Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009395.1 Hibiscus syriacus cultivar Beakdansim tig00113298_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: 477283
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:4917 original size:45 final size:45
Alignment explanation
Indices: 4765--4924 Score: 234
Period size: 45 Copynumber: 3.6 Consensus size: 45
4755 GGAATATGGT
* * *
4765 TTATGGAA-TAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
4809 TTATGGAACAAATGGTAACTATATTGGTAAAATAAGCTAACGAGC
1 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
4854 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
4899 TTAT-GAGATAAATGGTAAGTAGATTG
1 TTATGGA-ACAAATGGTAAGTATATTG
4925 ATAAGAAATT
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
44 10 0.10
45 95 0.90
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:10806 original size:17 final size:17
Alignment explanation
Indices: 10764--10807 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10754 AACATTCCCC
*
10764 TATTTTTATCATTTTGG
1 TATTTTTATTATTTTGG
*
10781 T-TATATTATTATTTTGG
1 TAT-TTTTATTATTTTGG
10798 TATTTTTATT
1 TATTTTTATT
10808 TACAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.20, C:0.02, G:0.09, T:0.68
Consensus pattern (17 bp):
TATTTTTATTATTTTGG
Found at i:14856 original size:22 final size:22
Alignment explanation
Indices: 14831--14876 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14821 TGGGTATGAT
14831 CACCAGTAGAAACTAGTAAGAC
1 CACCAGTAGAAACTAGTAAGAC
*
14853 CACCAGTAGAAACTTGTAAGAC
1 CACCAGTAGAAACTAGTAAGAC
14875 CA
1 CA
14877 TAGAAACTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (22 bp):
CACCAGTAGAAACTAGTAAGAC
Found at i:22755 original size:45 final size:44
Alignment explanation
Indices: 22700--23129 Score: 529
Period size: 45 Copynumber: 9.6 Consensus size: 44
22690 ACATCCTACA
* * *
22700 TTTT-TGTTGATAATACACCCATATGTATTTCGACTATATAATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAT-ATAC
* * *
22744 TTTTATGTTGATTATGCACCCATATGCATTTCAACTGTAGCATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
* *
22789 TTTTATGTTGATGATGCACCCATATGCATTTCAACTGTAGTATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
** *
22834 TTTTATGTTGATAATGCACCCATATGCATTTTGACTATAGAATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
* *
22879 TTTTATGTTGATAATGCACCCATATGCGTTTCAACTATAGCATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
* *
22924 TTTGATATTGATAATGCACCCATATGCATTTCAACTATAGTATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
* * *
22969 TTTTATGTTGATAATTCACCCATATGCATTTCGACTATAAAATAC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTAT-ATATAC
* * * * *
23014 TTTTATGATGATAATACATCAATATGCATTTCAACTATAGTATAT
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATA-TATAC
* *
23059 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATGTCATCC
1 TTTTATGTTGATAATGCACCCATATGCATTTCAACTATAT-ATAC
* *
23104 TTTCATGTTGATAATGCACCTATATG
1 TTTTATGTTGATAATGCACCCATATG
23130 TATTGTTATT
Statistics
Matches: 339, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
44 6 0.02
45 332 0.98
46 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (44 bp):
TTTTATGTTGATAATGCACCCATATGCATTTCAACTATATATAC
Found at i:22870 original size:135 final size:135
Alignment explanation
Indices: 22700--23129 Score: 639
Period size: 135 Copynumber: 3.2 Consensus size: 135
22690 ACATCCTACA
* * * *
22700 TTTT-TGTTGATAATACACCCATATGTATTTCGACTATATAATACTTTTATGTTGATTATGCACC
1 TTTTATGTTGATAATGCACCCATATGCATTTCGACTATAAAATACTTTTATGTTGATAATGCACC
* * *
22764 CATATGCATTTCAACTGTAGCATACTTTTATGTTGATGATGCACCCATATGCATTTCAACTGTAG
66 CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
22829 TATAC
131 TATAC
* *
22834 TTTTATGTTGATAATGCACCCATATGCATTTTGACTATAGAATACTTTTATGTTGATAATGCACC
