Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004751.1 Hibiscus syriacus cultivar Beakdansim tig00010723_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: 218802
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:14474 original size:15 final size:16
Alignment explanation
Indices: 14438--14476 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
14428 TGTCAGAAGT
14438 TGAAAAATTACATAAC
1 TGAAAAATTACATAAC
14454 TGAAAAATTACATAAC
1 TGAAAAATTACATAAC
14470 T-AAAAAT
1 TGAAAAAT
14477 GGCCATTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (16 bp):
TGAAAAATTACATAAC
Found at i:17241 original size:31 final size:32
Alignment explanation
Indices: 17181--17241 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
17171 CTCAATAAGA
17181 CAAAATATAATTACCACAAAATAATAAGGGGG
1 CAAAATATAATTACCACAAAATAATAAGGGGG
* * *
17213 CAAAGTATAATTACCATAGAA-AATAAGGG
1 CAAAATATAATTACCACAAAATAATAAGGG
17242 AGAATCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.20
Consensus pattern (32 bp):
CAAAATATAATTACCACAAAATAATAAGGGGG
Found at i:17929 original size:21 final size:21
Alignment explanation
Indices: 17905--18019 Score: 92
Period size: 21 Copynumber: 5.6 Consensus size: 21
17895 GCGTTGCATT
17905 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
17926 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
* *
17946 TCGCGTTGCGATAGTCT-ACAG
1 TCGCGTTGCGATAGT-TGAAAA
* ** **
17967 TCGCGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
17987 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
18008 TCGCGTTGCGAT
1 TCGCGTTGCGAT
18020 TTTCCATTTC
Statistics
Matches: 70, Mismatches: 20, Indels: 8
0.71 0.20 0.08
Matches are distributed among these distances:
19 1 0.01
20 28 0.40
21 40 0.57
22 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:17948 original size:41 final size:41
Alignment explanation
Indices: 17901--18042 Score: 232
Period size: 41 Copynumber: 3.5 Consensus size: 41
17891 ATTCGCGTTG
17901 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* * *
17942 CATTTCGCGTTGCGATAGTCT-ACAGTCGCGTTGCGATTTTT
1 CATTTCGCGTTGCGATAGT-TGAAAATCGCGTTGCGATTTTC
17983 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
18024 CATTTCGAGTTGCGATAGT
1 CATTTCGCGTTGCGATAGT
18043 CTACAGTTGT
Statistics
Matches: 92, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 90 0.98
42 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:17951 original size:20 final size:20
Alignment explanation
Indices: 17926--18039 Score: 104
Period size: 20 Copynumber: 5.6 Consensus size: 20
17916 TAGTTGAAAA
17926 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
17946 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
*
17967 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
17987 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
18008 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
18028 TCGAGTTGCGAT
1 TCGCGTTGCGAT
18040 AGTCTACAGT
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
19 4 0.05
20 38 0.52
21 27 0.37
22 4 0.05
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:17996 original size:82 final size:83
Alignment explanation
Indices: 17901--18067 Score: 309
Period size: 82 Copynumber: 2.0 Consensus size: 83
17891 ATTCGCGTTG
*
17901 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGAGTTGCGATAGTCTACA
17966 GTCG-CGTTGCGATTTTT
66 GTCGTCGTTGCGATTTTT
17983 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGAGTTGCGATAGTCTACA
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGAGTTGCGATAGTCTACA
*
18048 GTTGTCGTTGCGATTTTT
66 GTCGTCGTTGCGATTTTT
18066 CA
1 CA
18068 AATTCGTTGA
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 67 0.82
83 15 0.18
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (83 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGAGTTGCGATAGTCTACA
GTCGTCGTTGCGATTTTT
Found at i:18215 original size:6 final size:6
Alignment explanation
Indices: 18151--18214 Score: 110
Period size: 6 Copynumber: 10.7 Consensus size: 6
18141 AGACACGTAT
18151 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
* *
18199 GACCCC GACCCC GACC
1 GACCAC GACCAC GACC
18215 CGAGACGGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.30, C:0.53, G:0.17, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:18728 original size:6 final size:6
Alignment explanation
Indices: 18702--18767 Score: 111
Period size: 6 Copynumber: 11.5 Consensus size: 6
18692 GTCCGTCTCG
18702 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
18747 GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGT
18768 AATACGTGTC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 15 0.25
6 45 0.75
ACGTcount: A:0.00, C:0.17, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:18875 original size:19 final size:19
Alignment explanation
Indices: 18851--18916 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
18841 TTAACTATCA
18851 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * ** *
18870 CAACGACAACTGTAGACTATAG
1 CAACG--AA-TTTGGAAAATCG
18892 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
18911 CAACGA
1 CAACGA
18917 CAACTGTAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 18 0.53
20 2 0.06
21 2 0.06
22 12 0.35
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:18895 original size:22 final size:22
Alignment explanation
Indices: 18866--18937 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
18856 AATTTGGAAA
18866 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * * **
18888 ATAGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
18907 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
18929 ATCGCAACG
1 ATCGCAACG
18938 TGAAATGGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 12 0.32
20 2 0.05
21 2 0.05
22 21 0.57
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:18901 original size:41 final size:40
Alignment explanation
Indices: 18844--19025 Score: 201
Period size: 41 Copynumber: 4.4 Consensus size: 40
18834 CTTTTTTTTA
*
18844 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACG-CAACTGTAG
*
18885 ACTATAGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACG-CAACTGTAG
* *
18926 ACTATCGCAACGTGAA-ATGGAAAATCGCAACGCGAA-TTTCA-
1 ACTATCGCAAC--GAATTTGGAAAATCGCAACGC-AACTGT-AG
* *
18967 ACTATCGCAACGCGAA-ATGGAAAATCGCAACGCGACTGTAG
1 ACTATCGCAA--CGAATTTGGAAAATCGCAACGCAACTGTAG
19008 ACTATCGCAACGCAATTT
1 ACTATCGCAACG-AATTT
19026 TCAACTATCG
Statistics
Matches: 123, Mismatches: 8, Indels: 20
0.81 0.05 0.13
Matches are distributed among these distances:
39 2 0.02
40 4 0.03
41 95 0.77
42 18 0.15
43 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (40 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGCAACTGTAG
Found at i:18954 original size:20 final size:20
Alignment explanation
Indices: 18929--19001 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
18919 ACTGTAGACT
*
18929 ATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** *
18949 ATCGCAACGCGAATTTCAACT
1 ATCGCAACGCGAAATGGAA-A
18970 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
18990 ATCGCAACGCGA
1 ATCGCAACGCGA
19002 CTGTAGACTA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:18971 original size:82 final size:82
Alignment explanation
Indices: 18860--19019 Score: 211
Period size: 83 Copynumber: 1.9 Consensus size: 82
18850 ACAACGAATT
*
18860 TGGAAAATCGCAACGACAACTGTAGACTATAGCAA-CGAATTTGGAAAATCGCAACGACAACTGT
1 TGGAAAATCGCAACGACAACTGTAGACTATAGCAACCGAA-ATGGAAAATCGCAACG-CAACTGT
18924 AGACTATCGCAACGTGAAA
64 AGACTATCGCAACGTGAAA
* * *
18943 TGGAAAATCGCAACG-CGAA-TTTCA-ACTATCGCAACGCGAAATGGAAAATCGCAACGCGACTG
1 TGGAAAATCGCAACGAC-AACTGT-AGACTATAGCAAC-CGAAATGGAAAATCGCAACGCAACTG
19005 TAGACTATCGCAACG
63 TAGACTATCGCAACG
19020 CAATTTTCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
82 32 0.46
83 33 0.48
84 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (82 bp):
TGGAAAATCGCAACGACAACTGTAGACTATAGCAACCGAAATGGAAAATCGCAACGCAACTGTAG
ACTATCGCAACGTGAAA
Found at i:19051 original size:21 final size:21
Alignment explanation
Indices: 18926--19051 Score: 107
Period size: 21 Copynumber: 6.1 Consensus size: 21
18916 ACAACTGTAG
* *
18926 ACTATCGCAACGTGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
18947 A-AATCGCAACGCGAATTTCA
1 ACTATCGCAACGCGAAATGCA
*
18967 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * *
18988 A-AATCGCAACGCG-ACTGTA
1 ACTATCGCAACGCGAAATGCA
* *
19007 GACTATCGCAACGC-AATTTTCA
1 -ACTATCGCAACGCGAA-ATGCA
19029 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
