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTTTATAAAAAAATTATATAA
Found at i:693943 original size:21 final size:21
Alignment explanation
Indices: 693902--693943 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
693892 GAATAAACTA
*
693902 ATTTTATTTAAAATAGGAAAT
1 ATTTTATTTAAAATAGAAAAT
*
693923 ATTTTATATTACAATA-AAAAT
1 ATTTTAT-TTAAAATAGAAAAT
693944 TTATAATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTTTATTTAAAATAGAAAAT
Found at i:694104 original size:12 final size:11
Alignment explanation
Indices: 694087--694124 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
694077 GGCCAAAGGA
694087 AAAAAAACATGT
1 AAAAAAACAT-T
694099 AAAAAAACATT
1 AAAAAAACATT
694110 -AAAAAACA-T
1 AAAAAAACATT
694119 AAAAAA
1 AAAAAA
694125 CGTACAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 13 0.52
11 1 0.04
12 10 0.40
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.13
Consensus pattern (11 bp):
AAAAAAACATT
Found at i:694125 original size:9 final size:10
Alignment explanation
Indices: 694088--694125 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
694078 GCCAAAGGAA
694088 AAAAAACATGT
1 AAAAAACAT-T
694099 AAAAAAACATT
1 -AAAAAACATT
694110 AAAAAACA-T
1 AAAAAACATT
694119 AAAAAAC
1 AAAAAAC
694126 GTACAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
10 8 0.31
11 1 0.04
12 9 0.35
ACGTcount: A:0.74, C:0.11, G:0.03, T:0.13
Consensus pattern (10 bp):
AAAAAACATT
Found at i:695722 original size:21 final size:21
Alignment explanation
Indices: 695696--695739 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
695686 AATGTCACTC
695696 CGAATTACATTTTCTGGAAAA
1 CGAATTACATTTTCTGGAAAA
695717 CGAATTACATTTTCTGGAAAA
1 CGAATTACATTTTCTGGAAAA
695738 CG
1 CG
695740 TTTTCCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (21 bp):
CGAATTACATTTTCTGGAAAA
Found at i:696004 original size:84 final size:84
Alignment explanation
Indices: 695833--695984 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
695823 ATAATGTTTA
*
695833 AATAATATTTATCATAAAACTAATATAATCATTTTTAAAATTTTTAAAATTAAATTATTTATTAC
1 AATAATATTTATCATAAAACTAATATAATCATTTTTAAAATTATTAAAATTAAATTATTTATTAC
695898 AAATATTAAATATAATAAT
66 AAATATTAAATATAATAAT
* *
695917 AATATTATTTATCATAAAACTTA-AT-ATCATTTTTAAAA-TATT-AAA-TAAATTATTTATTAT
1 AATAATATTTATCATAAAACTAATATAATCATTTTTAAAATTATTAAAATTAAATTATTTATTA-
*
695977 TAAATATT
65 CAAATATT
695985 TTTTTATAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
79 14 0.22
80 10 0.16
81 3 0.05
82 13 0.21
83 2 0.03
84 21 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (84 bp):
AATAATATTTATCATAAAACTAATATAATCATTTTTAAAATTATTAAAATTAAATTATTTATTAC
AAATATTAAATATAATAAT
Found at i:696061 original size:25 final size:26
Alignment explanation
Indices: 696033--696081 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
696023 TATTTATTGA
696033 AATAATATTATATTAT-TTTTAAAGT
1 AATAATATTATATTATATTTTAAAGT
* *
696058 AATAGTGTTATATTATATTTTAAA
1 AATAATATTATATTATATTTTAAA
696082 ATATTAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (26 bp):
AATAATATTATATTATATTTTAAAGT
Found at i:696236 original size:8 final size:8
Alignment explanation
Indices: 696210--696306 Score: 56
Period size: 8 Copynumber: 11.8 Consensus size: 8
696200 AATATAAATT
696210 TTATTAATA
1 TTATT-ATA
696219 TTATTATATA
1 TTA-T-TATA
696229 TTATTATAA
1 TTATTAT-A
* *
696238 TAAATATA
1 TTATTATA
*
696246 TAATTATA
1 TTATTATA
696254 TTATTATA
1 TTATTATA
*
696262 ATATT-TGA
1 TTATTAT-A
696270 TTATT-TA
1 TTATTATA
696277 TTATTAT-
1 TTATTATA
* **
696284 TAAAAATA
1 TTATTATA
696292 TATATTATA
1 T-TATTATA
696301 TTATTA
1 TTATTA
696307 GAAATATTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 11 0.16