1 TTTTATGTTGATAATGCACCCATATGCATTTCGACTATAAAATACTTTTATGTTGATAATGCACC
* * *
22899 CATATGCGTTTCAACTATAGCATACTTTGATATTGATAATGCACCCATATGCATTTCAACTATAG
66 CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
22964 TATAC
131 TATAC
* * * *
22969 TTTTATGTTGATAATTCACCCATATGCATTTCGACTATAAAATACTTTTATGATGATAATACATC
1 TTTTATGTTGATAATGCACCCATATGCATTTCGACTATAAAATACTTTTATGTTGATAATGCACC
* * *
23034 AATATGCATTTCAACTATAGTATATTTTTATGTTGATAATGCACCCATATGCATTTCAACTAT-G
66 CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
*
23098 TCATCC
131 T-ATAC
* *
23104 TTTCATGTTGATAATGCACCTATATG
1 TTTTATGTTGATAATGCACCCATATG
23130 TATTGTTATT
Statistics
Matches: 267, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
134 6 0.02
135 261 0.98
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (135 bp):
TTTTATGTTGATAATGCACCCATATGCATTTCGACTATAAAATACTTTTATGTTGATAATGCACC
CATATGCATTTCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGCATTTCAACTATAG
TATAC
Found at i:25121 original size:20 final size:22
Alignment explanation
Indices: 25077--25123 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
25067 ACTATATTGG
*
25077 AGTATCGGTACGAGAGTATAGA
1 AGTATCGGTACGAGAGTAGAGA
*
25099 AGTATCGGTACTAG-G-AGAGA
1 AGTATCGGTACGAGAGTAGAGA
25119 AGTAT
1 AGTAT
25124 GGATACCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 1 0.04
22 13 0.57
ACGTcount: A:0.36, C:0.09, G:0.32, T:0.23
Consensus pattern (22 bp):
AGTATCGGTACGAGAGTAGAGA
Found at i:26636 original size:54 final size:54
Alignment explanation
Indices: 25545--26614 Score: 1538
Period size: 54 Copynumber: 19.9 Consensus size: 54
25535 TTACCGATTG
* *
25545 GGCACTATGTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
25599 GGTACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATCTCCATATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * **
25653 GGCACTGTGTCTGCAACTTAAGAAATTCATAATATGTTTATGAATTTTTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
** * * **
25707 TCCATTGTGTGTGCAACTTAAGAAGTTCATAATAAGTTTATGAATTTTTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
25761 GGCACAGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
25815 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
25869 GGCAC--TGTGTGCAACTTAAGAAATTCATAATAAG-TTATGAATTTTCGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * * *
25920 GGCATTGTGTGTGCAATTTAATAAATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
25974 GGCACTGTGTGTGCAACTTAAGGAATTCATAATAAGTTTATGAATTTTCATATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
26028 GCCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGATTTTTCGTTTT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
26082 GCCACTGTGTGTGCAACCTAATAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
26136 GGCATTGTGTGTGCAACCTAAGAAGTTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
26190 GGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGGATTTCCGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
26244 GGCACTGTGTTTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
26298 GGCACTGTATGTG-ACACTTAAGAAATTAATAATAAGTTTATGAATTTCCGTATT
1 GGCACTGTGTGTGCA-ACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
26352 GGCACTGTGTGTGCAACTTAAGAAATGCATAATAAGTTTATGAATTTTCATATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* **
26406 GGCACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTTTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * * *
26460 GGTACTGTGTGTGCAACCTAAGAAATTTATAAAAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
26514 GGCACTGTGTGTGCAACCTT-AGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTGTGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
26568 GGCACTGTTTGTGCAACCTAAGAAATCCATAATAACTTTATGAATTT
1 GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT
26615 TTGTATTGTC
Statistics
Matches: 916, Mismatches: 93, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
51 19 0.02
52 29 0.03
53 30 0.03
54 835 0.91
55 3 0.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (54 bp):
GGCACTGTGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:32761 original size:55 final size:56
Alignment explanation
Indices: 32702--32935 Score: 282
Period size: 55 Copynumber: 4.3 Consensus size: 56
32692 AAATTCACCT
* * * * * *
32702 ACTTATTATGAACTTCCTA-TATTTGCACATATATTTCCCATATGGAAATTCATAC
1 ACTTAGTATGAATTTCCTAGTATTTGCACACAAATTGCCCATACGGAAATTCATAC
* * * *
32757 ACTTAGTATGAATTT-CT--TAGTCGCACACATATTGCCCATACGAAAATTCATAC
1 ACTTAGTATGAATTTCCTAGTATTTGCACACAAATTGCCCATACGGAAATTCATAC
* * *
32810 ACTTAGTATGAATTTCTTAGT-TTTGCACACAAAGTGTCCATACGGAAATTCATAC
1 ACTTAGTATGAATTTCCTAGTATTTGCACACAAATTGCCCATACGGAAATTCATAC
* * *
32865 ACTTAGTATGAATTTCTTAGTA-TTGCACACAAAGTGCCCATACGAAAATTCATAC
1 ACTTAGTATGAATTTCCTAGTATTTGCACACAAATTGCCCATACGGAAATTCATAC
32920 ACTTAGTATGAATTTC
1 ACTTAGTATGAATTTC
32936 TTAACTTTTT
Statistics
Matches: 158, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
53 45 0.28
54 3 0.02
55 109 0.69
56 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.35
Consensus pattern (56 bp):
ACTTAGTATGAATTTCCTAGTATTTGCACACAAATTGCCCATACGGAAATTCATAC
Found at i:32881 original size:108 final size:109
Alignment explanation
Indices: 32739--32938 Score: 348
Period size: 110 Copynumber: 1.8 Consensus size: 109
32729 CATATATTTC
* * *
32739 CCATATGGAAATTCATACACTTAGTATGAATTTCTTAG-TCGCACACATATTGCCCATACGAAAA
1 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGATCGCACACAAAGTGCCCATACGAAAA
32803 TTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGT
66 TTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGT
*
32847 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTGCACACAAAGTGCCCATACGAAA
1 CCATACGGAAATTCATACACTTAGTATGAATTTCTTAG-ATCGCACACAAAGTGCCCATACGAAA
32912 ATTCATACACTTAGTATGAATTTCTTA
65 ATTCATACACTTAGTATGAATTTCTTA
32939 ACTTTTTGCA
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
108 37 0.43
110 49 0.57
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (109 bp):
CCATACGGAAATTCATACACTTAGTATGAATTTCTTAGATCGCACACAAAGTGCCCATACGAAAA
TTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGT
Found at i:32936 original size:55 final size:54
Alignment explanation
Indices: 32738--32938 Score: 314
Period size: 55 Copynumber: 3.7 Consensus size: 54
32728 ACATATATTT
* * * * *
32738 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAG-TCGCACACATATTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACAAAGTG
32791 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTTGCACACAAAGTG
* *
32846 TCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTATTGCACACAAAGTG
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGT-TTGCACACAAAGTG
32901 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTA
32939 ACTTTTTGCA
Statistics
Matches: 136, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 37 0.27
54 1 0.01
55 98 0.72
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (54 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTTGCACACAAAGTG
Found at i:44373 original size:19 final size:19
Alignment explanation
Indices: 44349--44388 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44339 AGCACTGTAG
44349 ACTTTCCAATATCATCATA
1 ACTTTCCAATATCATCATA
44368 ACTTTCCAATATCATCATA
1 ACTTTCCAATATCATCATA
44387 AC
1 AC
44389 ATCATTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (19 bp):
ACTTTCCAATATCATCATA
Found at i:45584 original size:55 final size:55
Alignment explanation
Indices: 45550--45803 Score: 404
Period size: 55 Copynumber: 4.7 Consensus size: 55
45540 ATATATTTCT
* * * *