19050 AC
1 AC
19052 GCGAATTTGC
Statistics
Matches: 81, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.05
20 27 0.33
21 46 0.57
22 4 0.05
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:25436 original size:30 final size:30
Alignment explanation
Indices: 25400--25620 Score: 298
Period size: 30 Copynumber: 7.4 Consensus size: 30
25390 CACACATTCC
25400 AATATGAAAATCGGATATAGTTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
*
25430 AATATGAAAATTGGATATAGTTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
* * *
25460 AATATGAAAATCGAATACAGCTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
* * * *
25490 AATATGAAATTCAGTTATGGTTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
* **
25520 AATATGAAAATCGGGTATACATTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
* * *
25550 AATATAAAAATAGGATATAGCTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
* *
25580 AATATGAAAATCTGATGTAGTTTAAGTACT
1 AATATGAAAATCGGATATAGTTTAAGTACT
25610 AATATGAAAAT
1 AATATGAAAAT
25621 TAGGATAGTT
Statistics
Matches: 163, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 163 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (30 bp):
AATATGAAAATCGGATATAGTTTAAGTACT
Found at i:28721 original size:10 final size:10
Alignment explanation
Indices: 28693--28727 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
28683 CATATATATA
28693 TATATTTTAT
1 TATATTTTAT
28703 GTATATTTTAT
1 -TATATTTTAT
*
28714 TTTATTTTAT
1 TATATTTTAT
28724 TATA
1 TATA
28728 CATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:28732 original size:45 final size:46
Alignment explanation
Indices: 28640--28739 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 46
28630 CTACTATTAT
*
28640 TATATACTATATTTTCATTATTATTATATTTTATTCCTTTATTCATA
1 TATATA-TATATTTTCATTATTATTATATTTTATTCCTTTATACATA
* *
28687 TATATATATATTTT-ATGTA-TATTTTATTTTATT-TTATTATACATA
1 TATATATATATTTTCAT-TATTATTATATTTTATTCCT-TTATACATA
28732 TATATATA
1 TATATATA
28740 CACATATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 1 0.02
45 31 0.65
46 10 0.21
47 6 0.12
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (46 bp):
TATATATATATTTTCATTATTATTATATTTTATTCCTTTATACATA
Found at i:30468 original size:10 final size:10
Alignment explanation
Indices: 30453--30486 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30443 TTCATTTACC
30453 ATTTATTTTT
1 ATTTATTTTT
30463 ATTTATTTTT
1 ATTTATTTTT
* *
30473 ATCTATTTCT
1 ATTTATTTTT
30483 ATTT
1 ATTT
30487 TACTAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:39927 original size:21 final size:21
Alignment explanation
Indices: 39901--39940 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39891 TCCTAAGTTG
**
39901 AAAAAAAAATGAAAAAAACCA
1 AAAAAAAAAACAAAAAAACCA
39922 AAAAAAAAAACAAAAAAAC
1 AAAAAAAAAACAAAAAAAC
39941 GCTTAGGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAACAAAAAAACCA
Found at i:40907 original size:105 final size:105
Alignment explanation
Indices: 40721--41496 Score: 1264
Period size: 105 Copynumber: 7.4 Consensus size: 105
40711 AGGTTTTACC
40721 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
40786 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
40826 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
40891 ACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
*
40931 CAGGGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
40996 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
41036 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
41101 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
41141 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
*
41206 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTC
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
41246 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
41311 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * * ***
41351 CAGAACCAATTTTAACTTCACAACGAAGGATATTGGACTCAAGACAGTATAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
* ** ** * * *
41416 ACGAAGGGGCCGCTGACTGTCAACCGACGATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* * **
41457 CAGAACCAATTTCAACTTCACAGCGGGGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
41497 GGAACAATAT
Statistics
Matches: 640, Mismatches: 30, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
105 595 0.93
106 45 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:43120 original size:10 final size:10
Alignment explanation
Indices: 43092--43126 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
43082 TATATATATA
43092 TATATTTTAT
1 TATATTTTAT
43102 GTATATTTTAT
1 -TATATTTTAT
*
43113 TTTATTTTAT
1 TATATTTTAT
43123 TATA
1 TATA
43127 CATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (10 bp):
TATATTTTAT
Found at i:43146 original size:51 final size:52
Alignment explanation
Indices: 43040--43146 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 52
43030 TATTATATAC
* * *
43040 TATATTTTCATTATTATTATATTTTATTCCTTTATTCATATATATATATATA
1 TATATTTTCATTATTATTATATTTTATTCCTTTATACATATATATATACACA
* *
43092 TATATTTT-ATGTA-TATTTTATTTTATT-TTATTATACATATATATATACACA
1 TATATTTTCAT-TATTATTATATTTTATTCCT-TTATACATATATATATACACA
43143 TATA
1 TATA
43147 ATCATCGTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
50 1 0.02
51 37 0.77
52 10 0.21
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.58
Consensus pattern (52 bp):
TATATTTTCATTATTATTATATTTTATTCCTTTATACATATATATATACACA
Found at i:47931 original size:30 final size:30
Alignment explanation
Indices: 47819--47932 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
47809 TAAATAAGCC
*
47819 TTTTGTAACTTTTAATAGTCTG-ATTTACCA
1 TTTTGTAACTTCTAATAGTC-GAATTTACCA
*
47849 TTTTGTAACTTCTAATAGTCGGATTTACCA
1 TTTTGTAACTTCTAATAGTCGAATTTACCA
*
47879 TTTTGTAACTTCTAATAGTCGAATTTATCA
1 TTTTGTAACTTCTAATAGTCGAATTTACCA
*
47909 TTTTGTAACTTTTAATAGTCGAAT
1 TTTTGTAACTTCTAATAGTCGAAT
47933 GACTCAACAA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
29 1 0.01
30 78 0.99
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (30 bp):
TTTTGTAACTTCTAATAGTCGAATTTACCA
Found at i:50893 original size:14 final size:14
Alignment explanation
Indices: 50874--50900 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50864 TCTAAAATTA
50874 TATTAATTTTTTAT
1 TATTAATTTTTTAT
50888 TATTAATTTTTTA
1 TATTAATTTTTTA
50901 AATTTATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTAATTTTTTAT
Found at i:58930 original size:15 final size:15
Alignment explanation
Indices: 58912--58952 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
58902 GGAAGGTGAT
58912 AATCCTGAAGATGAA
1 AATCCTGAAGATGAA
58927 AATCCTGAAGATGAA
1 AATCCTGAAGATGAA
*
58942 AATTCTGAAGA
1 AATCCTGAAGA
58953 AGATCAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.22
Consensus pattern (15 bp):
AATCCTGAAGATGAA
Found at i:64974 original size:21 final size:20
Alignment explanation
Indices: 64942--64995 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
64932 TTAAATTTAT
*
64942 AAATAT-AAAAAAATCAGGAA
1 AAATATAAAAAAAATC-CGAA
64962 AAATATAAAAAAAATCCGAA
1 AAATATAAAAAAAATCCGAA
*
64982 AAAT-TACAAAAAAT
1 AAATATAAAAAAAAT
64996 TTAGTATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 9 0.29
20 13 0.42
21 9 0.29
ACGTcount: A:0.70, C:0.07, G:0.06, T:0.17
Consensus pattern (20 bp):
AAATATAAAAAAAATCCGAA
Found at i:78252 original size:35 final size:35
Alignment explanation
Indices: 78179--78253 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
78169 CGTCACTAAC
**
78179 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
78214 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
78249 AGTAA
1 AGTAA
78254 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:78411 original size:23 final size:23
Alignment explanation
Indices: 78335--78420 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
78325 ATTCAAGTCA
78335 AGTATCATATCAGAATCCAGGTC
1 AGTATCATATCAGAATCCAGGTC
* * *
78358 ATGTATCAGATCATAATCCATGTC
1 A-GTATCATATCAGAATCCAGGTC
*
78382 AATATCATATCAGAATCCAGGTC
1 AGTATCATATCAGAATCCAGGTC
* *
78405 AGGATCATAACAGAAT
1 AGTATCATATCAGAAT
78421 TCAAGTCGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 32 0.62
24 20 0.38
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (23 bp):
AGTATCATATCAGAATCCAGGTC
Found at i:79586 original size:18 final size:18
Alignment explanation
Indices: 79565--79600 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79555 CTTCCATCCG
*
79565 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
79583 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