8 35 0.51
9 15 0.22
10 7 0.10
11 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (8 bp):
TTATTATA
Found at i:696238 original size:21 final size:23
Alignment explanation
Indices: 696214--696315 Score: 77
Period size: 24 Copynumber: 4.3 Consensus size: 23
696204 TAAATTTTAT
696214 TAATATTATTA-TATATTATTA-
1 TAATATTATTATTATATTATTAG
*
696235 TAATAAATATATAATTATATTATTA-
1 TAAT--AT-TATTATTATATTATTAG
*
696260 TAATATTTGATTATT-TATTATTAT
1 TAATA-TT-ATTATTATATTATTAG
* *
696284 TAAAAATATATATTATATTATTAG
1 TAATATTAT-TATTATATTATTAG
*
696308 AAATATTA
1 TAATATTA
696316 ATAAATATAT
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
21 4 0.06
22 2 0.03
23 17 0.27
24 27 0.42
25 14 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATATTATTATTATATTATTAG
Found at i:696313 original size:48 final size:48
Alignment explanation
Indices: 696221--696314 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
696211 TATTAATATT
*
696221 ATTATATATTATTATAATAAATATATAATTATATTATTATAATATTTG
1 ATTATATATTATTATAATAAATATATAATTATATTATTAAAATATTTG
*
696269 ATTATTTATTATTATTAA-AAATATAT-ATTATATTATTAGAAATATT
1 ATTATATATTATTA-TAATAAATATATAATTATATTATTA-AAATATT
696315 AATAAATATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 12 0.29
48 27 0.64
49 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (48 bp):
ATTATATATTATTATAATAAATATATAATTATATTATTAAAATATTTG
Found at i:698403 original size:30 final size:31
Alignment explanation
Indices: 698367--698455 Score: 128
Period size: 30 Copynumber: 2.9 Consensus size: 31
698357 TACAATGATA
* *
698367 TGTTTGTAACAATATTTGAATTGAGTGAC-T
1 TGTTTGTAATAATATTTTAATTGAGTGACGT
* *
698397 TGTTTGTAATAATATTTTAATTAAATGACGT
1 TGTTTGTAATAATATTTTAATTGAGTGACGT
698428 T-TTTGTAATAATATTTTAATTGAGTGAC
1 TGTTTGTAATAATATTTTAATTGAGTGAC
698456 ATGCTTGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
30 50 0.96
31 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (31 bp):
TGTTTGTAATAATATTTTAATTGAGTGACGT
Found at i:705971 original size:53 final size:53
Alignment explanation
Indices: 705908--706009 Score: 204
Period size: 53 Copynumber: 1.9 Consensus size: 53
705898 CCAAATTTTT
705908 GTGACACATAATTTAAAATCAAATAATACAAACCCAAAGTTTAACAACCTTCC
1 GTGACACATAATTTAAAATCAAATAATACAAACCCAAAGTTTAACAACCTTCC
705961 GTGACACATAATTTAAAATCAAATAATACAAACCCAAAGTTTAACAACC
1 GTGACACATAATTTAAAATCAAATAATACAAACCCAAAGTTTAACAACC
706010 AAATACATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.49, C:0.22, G:0.06, T:0.24
Consensus pattern (53 bp):
GTGACACATAATTTAAAATCAAATAATACAAACCCAAAGTTTAACAACCTTCC
Found at i:708356 original size:29 final size:29
Alignment explanation
Indices: 708324--708381 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
708314 TATGGCTCTT
708324 AGAAAAGA-TGAAG-GAATGAGAAATGAAGA
1 AGAAAAGACTGAAGAGAAT-AGAAAT-AAGA
*
708353 AGAAGAGACTGAAGAGAATAGAAATAAGA
1 AGAAAAGACTGAAGAGAATAGAAATAAGA
708382 TGAGATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 11 0.42
30 11 0.42
31 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.29, T:0.10
Consensus pattern (29 bp):
AGAAAAGACTGAAGAGAATAGAAATAAGA
Found at i:715594 original size:246 final size:245
Alignment explanation
Indices: 715162--715654 Score: 819
Period size: 246 Copynumber: 2.0 Consensus size: 245
715152 CAGGTTTTCG
*
715162 TGATGAGCTGAGGTTCCACTGATATTTCTCCAAGTAACATACATTAAGCTTATAGTTAAGAGGAA
1 TGATGAGCTGAGGTTCCACTGATATTTCTCCAAGTAACAGACATTAAGCTTATAGTTAAGAGGAA
* *
715227 ACGTTCAGAGGACCAGGTTCAGGAGATTGAAAATAGACATCTAGTGTGTTTCCATAAAAACCAGA
66 ACGTTCAGAGGACCAGGTTCAGGAGATTGAAAATAGACATATAGTGTGTTTCCAAAAAAACCAGA