45550 CATACGGAAATTCATACACTTAGTATAAATTTCTTAG--TCGCACGCATAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
*
45603 CATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
* *
45658 CATACGAAAATTCATACACTTAGTATGGATTTCTTAGTTTTGCACACAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
** *
45713 CATAAAGAAATTCATATACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
45768 CATACGGAAATTCATACACTTAGTATGAATTTCTTA
1 CATACGGAAATTCATACACTTAGTATGAATTTCTTA
45804 ACTTCTTGCA
Statistics
Matches: 183, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
53 35 0.19
55 148 0.81
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (55 bp):
CATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTGCACACAAAGTGCC
Found at i:61445 original size:22 final size:22
Alignment explanation
Indices: 61410--61466 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
61400 AGGGATAAGA
*
61410 CCTTTCGATG-AAAG-GACTTAT
1 CCTTTTGATGAAAAGTG-CTTAT
*
61431 CGTTTTGATGAAAAGTGCTTAT
1 CCTTTTGATGAAAAGTGCTTAT
*
61453 CCTTTTCATGAAAA
1 CCTTTTGATGAAAA
61467 AAATTATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 8 0.27
22 21 0.70
23 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (22 bp):
CCTTTTGATGAAAAGTGCTTAT
Found at i:63363 original size:20 final size:20
Alignment explanation
Indices: 63315--63370 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
63305 CATTTATCAA
*
63315 AATTTT-TATTAT-TTTAGT
1 AATTTTATATTTTATTTAGT
*
63333 AA-TTAATTATTTTATTTAGT
1 AATTTTA-TATTTTATTTAGT
63353 AATTTTATATTATTATTT
1 AATTTTATATT-TTATTT
63371 TATTCAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 5 0.17
20 12 0.40
21 9 0.30
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
AATTTTATATTTTATTTAGT
Found at i:63602 original size:14 final size:14
Alignment explanation
Indices: 63566--63593 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
63556 ATTACATTAT
63566 TAGAATTTATTTAA
1 TAGAATTTATTTAA
63580 TAGAATTTATTTAA
1 TAGAATTTATTTAA
63594 ATAGTTTTAA
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:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TAGAATTTATTTAA
Found at i:63618 original size:23 final size:24
Alignment explanation
Indices: 63575--63619 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
63565 TTAGAATTTA
*
63575 TTTAATAGAATTTATTTAAATAGT
1 TTTAATAGAATTTATTAAAATAGT
63599 TTTAA-AGAA-TTAGTTAAAATA
1 TTTAATAGAATTTA-TTAAAATA
63620 ATAATGGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 11 0.58
24 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (24 bp):
TTTAATAGAATTTATTAAAATAGT
Found at i:65581 original size:6 final size:6
Alignment explanation
Indices: 65570--65595 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
65560 TGATGAGGAA
65570 GATGAG GATGAG GATGAG GATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GA
65596 CGATGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GATGAG
Found at i:65581 original size:15 final size:15
Alignment explanation
Indices: 65561--65613 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
65551 TGTTGAGAGT
65561 GATGAGGAAGATGAG
1 GATGAGGAAGATGAG
65576 GATGA-G--GATGAG
1 GATGAGGAAGATGAG
* *
65588 GATGAGGACGATGAT
1 GATGAGGAAGATGAG
*
65603 GAAGAGGAAGA
1 GATGAGGAAGA
65614 GTAAGATGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 11 0.34
13 1 0.03
14 1 0.03
15 19 0.59
ACGTcount: A:0.40, C:0.02, G:0.45, T:0.13
Consensus pattern (15 bp):
GATGAGGAAGATGAG
Found at i:65603 original size:18 final size:18
Alignment explanation
Indices: 65570--65604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65560 TGATGAGGAA
*
65570 GATGAGGATGAGGATGAG
1 GATGAGGACGAGGATGAG
*
65588 GATGAGGACGATGATGA
1 GATGAGGACGAGGATGA
65605 AGAGGAAGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.46, T:0.17