79601 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:89943 original size:2 final size:2
Alignment explanation
Indices: 89936--89986 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
89926 ATTAAAATGA
89936 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
89978 AT AT AT AT A
1 AT AT AT AT A
89987 ACAATCAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90257 original size:14 final size:14
Alignment explanation
Indices: 90240--90267 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90230 TAGTACATCA
90240 ATAGTTATATTTAT
1 ATAGTTATATTTAT
90254 ATAGTTATATTTAT
1 ATAGTTATATTTAT
90268 TTTATAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (14 bp):
ATAGTTATATTTAT
Found at i:91934 original size:12 final size:12
Alignment explanation
Indices: 91917--91950 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
91907 TTGTGAAATA
91917 ATTTTTAAATTT
1 ATTTTTAAATTT
91929 ATTTTTAAAATTT
1 ATTTTT-AAATTT
91942 ATTATTTAA
1 ATT-TTTAA
91951 TATAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 11 0.55
14 3 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTTTAAATTT
Found at i:93424 original size:20 final size:20
Alignment explanation
Indices: 93399--93472 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
93389 TTTTCCCAAT
*
93399 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
93419 TCGCAACGCGAATTGGGAAA
1 TCGCAACGCGAATAAGTAAA
*
93439 TTCGCAATGCGAATAAGTAAA
1 -TCGCAACGCGAATAAGTAAA
93460 TCGCAACGCGAAT
1 TCGCAACGCGAAT
93473 TGGGAAAATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:93441 original size:41 final size:41
Alignment explanation
Indices: 93396--93491 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
93386 CGATTTTCCC
93396 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
93437 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
* *
93478 AAATCACAATGCGA
1 AATTCGCAATGCGA
93492 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:93491 original size:21 final size:21
Alignment explanation
Indices: 93416--93491 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
93406 GCGAATAAGT
93416 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* * ** *
93437 AATTCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
93457 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* *
93478 AAATCACAATGCGA
1 AAATCGCAACGCGA
93492 TACTGACTAT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:93509 original size:20 final size:20
Alignment explanation
Indices: 93488--93573 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
93478 AAATCACAAT
*
93488 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* * **
93508 GCGATAATAAAAAATCGCAAC
1 GCGATACT-GACTATCGCAAC
* * *
93529 GAGATACTTACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
*
93549 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
93569 GCGAT
1 GCGAT
93574 TTACTTAGCG
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:93522 original size:41 final size:41
Alignment explanation
Indices: 93477--93554 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
93467 GCGAATTGGG
* * *
93477 AAAATCACAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCACAACGAGATACTGACTATCGCAACGCGATAATAA
* * *
93518 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATA
1 AAAATCACAACGAGATACTGACTATCGCAACGCGATA
93555 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCACAACGAGATACTGACTATCGCAACGCGATAATAA
Found at i:94161 original size:19 final size:19
Alignment explanation
Indices: 94139--94189 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
94129 GAAACCAAAA
*
94139 TCGCATTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94158 TCGCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
94177 TCGCGTTGCGATT
1 TCGCATTGCGATT
94190 CTCTCGTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:94209 original size:33 final size:33
Alignment explanation
Indices: 94172--94259 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
94162 GTTGCGATTT
*
94172 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
*
94205 TCATTTCGCGTTGCGATTCTCTCATTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
*
94238 TCATTTCCGCGTTGCAATTCTC
1 TCATTT-CGCGTTGCGATTCTC
94260 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 37 0.73
34 14 0.27
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCATCGCGATAG
Found at i:94261 original size:20 final size:20
Alignment explanation
Indices: 94238--94284 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
94228 ATTGCGATAG
94238 TCATTTCCGCGTTGCAATTC
1 TCATTTCCGCGTTGCAATTC
* * *
94258 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCGCGTTGCAATTC
94278 TCATTTC
1 TCATTTC
94285 AACCAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.47
Consensus pattern (20 bp):
TCATTTCCGCGTTGCAATTC
Found at i:94810 original size:18 final size:18
Alignment explanation
Indices: 94784--94828 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
94774 GTCGATCAGA
*
94784 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
94802 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
94820 TGATGGCTC
1 TGATGGCTC
94829 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:96172 original size:20 final size:20
Alignment explanation
Indices: 96147--96184 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
96137 AATAGTTTCT
96147 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
96167 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
96185 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:96454 original size:22 final size:22
Alignment explanation
Indices: 96429--96472 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
96419 GATTTAGATA
96429 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
96451 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
96473 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:96670 original size:21 final size:22
Alignment explanation
Indices: 96640--96735 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 22
96630 CGCTTTGAAA
*
96640 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTAAGT
* *
96661 ATCGCGTTGCGA--AAGTAAGT
1 ATCGCATTGCGATTATGTAAGT
* * * * *
96681 ATCTCGTTGCGATT-TTTTATT
1 ATCGCATTGCGATTATGTAAGT
*
96702 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGTAAGT
96722 ATCGCATTGCGATT
1 ATCGCATTGCGATT
96736 TTCTCAATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.05
20 29 0.51
21 25 0.44
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.39
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTAAGT
Found at i:96703 original size:41 final size:41
Alignment explanation
Indices: 96640--96754 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
96630 CGCTTTGAAA
* *
96640 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTTTATTATCGCGTTGCGAAAGTAAGT
* * * * *
96681 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTTTATTATCGCGTTGCGAAAGTAAGT
* *
96722 ATCGCATTGCGATTTTCTCAAT-TCGCGTTGCGA
1 ATCGCATTGCGATTTT-TTATTATCGCGTTGCGA
96755 TTTACTTATT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 58 0.95
42 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
ATCGCATTGCGATTTTTTATTATCGCGTTGCGAAAGTAAGT
Found at i:96767 original size:20 final size:21
Alignment explanation
Indices: 96723--96774 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
96713 ATAGTCAGTA
*
96723 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACTCAAT
* *
96744 TCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTCAAT
96764 TCGCATTGCGA
1 TCGCATTGCGA
96775 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTACTCAAT
Found at i:99434 original size:27 final size:26
Alignment explanation
Indices: 99404--99455 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
99394 ATCATTCGAA
99404 CAAAGAAGAACTCGAAAAGAAAAAAAC
1 CAAAGAAGAACTC-AAAAGAAAAAAAC
* * *
99431 CAAAGAGGGATTCAAAAGAAAAAAA
1 CAAAGAAGAACTCAAAAGAAAAAAA
99456 TGAGCTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.65, C:0.12, G:0.17, T:0.06
Consensus pattern (26 bp):
CAAAGAAGAACTCAAAAGAAAAAAAC
Found at i:101197 original size:61 final size:62
Alignment explanation
Indices: 101121--101252 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 62
101111 AATAATTATA
* * * *
101121 TAAAGTATA-TCATATTTTT-TTATCTAAATACCTAAATTATTGTTTAG-TCAAAGTAGGTATC
1 TAAAGTATACTCATATTTTTCAT-TC-AAATACCTAAAATATTGTTTAGATCAAAATAGGTACC
* * *
101182 TAAAGTATACT-ATATTTTTCATTCAAGTACCTAAAATATTTTTTGGATCAAAATAGGTACC
1 TAAAGTATACTCATATTTTTCATTCAAATACCTAAAATATTGTTTAGATCAAAATAGGTACC