715292 GTAAATGAAATCACATTTTAAAAACAATAATAGTTTATTTTAGTAAAACAATTTTTTTAAAAGCC
131 GTAAATGAAATCACATTTTAAAAACAATAATAGTTTATTTTAGTAAAACAATTTTTTTAAAAGCC
*
715357 ACTGCAATACCCTTTAACG-ACACTCCATATGTACTTCCCCATAACTGAA
196 ACTGCAATACCCTCTAACGAACACTCCATATGTACTTCCCCATAACTGAA
* * * * *
715406 TGATGAGTTGAGGTTCCACTGATATTTCTTCAGGTAACGGACATTAAGCTTATAGTTCAGAGGAA
1 TGATGAGCTGAGGTTCCACTGATATTTCTCCAAGTAACAGACATTAAGCTTATAGTTAAGAGGAA
*
715471 ACGTTCAGAGGA-CTGGTTCAGGAGATTGAAAATAGACATATAGTGTGTTTCCAAAAAAAAAACC
66 ACGTTCAGAGGACCAGGTTCAGGAGATTGAAAATAGACATATAGTGTGTTTCC---AAAAAAACC
* *
715535 AGAGTAAATGAAATCATATTTTAAAAACAATAATAGTTTATTTTAGTAAAACAATTTTTTTTAAA
128 AGAGTAAATGAAATCACATTTTAAAAACAATAATAGTTTATTTTAGTAAAACAATTTTTTTAAAA
*
715600 GCCACTGCAATACCCTCTAACGAAACACTCCATATGTAGTTCCCCATAACTGAA
193 GCCACTGCAATACCCTCTAACG-AACACTCCATATGTACTTCCCCATAACTGAA
715654 T
1 T
715655 CCATAAGGAC
Statistics
Matches: 231, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
243 38 0.16
244 71 0.31
246 92 0.40
248 30 0.13
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.30
Consensus pattern (245 bp):
TGATGAGCTGAGGTTCCACTGATATTTCTCCAAGTAACAGACATTAAGCTTATAGTTAAGAGGAA
ACGTTCAGAGGACCAGGTTCAGGAGATTGAAAATAGACATATAGTGTGTTTCCAAAAAAACCAGA
GTAAATGAAATCACATTTTAAAAACAATAATAGTTTATTTTAGTAAAACAATTTTTTTAAAAGCC
ACTGCAATACCCTCTAACGAACACTCCATATGTACTTCCCCATAACTGAA
Found at i:717122 original size:20 final size:20
Alignment explanation
Indices: 717093--717134 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
717083 AGGGTATCGG
* *
717093 TACTAGAAGAATAGTACTGA
1 TACTAAAAGAATAGTACCGA
717113 TACTAAAAGAATAGTACCGA
1 TACTAAAAGAATAGTACCGA
717133 TA
1 TA
717135 TTATAGCTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (20 bp):
TACTAAAAGAATAGTACCGA
Found at i:717231 original size:20 final size:17
Alignment explanation
Indices: 717190--717236 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
717180 GATGCAACTA
*
717190 GTATCGATACTAATGGG
1 GTATCGATACTAAAGGG
717207 GTATCGATACTAAGAGGAAG
1 GTATCGATACTAA-AGG--G
717227 GTATCGATAC
1 GTATCGATAC
717237 CATTGATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
20 11 0.42
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.26
Consensus pattern (17 bp):
GTATCGATACTAAAGGG
Found at i:718162 original size:59 final size:59
Alignment explanation
Indices: 718090--718210 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
718080 GGAAGGTTGG
* * *
718090 TTAGAGCCATATTATTGAGTTTGCCTTTTCATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCGTTTCATTGCGACTAAGAGGGTTCGATAGGACAC
* *
718149 TTAGAGCCATATTATCGAGTTTGCCGTTTCATTGCGACTAAGAGGGTTTGATATGACAC
1 TTAGAGCCATATTATCGAGTTTGCCGTTTCATTGCGACTAAGAGGGTTCGATAGGACAC
718208 TTA
1 TTA
718211 TCCATCTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.35
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCGTTTCATTGCGACTAAGAGGGTTCGATAGGACAC
Found at i:721649 original size:50 final size:53
Alignment explanation
Indices: 721579--721713 Score: 134
Period size: 59 Copynumber: 2.5 Consensus size: 53
721569 CACACTCCAA
* * * *
721579 TTTTCCTTTTCATCGTGACTAGGAGG-G-TCGG-TTAGAGCCATATTATCGAG
1 TTTTCCTTTTCATTGCGACTAAGAGGTGATAGGATTAGAGCCATATTATCGAG
721629 TTTTCCTTTTCATTGCGACTATTAG-GGTTTGATAGGACACTTAGAGCCATATTATCGAG
1 TTTTCCTTTTCATTGCGACTA--AGAGG--TGATAGG--A-TTAGAGCCATATTATCGAG
*
721688 TTTGCCTTTTCATTGCGACTAAGAGG
1 TTTTCCTTTTCATTGCGACTAAGAGG
721714 ATTCGATAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
50 19 0.28
51 2 0.03
52 1 0.01
54 1 0.01
55 3 0.04
57 2 0.03
58 2 0.03
59 39 0.57
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (53 bp):
TTTTCCTTTTCATTGCGACTAAGAGGTGATAGGATTAGAGCCATATTATCGAG
Done.