Consensus pattern (18 bp):
GATGAGGACGAGGATGAG
Found at i:65775 original size:22 final size:21
Alignment explanation
Indices: 65750--65803 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 21
65740 GCAATATTTT
65750 TATTTATTGTTTGTTTATTATG
1 TATTTATTGTTT-TTTATTATG
*
65772 TATTTGCCTCTTGTTTTTTATTATG
1 TA-TT---TATTGTTTTTTATTATG
65797 TATTTAT
1 TATTTAT
65804 CTACAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 2 0.08
24 2 0.08
25 11 0.42
26 7 0.27
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (21 bp):
TATTTATTGTTTTTTATTATG
Found at i:67564 original size:83 final size:83
Alignment explanation
Indices: 66875--67556 Score: 612
Period size: 83 Copynumber: 8.2 Consensus size: 83
66865 TGCCATAGTA
* ** * * *
66875 TTTTCTATTATTATTTGGAGAATCTCTGCCATGTCATAGTGTTCTATCCCATTCGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
*** * *
66940 CTTATTCTAGGGGAAGCA
66 CGCGTTCCAGGGGAAGCG
** * * * * *
66958 TTTTCCATTATTATTCAGAGAATCTCTGTCATGTCTTATTGTTCCTTCCCATCCGAAATGAATGA
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * *
67023 CACGTTACAGGGGAATCA
66 CGCGTTCCAGGGGAAGCG
* * * * * * *
67041 TTCTCCATCATTATTCAGACAATCTCTATCATATCATAGTGTTCCATTCCATCCAAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* *
67106 CGTGTTCAAGGGGAAGCG
66 CGCGTTCCAGGGGAAGCG
* * * *** * * * * * *
67124 TTTTTCATTATTATTTAGAGAATCTATGTAATTTTACATAATTTTCCTTCCCATTCGAAATAAAA
1 TTTTCCATTATTATTCAGAGAATCTCTACCA-TGT-CATAGTGTTCCATCCCATCCGAAATGAAA
* * *
67189 GGCGCATTTCAGGGGAAGTG
64 GGCGCGTTCCAGGGGAAGCG
* * * * *
67209 TTTTCCATTATTTTTTAGAGAATCTCTACCATGTCATAGTGTTCCTTCCCATCCAAAAGGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
** * *
67274 CATGTTCCAGGGAAAGTG
66 CGCGTTCCAGGGGAAGCG
* * * *
67292 TTTTCCATTATTATTCATA-TATCTCTACCAAGTCATTA-TGTTCCATCTCATCCGAAATGAAAG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCA-TAGTGTTCCATCCCATCCGAAATGAAAG
* * * *
67355 TCACGTTCAAGGTGAAGCG
65 GCGCGTTCCAGGGGAAGCG
* * * * *
67374 TTTTCCATTATTATTTATAGAATCTCTGCCATGTCATAGTGTTCTATCCCATCCAAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
* * * ** *
67439 TGTGTTCAAAAGGAAGCA
66 CGCGTTCCAGGGGAAGCG
* * *
67457 TTTTCCATTATTATTCAAAGAATCTCTACCATGTCATAGTGTTCCATCCTATCTGAAATGAAAGG
1 TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
*
67522 TGCGTTCCAGGGGAAGCG
66 CGCGTTCCAGGGGAAGCG
*
67540 TTTTCCATTGTTATTCA
1 TTTTCCATTATTATTCA
67557 AATAATCTAT
Statistics
Matches: 477, Mismatches: 117, Indels: 10
0.79 0.19 0.02
Matches are distributed among these distances:
82 68 0.14
83 343 0.72
84 4 0.01
85 62 0.13
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (83 bp):
TTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGG
CGCGTTCCAGGGGAAGCG
Found at i:69819 original size:21 final size:22
Alignment explanation
Indices: 69793--69848 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
69783 CAACACAAGG
*
69793 GGTATCGATACCT-TTAGGATA-
1 GGTATCGATACCTCTT-GCATAC
*
69814 GGTATCGGTACCTCTTGCATAC
1 GGTATCGATACCTCTTGCATAC
69836 GGGTATCGATACC
1 -GGTATCGATACC
69849 CTATGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 16 0.55
22 2 0.07
23 11 0.38
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (22 bp):
GGTATCGATACCTCTTGCATAC
Found at i:80980 original size:14 final size:14
Alignment explanation
Indices: 80852--81022 Score: 67
Period size: 14 Copynumber: 12.4 Consensus size: 14
80842 AAAGATTTTT
80852 TATATT-TTA-AAA
1 TATATTATTATAAA
*
80864 TATATTTTTA-AAA
1 TATATTATTATAAA
** *
80877 TATTAAAAATATAAA
1 TA-TATTATTATAAA
80892 -A-ATTATTATACAA
1 TATATTATTATA-AA
*
80905 TATATTATT-TTAA
1 TATATTATTATAAA
**
80918 TCAT-TTAAAATATAA
1 T-ATATTATTATA-AA
* * *
80933 TAAATGATTATAAT
1 TATATTATTATAAA
*
80947 TACATTATTATAAA
1 TATATTATTATAAA
80961 TATATTATT-TAAA
1 TATATTATTATAAA
*
80974 TAGTATTA-AAT-AA