*
101243 TAAAATATAC
1 TAAAGTATAC
101253 AATCCTTTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
60 18 0.30
61 40 0.67
62 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (62 bp):
TAAAGTATACTCATATTTTTCATTCAAATACCTAAAATATTGTTTAGATCAAAATAGGTACC
Found at i:101272 original size:60 final size:60
Alignment explanation
Indices: 101149--101291 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
101139 TTTATCTAAA
* * * * * *
101149 TACCTAAATTATTGTTTAGTCAAAGTAGGTATCTAAAGTATACTATATTTTTCATTCAAG
1 TACCTAAAATATTTTTTAGTCAAAATAGGTACCTAAAATATACTATATCTTTCATTCAAG
* * *
101209 TACCTAAAATATTTTTTGGATCAAAATAGGTACCTAAAATATAC-A-ATCCTTTCATTTAGG
1 TACCTAAAATATTTTTTAG-TCAAAATAGGTACCTAAAATATACTATAT-CTTTCATTCAAG
*
101269 TACCTAAAATATTTTTTAATCAA
1 TACCTAAAATATTTTTTAGTCAA
101292 TTTAACATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
59 6 0.09
60 43 0.61
61 21 0.30
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (60 bp):
TACCTAAAATATTTTTTAGTCAAAATAGGTACCTAAAATATACTATATCTTTCATTCAAG
Found at i:102481 original size:17 final size:18
Alignment explanation
Indices: 102449--102482 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102439 CAATGTAGTA
*
102449 AATAATAATCTTGTATAC
1 AATAATAATATTGTATAC
102467 AATAA-AATATTGTATA
1 AATAATAATATTGTATA
102483 GAGAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAATAATATTGTATAC
Found at i:105476 original size:25 final size:27
Alignment explanation
Indices: 105435--105488 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
105425 CTCAGTTGGA
* *
105435 TTTTTAATTTTTCAATT-GACTCGAAC
1 TTTTTAAATTTTCAATTCGACTCAAAC
105461 TTTTTAAATTTT-AATTCGACTCAAAC
1 TTTTTAAATTTTCAATTCGACTCAAAC
105487 TT
1 TT
105489 AAAAACTAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.50
Consensus pattern (27 bp):
TTTTTAAATTTTCAATTCGACTCAAAC
Found at i:107080 original size:13 final size:13
Alignment explanation
Indices: 107064--107093 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
107054 TTTAATTACG
107064 AAAATTAAAAATT
1 AAAATTAAAAATT
*
107077 AAAATTAAAATTT
1 AAAATTAAAAATT
107090 AAAA
1 AAAA
107094 ACTCAATTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:107684 original size:43 final size:40
Alignment explanation
Indices: 107608--107697 Score: 101
Period size: 43 Copynumber: 2.2 Consensus size: 40
107598 TTTTTAAATC
* * *
107608 ATATA-ATATATATTTTCAAATAACGTTTTAAAATTATATT
1 ATATATATATATACTTTCAAAAAACGTTTTAAAATCATA-T
*
107648 ATATATATATATACTTTCTAAAAAATGTTTTCAAAATCATAT
1 ATATATATATATACTTTC-AAAAAACGTTTT-AAAATCATAT
107690 ACTATATA
1 A-TATATA
107698 GTTTTTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.12
41 11 0.26
42 12 0.29
43 14 0.33
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (40 bp):
ATATATATATATACTTTCAAAAAACGTTTTAAAATCATAT
Found at i:107755 original size:40 final size:39
Alignment explanation
Indices: 107699--107971 Score: 132
Period size: 40 Copynumber: 7.2 Consensus size: 39
107689 TACTATATAG
107699 TTTTTAAAATG---TTTTAAAAACTATATATTATAAATA
1 TTTTTAAAATGTTTTTTTAAAAACTATATATTATAAATA
* * *
107735 TTTTTCAAACTGTTTTTTTAAAAATTATATATTATACATA
1 TTTTT-AAAATGTTTTTTTAAAAACTATATATTATAAATA
*** *
107775 TTTTTAAAATG--TTTTCGGAAA-T-TATATTATATATA
1 TTTTTAAAATGTTTTTTTAAAAACTATATATTATAAATA
* * * *
107810 -TTTCAAAATGTTTTTTTTATAAAAACTATATAATATATATG
1 TTTTTAAAATG--TTTTTT-TAAAAACTATATATTATAAATA
* * *
107851 TTTTCGAAAATG--CTTTCAAAAA-T-TATA-TAT--ATA
1 TTTT-TAAAATGTTTTTTTAAAAACTATATATTATAAATA
** * * *
107884 TTTCCACAATACTTTTTTTAAAAACTATATA--ATATATA
1 TTTTTAAAAT-GTTTTTTTAAAAACTATATATTATAAATA
** * *
107922 TGTTTTCCAAT-TTTTTTTAAAAAACTATATATTATATATC
1 T-TTTTAAAATGTTTTTTT-AAAAACTATATATTATAAATA
107962 TATTTTAAAA
1 T-TTTTAAAA
107972 AACCATTAGC
Statistics
Matches: 182, Mismatches: 31, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
32 4 0.02
33 5 0.03
34 9 0.05
35 23 0.13
36 13 0.07
37 24 0.13
38 25 0.14
39 17 0.09
40 42 0.23
41 11 0.06
42 3 0.02
43 6 0.03
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.49
Consensus pattern (39 bp):
TTTTTAAAATGTTTTTTTAAAAACTATATATTATAAATA
Found at i:107789 original size:76 final size:75
Alignment explanation
Indices: 107699--107960 Score: 205
Period size: 76 Copynumber: 3.5 Consensus size: 75
107689 TACTATATAG
* * *
107699 TTTTTAAAATGTTTTAAAAACTATATATTATAAATATTTTTCAAACTG-TTTTTT-TAAAAATTA
1 TTTTTAAAATGTTTTAAAAA-TATATATTAT--ATATATTTCAAAATGTTTTTTTATAAAAACTA
*
107762 TATATTATACATA
63 TATAATATACATA
**
107775 TTTTTAAAATGTTTTCGGAAAT-TATATTATATATATTTCAAAATGTTTTTTTTATAAAAACTAT
1 TTTTTAAAATGTTTT-AAAAATATATATTATATATATTTCAAAATG-TTTTTTTATAAAAACTAT
* *
107839 ATAATATATATG
64 ATAATATACATA
* * * * **
107851 TTTTCGAAAATGCTTTCAAAAAT-TATA-TATATAT-TTCCACAATACTTTTTT-TAAAAACTAT
1 TTTT-TAAAATG-TTTTAAAAATATATATTATATATATTTCAAAATGTTTTTTTATAAAAACTAT
* *
107912 ATAATATATATG
64 ATAATATACATA
* ** *
107924 TTTTCCAATTTTTTTTAAAAAACTATATATTATATAT
1 TTTT-TAAAATGTTTT-AAAAA-TATATATTATATAT
107961 CTATTTTAAA
Statistics
Matches: 155, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
72 3 0.02
73 48 0.31
74 7 0.05
75 25 0.16
76 52 0.34
77 17 0.11
78 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (75 bp):
TTTTTAAAATGTTTTAAAAATATATATTATATATATTTCAAAATGTTTTTTTATAAAAACTATAT
AATATACATA
Found at i:107827 original size:75 final size:72
Alignment explanation
Indices: 107699--107919 Score: 221
Period size: 76 Copynumber: 2.9 Consensus size: 72
107689 TACTATATAG
* *
107699 TTTTTAAAATGTTTT-AAAAACTATATATTATAAATATTTTTCAAACTGTTTTTTTAAAAATTAT
1 TTTTTAAAATGTTTTCAAAAA-T-TATATTAT--ATA-TTTTCAAAATGTTTTTTTAAAAACTAT
*
107763 ATATTATACATA
61 ATAATATACATA
**
107775 TTTTTAAAATGTTTTCGGAAATTATATTATATATATTTCAAAATGTTTTTTTTATAAAAACTATA
1 TTTTTAAAATGTTTTCAAAAATTATATTATATAT-TTTCAAAATG--TTTTTT-TAAAAACTATA
* *
107840 TAATATATATG
62 TAATATACATA
* * * * *
107851 TTTTCGAAAATGCTTTCAAAAATTATA-TATATATTTCCACAATACTTTTTTTAAAAACTATATA
1 TTTT-TAAAATGTTTTCAAAAATTATATTATATATTTTCAAAAT-GTTTTTTTAAAAACTATATA
107915 ATATA
64 ATATA
107920 TATGTTTTCC
Statistics
Matches: 124, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
72 1 0.01
73 30 0.24
74 6 0.05
75 21 0.17
76 45 0.36
77 21 0.17
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (72 bp):
TTTTTAAAATGTTTTCAAAAATTATATTATATATTTTCAAAATGTTTTTTTAAAAACTATATAAT
ATACATA
Found at i:107938 original size:38 final size:38
Alignment explanation
Indices: 107820--107960 Score: 130
Period size: 38 Copynumber: 3.8 Consensus size: 38
107810 TTTCAAAATG
*
107820 TTTTTTTTATAAAAACTATATAATATATATGTTTTCGAA
1 TTTTTTTT-TAAAAACTATATAATATATATGTTTTCCAA
** ** * *
107859 AATGCTTTCAAAAA-T-TAT-ATATATA--TTTCCACAA
1 TTTTTTTTTAAAAACTATATAATATATATGTTTTC-CAA
*
107893 TACTTTTTTTAAAAACTATATAATATATATGTTTTCCAA
1 T-TTTTTTTTAAAAACTATATAATATATATGTTTTCCAA
* *
107932 TTTTTTTTAAAAAACTATATATTATATAT
1 TTTTTTTTTAAAAACTATATAATATATAT
107961 CTATTTTAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
33 4 0.05
34 2 0.03
35 16 0.20
36 4 0.05
37 4 0.05
38 37 0.47
39 8 0.10
40 4 0.05
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (38 bp):
TTTTTTTTTAAAAACTATATAATATATATGTTTTCCAA
Found at i:107987 original size:2 final size:2
Alignment explanation
Indices: 107982--108006 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
107972 AACCATTAGC
107982 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
108007 ACGGACGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:108125 original size:15 final size:16
Alignment explanation
Indices: 108105--108134 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108095 ATTTTAAAAT
108105 ATTTT-AATAATTTTA
1 ATTTTAAATAATTTTA
108120 ATTTTAAATAATTTT
1 ATTTTAAATAATTTT
108135 TCAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAAATAATTTTA
Found at i:111724 original size:20 final size:20
Alignment explanation
Indices: 111686--111730 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
111676 TTACCGTGTA
111686 GGGCAAGTAGCCTTGCAAAT
1 GGGCAAGTAGCCTTGCAAAT
* *
111706 TGGCAAGTGGTCCTT-CAAAT
1 GGGCAAGTAG-CCTTGCAAAT
111726 GGGCA
1 GGGCA
111731 GGCACTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (20 bp):
GGGCAAGTAGCCTTGCAAAT
Found at i:112245 original size:47 final size:47
Alignment explanation
Indices: 112191--112285 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
112181 AAAAGTTTAA
112191 AGAGTAAAAATATGAGAACAAAACAATCTCACATGGCTAAGAAACAT
1 AGAGTAAAAATATGAGAACAAAACAATCTCACATGGCTAAGAAACAT
112238 AGAGTAAAAATATGAGAACAAAACAATCTCACATGGCTAAGAAACAT
1 AGAGTAAAAATATGAGAACAAAACAATCTCACATGGCTAAGAAACAT
112285 A
1 A