1 TA-TATTATTATAAA
*
80987 TATATT-TAGACTACAA
1 TATATTAT-TA-TA-AA
*
81003 AATATTATTATAAA
1 TATATTATTATAAA
81017 TATATT
1 TATATT
81023 TAAATATAAT
Statistics
Matches: 116, Mismatches: 25, Indels: 34
0.66 0.14 0.19
Matches are distributed among these distances:
12 16 0.14
13 27 0.23
14 45 0.39
15 19 0.16
16 8 0.07
17 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (14 bp):
TATATTATTATAAA
Found at i:91941 original size:20 final size:20
Alignment explanation
Indices: 91916--91986 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
91906 AAACATGCAT
91916 AGGGGTATCGGTGCCCTATG
1 AGGGGTATCGGTGCCCTATG
*
91936 AGGGGTATCGGTGGCCTATG
1 AGGGGTATCGGTGCCCTATG
*
91956 AGGGGTATCGGTGCCCTGTG
1 AGGGGTATCGGTGCCCTATG
91976 AGGGGTATCGG
1 AGGGGTATCGG
91987 AACCCATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.14, C:0.17, G:0.45, T:0.24
Consensus pattern (20 bp):
AGGGGTATCGGTGCCCTATG
Found at i:92330 original size:19 final size:19
Alignment explanation
Indices: 92268--92369 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
92258 GTTTTCAACA
*
92268 GAAACCATATTCCAGGTTG
1 GAAACCAAATTCCAGGTTG
* * *
92287 GAAACAAAATTTCAGGTTA
1 GAAACCAAATTCCAGGTTG
*
92306 GAAACCAGATTCCAGGTTG
1 GAAACCAAATTCCAGGTTG
* * *
92325 GAAACCATATTCTAGATTG
1 GAAACCAAATTCCAGGTTG
* * * *
92344 GAGAGCAAATTTCAGGCTG
1 GAAACCAAATTCCAGGTTG
*
92363 GTAACCA
1 GAAACCA
92370 GATTTTAGAT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (19 bp):
GAAACCAAATTCCAGGTTG
Found at i:93544 original size:36 final size:36
Alignment explanation
Indices: 93497--93567 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
93487 TATGTATAAT
*
93497 ATACAAGTGCTTGCTACTGATGATTACATGCATGAC
1 ATACAAGTGCTTGCTACTAATGATTACATGCATGAC
* * *
93533 ATACATGTGCTTGTTACTAATGATTATATGCATGA
1 ATACAAGTGCTTGCTACTAATGATTACATGCATGA
93568 TATTCATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.35
Consensus pattern (36 bp):
ATACAAGTGCTTGCTACTAATGATTACATGCATGAC
Found at i:108769 original size:55 final size:55
Alignment explanation
Indices: 108685--108796 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
108675 GAAAGTGCTC
108685 CAGTCTAGATTTTATTGGCCAACCTTGTTCAAGGATGCACATGAATTCTATAAGT
1 CAGTCTAGATTTTATTGGCCAACCTTGTTCAAGGATGCACATGAATTCTATAAGT
108740 CAGTCTAGATTTTATTGGCCAACCTTGTTCAAGGATGCACATGAATTCTATAAGT
1 CAGTCTAGATTTTATTGGCCAACCTTGTTCAAGGATGCACATGAATTCTATAAGT
108795 CA
1 CA
108797 TGTGATAGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (55 bp):
CAGTCTAGATTTTATTGGCCAACCTTGTTCAAGGATGCACATGAATTCTATAAGT
Found at i:118277 original size:22 final size:23
Alignment explanation
Indices: 118234--118279 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
118224 AGTACACTGT
**
118234 TCACTGTTCACGGGTATTGTTCA
1 TCACTGTTCACGGGTACCGTTCA
118257 TCACTGTTCAC-GGTACCGTTCA
1 TCACTGTTCACGGGTACCGTTCA
118279 T
1 T
118280 ACGTATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (23 bp):
TCACTGTTCACGGGTACCGTTCA
Found at i:127090 original size:20 final size:20
Alignment explanation
Indices: 127065--127114 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
127055 TGAAAAGATT
* *
127065 TAATAAAATAAAATAGATAA
1 TAATAAAATAAAAGAGAAAA
*
127085 TAAT-AAATAAAAGGGAAAA
1 TAATAAAATAAAAGAGAAAA
127104 TAATAAAATAA
1 TAATAAAATAA
127115 TTAATAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (20 bp):
TAATAAAATAAAAGAGAAAA
Found at i:127205 original size:18 final size:18
Alignment explanation
Indices: 127162--127204 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
127152 GTTATTTTTA
127162 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
127180 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
127197 AAATAAAA
1 AAATAAAA
127205 AAATCAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:127942 original size:75 final size:74
Alignment explanation
Indices: 127824--127968 Score: 211
Period size: 75 Copynumber: 1.9 Consensus size: 74
127814 AGATAATTCC
* *
127824 TAAAATAATATCTTAAATCCTAGTTAAAACAATTAAAAATATTTAAACTAAAATACCTAAAACAA
1 TAAAATAATATCTTAAATCCTAATTAAAACAACTAAAAATATTTAAACTAAAATACCTAAAA-AA
127889 AAATAATATT
65 AAATAATATT
* * *
127899 TAAAATAATATCTTAAATCCTAATTAAAA-TACTAAAACCTATTTAAACTAAAATGCCTAAAAAA
1 TAAAATAATATCTTAAATCCTAATTAAAACAACTAAAA-ATATTTAAACTAAAATACCTAAAAAA
*
127963 AGATAA
65 AAATAA
127969 AATATAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 13 0.21
75 50 0.79
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.30
Consensus pattern (74 bp):
TAAAATAATATCTTAAATCCTAATTAAAACAACTAAAAATATTTAAACTAAAATACCTAAAAAAA
AATAATATT
Found at i:132301 original size:17 final size:18
Alignment explanation
Indices: 132265--132306 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
132255 GTTATTTTTA
132265 AAATAAAAGATAAGAATT
1 AAATAAAAGATAAGAATT
*
132283 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
132300 AAATAAA
1 AAATAAA
132307 TATTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:137421 original size:17 final size:18
Alignment explanation
Indices: 137383--137424 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
137373 GTTATTTTTA
*
137383 AAATAAAAGATAAGATTT
1 AAATAAAAGATAAGAATT
*
137401 AAATAAAAGA-AATAATT
1 AAATAAAAGATAAGAATT
137418 AAATAAA
1 AAATAAA
137425 TATTTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (18 bp):
AAATAAAAGATAAGAATT
Found at i:138127 original size:75 final size:75
Alignment explanation
Indices: 138046--138191 Score: 222
Period size: 75 Copynumber: 1.9 Consensus size: 75
138036 AGATAATTCC
* *
138046 TAAAATAATATCTTAAATCCTAATTAAAACACTTAAAAA-TATTTAAACTAAAATTCCTAAAACA
1 TAAAATAATATCCTAAATCCTAATTAAAACAC-TAAAAATTATTTAAACTAAAATGCCTAAAACA
138110 AAAATAATATT
65 AAAATAATATT
** *
138121 TAAAATAATATCCTAAATTTTAATTAAAATACTAAAAATTATTTAAACTAAAATGCCTAAAACAA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTAAAAATTATTTAAACTAAAATGCCTAAAACAA
*
138186 AGATAA
66 AAATAA
138192 AATATAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 6 0.09
75 58 0.91
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.32
Consensus pattern (75 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTAAAAATTATTTAAACTAAAATGCCTAAAACAA
AAATAATATT
Found at i:142608 original size:17 final size:18
Alignment explanation
Indices: 142570--142613 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
142560 AAAGTTATTT
142570 TTAAATAAAAGATAAGAA
1 TTAAATAAAAGATAAGAA
*
142588 TTAAATAAAAGA-AATAA
1 TTAAATAAAAGATAAGAA
142605 TTAAATAAA
1 TTAAATAAA
142614 TAATTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (18 bp):
TTAAATAAAAGATAAGAA
Found at i:145457 original size:19 final size:19
Alignment explanation
Indices: 145435--145595 Score: 135
Period size: 19 Copynumber: 8.4 Consensus size: 19
145425 GTTGGGAACT
*
145435 AGATTTTAGGTTGGAAATA
1 AGATTTTAGGTTGGAAATC
*
145454 AGATTTTAGGTTGGAAATT
1 AGATTTTAGGTTGGAAATC
* *
145473 AGATTTCAGGTTAGAAATC
1 AGATTTTAGGTTGGAAATC
* * * *
145492 AGATTTCAAGTTGGGAACC
1 AGATTTTAGGTTGGAAATC
* * *
145511 AGAATCTAGGTTGGAAATT
1 AGATTTTAGGTTGGAAATC
** * *
145530 TTATTTTAGGTTTGAAACC
1 AGATTTTAGGTTGGAAATC
*
145549 AGATTTCAGGTTGGAAA-C
1 AGATTTTAGGTTGGAAATC
* *
145567 TAGATTTTAGGTTAGAAACC
1 -AGATTTTAGGTTGGAAATC
145587 AGATCTTTA
1 AGAT-TTTA
145596 AGTGTGAGTT
Statistics
Matches: 111, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
18 1 0.01
19 105 0.95
20 5 0.05
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (19 bp):
AGATTTTAGGTTGGAAATC
Found at i:145476 original size:38 final size:37
Alignment explanation
Indices: 145425--145590 Score: 154
Period size: 38 Copynumber: 4.4 Consensus size: 37