112286 AAAGAGCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (47 bp):
AGAGTAAAAATATGAGAACAAAACAATCTCACATGGCTAAGAAACAT
Found at i:119555 original size:21 final size:23
Alignment explanation
Indices: 119505--119575 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 23
119495 AATCAAATAT
* *
119505 ATAAAATTTTAAAAGAATATAAATA
1 ATAAAATTTTAATAGAATA-CAA-A
119530 CATAAAATTTTAATA-AAT-CAAA
1 -ATAAAATTTTAATAGAATACAAA
*
119552 ATAAATTTTTAATAGAATACAAA
1 ATAAAATTTTAATAGAATACAAA
119575 A
1 A
119576 ACAATATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 13 0.32
22 4 0.10
23 7 0.17
25 3 0.08
26 13 0.32
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (23 bp):
ATAAAATTTTAATAGAATACAAA
Found at i:128044 original size:31 final size:31
Alignment explanation
Indices: 128006--128109 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 31
127996 ATGAAATTTT
* * *
128006 ATAAGTTTAAGGATTATTTTATAACACTTTG
1 ATAAGTTTAATGATTATTTTATAACAATTAG
* * *
128037 ATAAGTTTGATGA-TATGTTGTAACAATTAG
1 ATAAGTTTAATGATTATTTTATAACAATTAG
* *
128067 ATAAAATTTAATGATTATTTTATAACCGATTA-
1 AT-AAGTTTAATGATTATTTTATAA-CAATTAG
*
128099 AAAAGTTTAAT
1 ATAAGTTTAAT
128110 AACTAGTTTA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 15 0.26
31 28 0.49
32 9 0.16
33 5 0.09
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (31 bp):
ATAAGTTTAATGATTATTTTATAACAATTAG
Found at i:128706 original size:3 final size:3
Alignment explanation
Indices: 128691--128743 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
128681 TAATATACTA
*
128691 ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
128739 ATT AT
1 ATT AT
128744 ATATACATAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:131368 original size:72 final size:78
Alignment explanation
Indices: 131283--131442 Score: 215
Period size: 81 Copynumber: 2.1 Consensus size: 78
131273 ATTAGGCTTC
*
131283 GCAGACCGTTTGTTTTTT-AGA-AG-A-TATTCTAACGTCTGC-GTGGTCTGCGCGGCGCAGACG
1 GCAGACCGTTTGTTTTTTAAGACAGAACTATTCTAACGTCTGCGGTGGTATGCGCGGCGCAGACG
*
131343 TG-GCTTATGTCT
66 TGACCTTATGTCT
*
131355 GCAGACCGTTTGTTTTTTAGAAGACAGAAGCTCTTCTAACGTCTGCGTGTGGTATGCGCGGCGCA
1 GCAGACCGTTTGTTTTTT--AAGACAGAA-CTATTCTAACGTCTGCG-GTGGTATGCGCGGCGCA
131420 GACGTGACCTTATGTCT
62 GACGTGACCTTATGTCT
131437 GCAGAC
1 GCAGAC
131443 ATCTTCTAAC
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
72 18 0.24
75 3 0.04
76 2 0.03
77 1 0.01
79 14 0.19
81 22 0.29
82 15 0.20
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.31
Consensus pattern (78 bp):
GCAGACCGTTTGTTTTTTAAGACAGAACTATTCTAACGTCTGCGGTGGTATGCGCGGCGCAGACG
TGACCTTATGTCT
Found at i:131559 original size:14 final size:13
Alignment explanation
Indices: 131527--131565 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
131517 TTAAATAAAT
*
131527 TAAATATTAATTT
1 TAAATATTAATTA
*
131540 TTAATATTATATTA
1 TAAATATTA-ATTA
131554 TAAATATTAATT
1 TAAATATTAATT
131566 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATTAATTA
Found at i:131560 original size:27 final size:28
Alignment explanation
Indices: 131527--131621 Score: 119
Period size: 29 Copynumber: 3.5 Consensus size: 28
131517 TTAAATAAAT
131527 TAAATATTAA-TTTTTAATATTATATTA
1 TAAATATTAATTTTTTAATATTATATTA
*
131554 TAAATATTAATTTTTTTAA-A-TA-AAT-
1 TAAATATTAA-TTTTTTAATATTATATTA
131579 TAAATATTAATTTTTTAATATTATATTA
1 TAAATATTAATTTTTTAATATTATATTA
*
131607 TAGATATTTAATTTT
1 TAAATA-TTAATTTT
131622 ATATCATATA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
24 8 0.14
25 11 0.19
26 4 0.07
27 14 0.24
28 6 0.10
29 15 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (28 bp):
TAAATATTAATTTTTTAATATTATATTA
Found at i:131578 original size:52 final size:53
Alignment explanation
Indices: 131505--131621 Score: 193
Period size: 52 Copynumber: 2.2 Consensus size: 53
131495 TTTTAATTTT
*
131505 AATATTAA-CTTTTTAAATAAATTAAATATTAA-TTTTTAATATTATATTATA
1 AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATA
131556 AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATA
1 AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATA
*
131609 GATATTTAATTTT
1 AATA-TTAATTTT
131622 ATATCATATA
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
51 8 0.13
52 23 0.38
53 22 0.36
54 8 0.13
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (53 bp):
AATATTAATTTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATA
Found at i:131588 original size:25 final size:24
Alignment explanation
Indices: 131505--131596 Score: 114
Period size: 24 Copynumber: 3.7 Consensus size: 24
131495 TTTTAATTTT
*
131505 AATATTAACTTTTTAAATAAATTA
1 AATATTAATTTTTTAAATAAATTA
*
131529 AATATTAA-TTTTTAATATTATATTATA
1 AATATTAATTTTTTAA-A-TA-AAT-TA
131556 AATATTAATTTTTTTAAATAAATTA
1 AATATTAA-TTTTTTAAATAAATTA
131581 AATATTAATTTTTTAA
1 AATATTAATTTTTTAA
131597 TATTATATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 7 0.12
24 17 0.28
25 12 0.20
26 4 0.07
27 12 0.20
28 1 0.02
29 7 0.12
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
AATATTAATTTTTTAAATAAATTA
Found at i:131677 original size:20 final size:19
Alignment explanation
Indices: 131617--131678 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
131607 TAGATATTTA
*
131617 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
131636 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
131654 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
131674 ATTTT
1 ATTTT
131679 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:132050 original size:9 final size:9
Alignment explanation
Indices: 132038--132069 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
132028 AATTTTATTC
132038 TATAAAACT
1 TATAAAACT
132047 TATAAAACT
1 TATAAAACT
132056 TATAAAACT
1 TATAAAACT
*
132065 AATAA
1 TATAA
132070 TACATGTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (9 bp):
TATAAAACT
Found at i:132187 original size:31 final size:31
Alignment explanation
Indices: 132152--132211 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
132142 TTATTGTATG
* *
132152 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
132183 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
132212 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:134076 original size:4 final size:4
Alignment explanation
Indices: 134067--134105 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
134057 ATGACAGCCA
* *
134067 CTGG CTGG CTAG CTGG TTGG CCTGG CTGG CTGG CTGG CT
1 CTGG CTGG CTGG CTGG CTGG -CTGG CTGG CTGG CTGG CT
134106 CCATCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.03, C:0.26, G:0.44, T:0.28
Consensus pattern (4 bp):
CTGG
Found at i:134093 original size:17 final size:17
Alignment explanation
Indices: 134067--134104 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
134057 ATGACAGCCA
134067 CTGG-CTGGCTAGCTGG
1 CTGGCCTGGCTAGCTGG
* *
134083 TTGGCCTGGCTGGCTGG
1 CTGGCCTGGCTAGCTGG
134100 CTGGC
1 CTGGC
134105 TCCATCTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.03, C:0.26, G:0.45, T:0.26
Consensus pattern (17 bp):
CTGGCCTGGCTAGCTGG
Found at i:138076 original size:50 final size:50
Alignment explanation
Indices: 138016--138151 Score: 200
Period size: 50 Copynumber: 2.7 Consensus size: 50
138006 CATGCATCGA
*
138016 TGTAGCACCTTGGCTCCATAGATGTGGTCTCATGCTAATACATACATCCT
1 TGTAGCACCTTGGCTCCATAGAGGTGGTCTCATGCTAATACATACATCCT
* * *
138066 TGTAGTACCTTGGCTCCATTGAGGTGGTCTCATGCTAATACATGCATCCT
1 TGTAGCACCTTGGCTCCATAGAGGTGGTCTCATGCTAATACATACATCCT
* * * *
138116 TATAGCACCTAGGTTCCATCGAGGTGGTCTCATGCT
1 TGTAGCACCTTGGCTCCATAGAGGTGGTCTCATGCT
138152 CCATGTCGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (50 bp):
TGTAGCACCTTGGCTCCATAGAGGTGGTCTCATGCTAATACATACATCCT
Found at i:146009 original size:18 final size:18
Alignment explanation
Indices: 145983--146017 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
145973 ATTTTTTCCT
*
145983 TCTTGTGTGGTTGATTCG
1 TCTTCTGTGGTTGATTCG
146001 TCTTCTGTGGTTGATTC
1 TCTTCTGTGGTTGATTC
146018 TTTTTTTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.14, G:0.29, T:0.51
Consensus pattern (18 bp):
TCTTCTGTGGTTGATTCG
Found at i:152593 original size:2 final size:2
Alignment explanation
Indices: 152588--152634 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
152578 ATATATATAT
* * * *
152588 AG AG AG AG AG AG GG AG GG AG GG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
152630 AG AG A
1 AG AG A
152635 ATGACTACGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (2 bp):
AG
Found at i:154265 original size:84 final size:84
Alignment explanation
Indices: 154117--154284 Score: 230
Period size: 84 Copynumber: 2.0 Consensus size: 84
154107 TGGGGACTTC
*
154117 AGTCTTGACTTCCATAGGCTGAGGTTTAACTGCCATACACTGGCTAACATGTTGATAATTTTGGT
1 AGTCTTGACTTCCATAGGCTGAGGTTTAACTGCCATACACTGGCTAACATGTTGATAATCTTGGT
*
154182 GCAGTATATCCTGAGATAT
66 GCAGGATATCCTGAGATAT
* * * * * *
154201 AGTCTTTG-CTTCCATAGGCTGAGTTTTAATTGGCATACACTGGTTAGCATGTTGGTAATCTTGG
1 AGTC-TTGACTTCCATAGGCTGAGGTTTAACTGCCATACACTGGCTAACATGTTGATAATCTTGG
**
154265 TGTTGGATATCCTGAGATAT
65 TGCAGGATATCCTGAGATAT
154285 GTGAGGTTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 70 0.96
85 3 0.04
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (84 bp):
AGTCTTGACTTCCATAGGCTGAGGTTTAACTGCCATACACTGGCTAACATGTTGATAATCTTGGT
GCAGGATATCCTGAGATAT
Found at i:162142 original size:13 final size:13
Alignment explanation
Indices: 162124--162148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
162114 ATATGTACGC
162124 ATGTATGTATGTT
1 ATGTATGTATGTT
162137 ATGTATGTATGT
1 ATGTATGTATGT
162149 AAGAAAAAGA
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
ATGTATGTATGTT
Found at i:162186 original size:201 final size:202
Alignment explanation
Indices: 161812--162190 Score: 609
Period size: 201 Copynumber: 1.9 Consensus size: 202
161802 GCATGTATGT
*
161812 ATGTTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATGAAGAAGAC
1 ATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTAT--AGAAGAC
* * *
161877 TGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTATGTTATGTAT
64 TGACAAAAACAAGCACAGCCCTCCTAAATGATACAGGCACGCATGTATG---TTATGTTATGTAT
*
161942 GCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTACATATATGT
126 GCATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTACGTATGTACATATATGT
162007 GTGTATGCATGA
191 GTGTATGCATGA
162019 ATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTAT-GAAGACTG
1 ATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATAGAAGACTG
* * * *
162083 ACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGTATG-TATGTTATGTATGTAT
66 ACAAAAACAAGCACAGCCCTCCTA-AATGATACAGGCACGCATGTATGTTATGTTATGTATGCAT
162147 GTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTA
130 GTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTA
162191 TGAAGAAGAC
Statistics
Matches: 162, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
201 58 0.36
204 31 0.19
205 18 0.11
207 55 0.34
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (202 bp):
ATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATAGAAGACTG
ACAAAAACAAGCACAGCCCTCCTAAATGATACAGGCACGCATGTATGTTATGTTATGTATGCATG
TAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTACGTATGTACATATATGTGTGTA
TGCATGA
Found at i:162276 original size:117 final size:117
Alignment explanation
Indices: 162008--162313 Score: 402
Period size: 117 Copynumber: 2.6 Consensus size: 117
161998 CATATATGTG
* * *
162008 TGTATGCATG-AATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
1 TGTATGCATGTTATG-TATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
* * *
162072 TATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCA
65 TATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATACAGGCACGCA
* *
162125 TGTATGTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGT
1 TGTATGCATGTTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGT
* * *
162190 ATGAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTA-AATGGTACAGGCATGCA
66 AT---GAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATACAGGCACGCA
*
162244 TGTATGCAT-TTATGTTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAA
1 TGTATGCATGTTATG-TATGTATGC----AAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAA
162308 GAAGTA
61 GAAGTA
162314 CGTATGTACA
Statistics
Matches: 168, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
117 60 0.36
118 8 0.05
119 28 0.17
120 31 0.18
123 41 0.24
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (117 bp):
TGTATGCATGTTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGT
ATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATACAGGCACGCA
Found at i:162313 original size:123 final size:117
Alignment explanation
Indices: 162028--162313 Score: 430
Period size: 123 Copynumber: 2.4 Consensus size: 117
162018 AATGTTACGT
162028 ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATGAAGACTGACAAAAACAA
1 ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATGAAGACTGACAAAAACAA
* * * *
162093 GCACAGCCCTCCTACAATGATATATGTACGCATGTATGTATGTTATGTATGT
66 GCACAGCCCTCCTACAATGATACAGGCACGCATGTATGTATGTTATGTATGC
*
162145 ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATGAAGAAGACTGCCAAAAA
1 ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTAT---GAAGACTGACAAAAA
* *
162210 CAAGCACAGCCCTCCTA-AATGGTACAGGCATGCATGTATGCATTTATGTTATGTATGC
63 CAAGCACAGCCCTCCTACAATGATACAGGCACGCATGTATG----TATGTTATGTATGC
*
162268 ATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTA
1 ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTA
162314 CGTATGTACA
Statistics
Matches: 154, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
117 47 0.31
119 18 0.12
120 31 0.20
123 58 0.38
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (117 bp):
ATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATGAAGACTGACAAAAACAA
GCACAGCCCTCCTACAATGATACAGGCACGCATGTATGTATGTTATGTATGC
Found at i:162393 original size:324 final size:324
Alignment explanation
Indices: 161804--162514 Score: 1343
Period size: 324 Copynumber: 2.2 Consensus size: 324
161794 GAATGTATGC
161804 ATGTATG-TATGTTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTAT
1 ATGTATGTTATG-TATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTAT
161868 GAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTAT
65 GAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTAT
161933 GTTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTA
130 GTTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTA
161998 CATATATGTGTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAAC
195 CATATATGTGTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAAC
162063 ATAAAGAAGTATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGT
260 ATAAAGAAGTATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGT
162128 ATGTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATG
1 ATGTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATG
162193 AAGAAGACTGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTATG
66 AAGAAGACTGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTATG
162258 TTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTAC
131 TTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTAC
162323 ATATATGTGTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACA
196 ATATATGTGTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACA
162388 TAAAGAAGTATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGT
261 TAAAGAAGTATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGT
* * *
162452 ATGCATTTATGTTATGTATGTATGTAAGAAAAATAAACTTGCCTTCGCTTGACAACATAAAGA
1 ATG----TATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGA
162515 TAGATGGATG
Statistics
Matches: 379, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
324 322 0.85
325 4 0.01
328 53 0.14
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (324 bp):
ATGTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTATG
AAGAAGACTGCCAAAAACAAGCACAGCCCTCCTAAATGGTACAGGCATGCATGTATGCATTTATG
TTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTATGTAC
ATATATGTGTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACA
TAAAGAAGTATGAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGT
Found at i:162542 original size:4 final size:4
Alignment explanation
Indices: 162535--162564 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
162525 GATGGATGGA
162535 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
162565 AGAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:162720 original size:209 final size:200
Alignment explanation
Indices: 162124--162727 Score: 727
Period size: 209 Copynumber: 2.9 Consensus size: 200
162114 ATATGTACGC
162124 ATGTATGTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
1 ATGTATGTATG-TATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
*
162189 TATGAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTA-AATGGTACAGGCATGCATGTATGCAT
65 TATG--GAAGACTGCCAAAAACAAGCACAGCCCTCCTACAAT-GTATA-G-A--CATGTATGCAT
* * *
162253 TTATGTTATGTATGCATGTAAGAAAAAGAAACTTGCCTTGGCTTTATAACATAAAGAAGTACGTA
123 TTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTACGGA
162318 TGTACATATATGT
188 TGTACATATATGT
* * * *
162331 GTGTATGCATGAATGTTACGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
1 ATGTATGTATGTATG-TATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAG
*
162396 TAT-GAAGACTGACAAAAACAAGCACAGCCCTCCTACAATGATATATGTACGCATGTATGCATTT
65 TATGGAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATG-TATA-G-A--CATGTATGCATTT
* * * *
162460 ATGTTATGTATGTATGTAAGAAAAATAAACTTGCCTTCGCTTGACAACATAAAGATAG-ATGGAT
125 ATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGA-AGTACGGAT
**
162524 GGATGGATGGATATGT
189 -G-TACAT--ATATGT
*
162540 ATGTATGTATGTATGTATGTATGTAAGAAAAATAAACTTGCCTTGGCTTGATATTTGATAACATA
1 ATGTATGTATGTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGC-------TTGATAACATA
* *
162605 AAGAAGTATGGCGAAGAGTGCCAAAAACAAGCACAGCCCTCCTACAATG-ATA-A-A-GTATGTA
59 AAGAAGTAT-G-GAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATGTATAGACATGTATGCA
* *
162666 TTTACGTTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTA
122 TTTATGTTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTA
162728 TGAAGAAGAC
Statistics
Matches: 347, Mismatches: 31, Indels: 36
0.84 0.07 0.09
Matches are distributed among these distances:
204 32 0.09
205 76 0.22
206 6 0.02
207 63 0.18
208 32 0.09
209 78 0.22
210 1 0.00
213 1 0.00
215 20 0.06
216 3 0.01
218 35 0.10
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (200 bp):
ATGTATGTATGTATGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGT
ATGGAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATGTATAGACATGTATGCATTTATGTTA
TGTATGTATGTAAGAAAAAGAAACTTGCCTTGGCTTGATAACATAAAGAAGTACGGATGTACATA
TATGT
Found at i:162760 original size:115 final size:115
Alignment explanation
Indices: 162538--162771 Score: 326
Period size: 115 Copynumber: 2.0 Consensus size: 115
162528 GGATGGATAT
* * *
162538 GTATGTATGTATGTATGTATGTATGTAAGAAAAATAAACTTGCCTTGGCTTGATATTTGATAACA
1 GTATGTATGTACGTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGC------TTTGATAACA
** *
162603 TAAAGAAGTATGGCGAAGAGTGCCAAAAACAAGCACAGCCCTCCTACAATGATAAA
60 TAAAGAAGTATGAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATGATAAA
*
162659 GTATGTATTTACGTTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGC-TTGATAACATAAAG
1 GTATGTATGTACG-TATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTTGATAACATAAAG
*
162723 AAGTATGAAGAAGACTGCCAAAAACAAGCATAGCCCTCCTACAATGATA
65 AAGTATGAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATGATA
162772 TATGCAATTC
Statistics
Matches: 104, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
115 59 0.57
121 11 0.11
122 34 0.33
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (115 bp):
GTATGTATGTACGTATGTATGTATGCAAGAAAAAGAAACTTGCCTTGGCTTTGATAACATAAAGA
AGTATGAAGAAGACTGCCAAAAACAAGCACAGCCCTCCTACAATGATAAA
Found at i:164295 original size:68 final size:68
Alignment explanation
Indices: 164186--164318 Score: 239
Period size: 68 Copynumber: 2.0 Consensus size: 68
164176 TCCTCCTTCC
*
164186 TAAGAATCTAAGGCATAACCTAATACATGTGTTCAGGTACTTCATGCAATGAAAGTTCCATACAT
1 TAAGAATCCAAGGCATAACCTAATACATGTGTTCAGGTACTTCATGCAATGAAAGTTCCATACAT
164251 GCA
66 GCA
* *
164254 TAAGAATCCAAGGCATAACCTAATACATGTGTTCAGGTACTTCGTGTAATGAAAGTTCCATACAT
1 TAAGAATCCAAGGCATAACCTAATACATGTGTTCAGGTACTTCATGCAATGAAAGTTCCATACAT
164319 ACACGCATGC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (68 bp):
TAAGAATCCAAGGCATAACCTAATACATGTGTTCAGGTACTTCATGCAATGAAAGTTCCATACAT
GCA
Found at i:166263 original size:181 final size:181
Alignment explanation
Indices: 165959--166321 Score: 726
Period size: 181 Copynumber: 2.0 Consensus size: 181
165949 GACTTGACCG
165959 GGGCTGAACCGGCATGGACCGAACTGAGACCCACGCAACTGCTTGAACCCGATGTTGCTTCCATT
1 GGGCTGAACCGGCATGGACCGAACTGAGACCCACGCAACTGCTTGAACCCGATGTTGCTTCCATT
166024 TGAGATGGGGGAAGGTGATTATGCTCACCTTCATATGTTGCAACAACAACACACTGGTCATCAAC
66 TGAGATGGGGGAAGGTGATTATGCTCACCTTCATATGTTGCAACAACAACACACTGGTCATCAAC
166089 GCTTCTTTGTACCTGAAGAAACGTCATACAAAATTAACTTCTTAACTATTT
131 GCTTCTTTGTACCTGAAGAAACGTCATACAAAATTAACTTCTTAACTATTT
166140 GGGCTGAACCGGCATGGACCGAACTGAGACCCACGCAACTGCTTGAACCCGATGTTGCTTCCATT
1 GGGCTGAACCGGCATGGACCGAACTGAGACCCACGCAACTGCTTGAACCCGATGTTGCTTCCATT
166205 TGAGATGGGGGAAGGTGATTATGCTCACCTTCATATGTTGCAACAACAACACACTGGTCATCAAC
66 TGAGATGGGGGAAGGTGATTATGCTCACCTTCATATGTTGCAACAACAACACACTGGTCATCAAC
166270 GCTTCTTTGTACCTGAAGAAACGTCATACAAAATTAACTTCTTAACTATTT
131 GCTTCTTTGTACCTGAAGAAACGTCATACAAAATTAACTTCTTAACTATTT
166321 G
1 G
166322 CTACTCGTTC
Statistics
Matches: 182, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
181 182 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (181 bp):
GGGCTGAACCGGCATGGACCGAACTGAGACCCACGCAACTGCTTGAACCCGATGTTGCTTCCATT
TGAGATGGGGGAAGGTGATTATGCTCACCTTCATATGTTGCAACAACAACACACTGGTCATCAAC
GCTTCTTTGTACCTGAAGAAACGTCATACAAAATTAACTTCTTAACTATTT
Found at i:166388 original size:4 final size:4
Alignment explanation
Indices: 166381--166483 Score: 134
Period size: 4 Copynumber: 25.8 Consensus size: 4
166371 TGTGTTATAT
* * * * * *
166381 ATAG ATAG ATAG ATAG GTAG GTAG ATAG GTAG GTAG ATAG GTAG GTAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
* *
166429 ATAG ATAG GTAG ATAG ATAG GTAG ATAG ATAG ATAG ATAG ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
166477 ATAG ATA
1 ATAG ATA
166484 AACCGACCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 89 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (4 bp):
ATAG
Found at i:166405 original size:12 final size:12
Alignment explanation
Indices: 166381--166483 Score: 152
Period size: 12 Copynumber: 8.6 Consensus size: 12
166371 TGTGTTATAT
*
166381 ATAGATAGATAG
1 ATAGATAGGTAG
*
166393 ATAGGTAGGTAG
1 ATAGATAGGTAG
*
166405 ATAGGTAGGTAG
1 ATAGATAGGTAG
*
166417 ATAGGTAGGTAG
1 ATAGATAGGTAG
166429 ATAGATAGGTAG
1 ATAGATAGGTAG
166441 ATAGATAGGTAG
1 ATAGATAGGTAG
*
166453 ATAGATAGATAG
1 ATAGATAGGTAG
*
166465 ATAGATAGATAG
1 ATAGATAGGTAG
166477 ATAGATA
1 ATAGATA
166484 AACCGACCTT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 87 1.00
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
ATAGATAGGTAG
Found at i:167658 original size:32 final size:31
Alignment explanation
Indices: 167622--167698 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
167612 CGGGGCCGTG
*
167622 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
167654 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
167685 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
167699 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:167681 original size:63 final size:63
Alignment explanation
Indices: 167575--167698 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
167565 CCCTAAGGGA
* * ** *
167575 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
167638 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
167699 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:168631 original size:19 final size:19
Alignment explanation
Indices: 168591--168650 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
168581 GGTCGGGTCG
*
168591 GGTCGGGTCGGGTCA-A-C
1 GGTCAGGTCGGGTCAGACC
168608 GGTCAGGTCGGGTCAGACC
1 GGTCAGGTCGGGTCAGACC
** **
168627 GGTCAAATCGATTCAGACC
1 GGTCAGGTCGGGTCAGACC
168646 GGTCA
1 GGTCA
168651 AACCAGTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
17 14 0.39
18 1 0.03
19 21 0.58
ACGTcount: A:0.20, C:0.25, G:0.37, T:0.18
Consensus pattern (19 bp):
GGTCAGGTCGGGTCAGACC
Found at i:168674 original size:10 final size:10
Alignment explanation
Indices: 168624--168708 Score: 61
Period size: 10 Copynumber: 8.7 Consensus size: 10
168614 GTCGGGTCAG
168624 ACCGG-TCAA
1 ACCGGTTCAA
* * *
168633 ATCGATTCAG
1 ACCGGTTCAA
168643 ACCGG-TCAA
1 ACCGGTTCAA
* *
168652 ACCAGTTCGA
1 ACCGGTTCAA
*
168662 ACCGGTTGAA
1 ACCGGTTCAA
168672 ACCGG-TCAGA
1 ACCGGTTCA-A
*
168682 ACCGGTTGAAA
1 ACCGGTT-CAA
168693 ACCGG-TCAA
1 ACCGGTTCAA
168702 ACCGGTT
1 ACCGGTT
168709 TCCAGCAGCC
Statistics
Matches: 56, Mismatches: 14, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
9 19 0.34
10 29 0.52
11 7 0.12
12 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.18
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:168683 original size:20 final size:21
Alignment explanation
Indices: 168660--168708 Score: 84
Period size: 20 Copynumber: 2.4 Consensus size: 21
168650 AAACCAGTTC
168660 GAACCGGTTG-AAACCGGTCA
1 GAACCGGTTGAAAACCGGTCA
168680 GAACCGGTTGAAAACCGGTCA
1 GAACCGGTTGAAAACCGGTCA
168701 -AACCGGTT
1 GAACCGGTT
168709 TCCAGCAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (21 bp):
GAACCGGTTGAAAACCGGTCA
Found at i:174988 original size:31 final size:30
Alignment explanation
Indices: 174953--175027 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
174943 GGGGCCGTGG
*
174953 GGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
174984 GGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGCCTACCTAAGAACAATCTCAGGGCCGCA
175014 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
175028 GTCACATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 14 0.38
31 23 0.62
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (30 bp):
GGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:175020 original size:62 final size:63
Alignment explanation
Indices: 174905--175027 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 63
174895 CCCTAAGGGA
* * ** *
174905 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
*
174968 ACATCTTAGGGCC-GCAG-GCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
175028 GTCACATTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 34 0.65
63 18 0.35
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:175928 original size:22 final size:22
Alignment explanation
Indices: 175903--175945 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
175893 GAAAGTCAAC
175903 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
175925 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
175946 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:175960 original size:9 final size:9
Alignment explanation
Indices: 175942--176040 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
175932 GGTCGGGTCG
*
175942 GGTCAGACC
1 GGTCAAACC
175951 GGTCAAACC
1 GGTCAAACC
* *
175960 GATTCAGACC
1 G-GTCAAACC
175970 GGTCAAACC
1 GGTCAAACC
**
175979 GGTTTGAACC
1 GG-TCAAACC
*
175989 GGTTGAAACC
1 GG-TCAAACC
175999 GGTCAAACC
1 GGTCAAACC
* *
176008 TGTTAGAACC
1 GGTCA-AACC
*
176018 GGTTGAAAACC
1 GG-T-CAAACC
176029 GGTCAAACC
1 GGTCAAACC
176038 GGT
1 GGT
176041 TTCCAGCAGC
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
9 34 0.49
10 28 0.40
11 7 0.10
12 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:175989 original size:19 final size:18
Alignment explanation
Indices: 175948--176041 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 18
175938 GTCGGGTCAG
* *
175948 ACCGGTCAAACCGATTCA
1 ACCGGTCAAACCGGTTGA
175966 GACCGGTCAAACCGGTTTGA
1 -ACCGGTCAAACCGG-TTGA
* **
175986 ACCGGTTGAAACCGGTCAA
1 ACCGG-TCAAACCGGTTGA
* *
176005 ACCTGTTAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTTG--A
176026 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
176042 TCCAGCAGCC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
18 2 0.03
19 31 0.53
20 19 0.32
21 7 0.12
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (18 bp):
ACCGGTCAAACCGGTTGA
Found at i:175999 original size:29 final size:30
Alignment explanation
Indices: 175967--176042 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 30
175957 ACCGATTCAG
175967 ACCGGTCAAACCGGTTTGAACCGGTTG-AA
1 ACCGGTCAAACCGGTTTGAACCGGTTGAAA
* *
175996 ACCGGTCAAACCTGTTAGAACCGGTTGAAA
1 ACCGGTCAAACCGGTTTGAACCGGTTGAAA
176026 ACCGGTCAAACCGGTTT
1 ACCGGTCAAACCGGTTT
176043 CCAGCAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (30 bp):
ACCGGTCAAACCGGTTTGAACCGGTTGAAA
Found at i:184050 original size:136 final size:135
Alignment explanation
Indices: 183806--184076 Score: 470
Period size: 136 Copynumber: 2.0 Consensus size: 135
183796 ACATCCGTAC
* * *
183806 CCATAAATAGAGCTTAAATGTTTTTTCCCCTTTATTTTCTTCCTCCAAAATTTAAATTTTATAGT
1 CCATAAATAGAGCTTAAATGTTTTTCCCCCTTTATTCTCTTCCTCCAAAATTTAAATTTTATAGC
*
183871 TTCTTTCTTGTCATGTTGATGCTGCAATTATAATTCTCTTGTATTTTTTTCTACCACTCAAGATA
66 TTCTTTCTTGTCATGTTGATGCTGCAATTATAATTCTCTTGTA-TTTTTTCAACCACTCAAGATA
*
183936 TTAATG
130 TCAATG
*
183942 CCATAAATAGGGCTTAAATGTTTTTCCCCCTTTATTCTCTTCCTCCAAAATTTAAATTTTATAGC
1 CCATAAATAGAGCTTAAATGTTTTTCCCCCTTTATTCTCTTCCTCCAAAATTTAAATTTTATAGC
*
184007 TTCTTTCTTGTCATGTTGATGCTGCAATTATAATTCTCTTGTATTTTTTCAATCACTCAAGATAT
66 TTCTTTCTTGTCATGTTGATGCTGCAATTATAATTCTCTTGTATTTTTTCAACCACTCAAGATAT
184072 CAATG
131 CAATG
184077 AACTCTGTTC
Statistics
Matches: 128, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
135 24 0.19
136 104 0.81
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (135 bp):
CCATAAATAGAGCTTAAATGTTTTTCCCCCTTTATTCTCTTCCTCCAAAATTTAAATTTTATAGC
TTCTTTCTTGTCATGTTGATGCTGCAATTATAATTCTCTTGTATTTTTTCAACCACTCAAGATAT
CAATG
Found at i:190018 original size:2 final size:2
Alignment explanation
Indices: 190013--190044 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
190003 TATATTATTA
190013 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
190045 CTACTCTCAT
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:201477 original size:130 final size:130
Alignment explanation
Indices: 201265--201525 Score: 391
Period size: 130 Copynumber: 2.0 Consensus size: 130
201255 ATAGTCAAGG
* * *
201265 GACTATTTTATAATTTTTAATAGTCGGAGACTCAACAAAATAATATCCCATAATCAGATGACCAT
1 GACTATTTTATAACTTTTAATAGTCGGAGACTCAACAAAACAATATACCATAATCAGATGACCAT
* * * *
201330 TTGTGTACTTTACCCAAAATTCAATTATGATTATGAAATGACAAAATCATGAGAGGTCACTAGAA
66 TTGCGTACTTTAACCAAAATTCAATTATGATTACGAAATGACAAAATCATGAGAAGTCACTAGAA
* * *
201395 GACTATTTTATAACTTTTAATTGTCGGAGACTCAACAAAACATTATATCATAATCAAGA-GACCA
1 GACTATTTTATAACTTTTAATAGTCGGAGACTCAACAAAACAATATACCATAATC-AGATGACCA
*
201459 TTTGCGTA-TGTTAACCAAATTTCAATTATGATTACGAAATGACAAAATCATGAGAAGTCACTAG
65 TTTGCGTACT-TTAACCAAAATTCAATTATGATTACGAAATGACAAAATCATGAGAAGTCACTAG
201523 AA
129 AA
201525 G
1 G
201526 GTAAGGTTTG
Statistics
Matches: 118, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
129 1 0.01
130 114 0.97
131 3 0.03
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (130 bp):
GACTATTTTATAACTTTTAATAGTCGGAGACTCAACAAAACAATATACCATAATCAGATGACCAT
TTGCGTACTTTAACCAAAATTCAATTATGATTACGAAATGACAAAATCATGAGAAGTCACTAGAA
Found at i:202248 original size:19 final size:19
Alignment explanation
Indices: 202213--202250 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
202203 AACATCAATT
*
202213 AAAATATATTAATTTTATG
1 AAAATATATTAAATTTATG
202232 AAAATAT-TTATAATTTATG
1 AAAATATATTA-AATTTATG
202251 TTACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AAAATATATTAAATTTATG
Found at i:206957 original size:44 final size:44
Alignment explanation
Indices: 206848--207077 Score: 358
Period size: 44 Copynumber: 5.3 Consensus size: 44
206838 AAAAGAGTCT
* *
206848 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAATCT-
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
*
206891 -GGGAAACTGTAAGGCTTGCCCTTGCACACAGCAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
*
206934 GGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
** *
206978 GGGGAAACTGTAAGGCGCACCCTTGCACACAGTAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
**
207022 TTGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
1 GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
207066 GGGG-AACTGTAA
1 GGGGAAACTGTAA
207078 CGGTAATTAA
Statistics
Matches: 169, Mismatches: 16, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
42 39 0.23
43 8 0.05
44 122 0.72
ACGTcount: A:0.30, C:0.24, G:0.29, T:0.17
Consensus pattern (44 bp):
GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGGACCTG
Found at i:208395 original size:64 final size:64
Alignment explanation
Indices: 208294--208437 Score: 270
Period size: 64 Copynumber: 2.2 Consensus size: 64
208284 ACATCATGTA
208294 AGTTCATTAGCATTCCCAGACTCATCCAAATCAATTATTTAATCCTCAGTCCTTGAGATTACTT
1 AGTTCATTAGCATTCCCAGACTCATCCAAATCAATTATTTAATCCTCAGTCCTTGAGATTACTT
*
208358 AGTTCATTAGCATTCCCAGACTCGTCCAAATCAATTATTTAATCCTCAGTCCTTGAGATTACTT
1 AGTTCATTAGCATTCCCAGACTCATCCAAATCAATTATTTAATCCTCAGTCCTTGAGATTACTT
208422 AGTTCATTTAGCATTC
1 AGTTCA-TTAGCATTC
208438 AAGCCCATTC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
64 69 0.88
65 9 0.12
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (64 bp):
AGTTCATTAGCATTCCCAGACTCATCCAAATCAATTATTTAATCCTCAGTCCTTGAGATTACTT
Found at i:218568 original size:29 final size:29
Alignment explanation
Indices: 218536--218592 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
218526 GTTGAAGATG
* *
218536 TTAGGAAAAAAAAACCAATAAGTAATGAA
1 TTAGGAAAAAAAAACAAATAAATAATGAA
* *
218565 TTAGGAAGAAAAAATAAATAAATAATGA
1 TTAGGAAAAAAAAACAAATAAATAATGA
218593 TATGAATCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.19
Consensus pattern (29 bp):
TTAGGAAAAAAAAACAAATAAATAATGAA
Done.