145415 ATAATTATGT
* * *
145425 GTTGGGAACTAGATTTTAGGTTGGAAATAAGATTTTAG
1 GTTGGAAACCAGATTTCAGGTTGGAAAT-AGATTTTAG
** * * *
145463 GTTGGAAATTAGATTTCAGGTTAGAAATCAGATTTCAA
1 GTTGGAAACCAGATTTCAGGTTGGAAAT-AGATTTTAG
* * **
145501 GTTGGGAACCAGA-ATCTAGGTTGGAAATTTTATTTTAG
1 GTTGGAAACCAGATTTC-AGGTTGGAAA-TAGATTTTAG
*
145539 GTTTGAAACCAGATTTCAGGTTGGAAACTAGATTTTAG
1 GTTGGAAACCAGATTTCAGGTTGGAAA-TAGATTTTAG
*
145577 GTTAGAAACCAGAT
1 GTTGGAAACCAGAT
145591 CTTTAAGTGT
Statistics
Matches: 102, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
37 2 0.02
38 97 0.95
39 3 0.03
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (37 bp):
GTTGGAAACCAGATTTCAGGTTGGAAATAGATTTTAG
Found at i:145553 original size:76 final size:76
Alignment explanation
Indices: 145425--145573 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 76
145415 ATAATTATGT
* * * **
145425 GTTGGGAACTAGATTTTAGGTTGGAAATAAGATTTTAGGTTGGAAATTAGATTTCAGGTTAGAAA
1 GTTGGGAACCAGAATCTAGGTTGGAAATAAGATTTTAGGTTGGAAACCAGATTTCAGGTTAGAAA
145490 -TCAGATTTCAA
66 CT-AGATTTCAA
*** * *
145501 GTTGGGAACCAGAATCTAGGTTGGAAATTTTATTTTAGGTTTGAAACCAGATTTCAGGTTGGAAA
1 GTTGGGAACCAGAATCTAGGTTGGAAATAAGATTTTAGGTTGGAAACCAGATTTCAGGTTAGAAA
145566 CTAGATTT
66 CTAGATTT
145574 TAGGTTAGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
76 61 0.98
77 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (76 bp):
GTTGGGAACCAGAATCTAGGTTGGAAATAAGATTTTAGGTTGGAAACCAGATTTCAGGTTAGAAA
CTAGATTTCAA
Found at i:145578 original size:57 final size:57
Alignment explanation
Indices: 145435--145584 Score: 176
Period size: 57 Copynumber: 2.6 Consensus size: 57
145425 GTTGGGAACT
* *
145435 AGATTTTAGGTTGGAAA-TAAGATTTTAGGTTGGAAATTAGATTTCAGGTTAGAAATC
1 AGATTTCAGGTTGGAAACT-AGATTTTAGGTTGGAAATTAGATTTCAGGTTAGAAACC
* * * * * ** * *
145492 AGATTTCAAGTTGGGAACCAGAATCTAGGTTGGAAATTTTATTTTAGGTTTGAAACC
1 AGATTTCAGGTTGGAAACTAGATTTTAGGTTGGAAATTAGATTTCAGGTTAGAAACC
*
145549 AGATTTCAGGTTGGAAACTAGATTTTAGGTTAGAAA
1 AGATTTCAGGTTGGAAACTAGATTTTAGGTTGGAAA
145585 CCAGATCTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (57 bp):
AGATTTCAGGTTGGAAACTAGATTTTAGGTTGGAAATTAGATTTCAGGTTAGAAACC
Found at i:146073 original size:24 final size:24
Alignment explanation
Indices: 146046--146124 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
146036 GTAAATGTTT
146046 TATGTACTTTTTAAAGGATTAAAA
1 TATGTACTTTTTAAAGGATTAAAA
* * * * * ****
146070 TATGTACTATGTATAGTAAATGTTT
1 TATGTACTTTTTAAAG-GATTAAAA
146095 TATGTACTTTTTAAAGGATTAAAA
1 TATGTACTTTTTAAAGGATTAAAA
146119 TATGTA
1 TATGTA
146125 TTACTTGTTG
Statistics
Matches: 36, Mismatches: 18, Indels: 2
0.64 0.32 0.04
Matches are distributed among these distances:
24 21 0.58
25 15 0.42
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.44
Consensus pattern (24 bp):
TATGTACTTTTTAAAGGATTAAAA
Found at i:146666 original size:36 final size:36
Alignment explanation
Indices: 146626--146748 Score: 167
Period size: 36 Copynumber: 3.4 Consensus size: 36
146616 CTTATTGTTG
146626 ATGATTATATGCATGATATACATGTGCTTGCTAATA
1 ATGATTATATGCATGATATACATGTGCTTGCTAATA
* *
146662 ATGATTATATGCATGGTATACATGCGCTTGCTAATA
1 ATGATTATATGCATGATATACATGTGCTTGCTAATA
* * * *
146698 ATGTTTGTATGCGTGATATACACGCT-CTTGCTAATA
1 ATGATTATATGCATGATATACATG-TGCTTGCTAATA
*
146734 ATGATCATATGCATG
1 ATGATTATATGCATG
146749 TGTTAGGCTC
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 74 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (36 bp):
ATGATTATATGCATGATATACATGTGCTTGCTAATA
Found at i:147029 original size:31 final size:31
Alignment explanation
Indices: 146986--147044 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
146976 CAACTCTATC
*
146986 TTTTCTATGGCTAAGA-TAGAACCACTCCAGT
1 TTTTCTAAGGCTAA-ACTAGAACCACTCCAGT
*
147017 TTTTCTAAGGCTAAACTATAACCACTCC
1 TTTTCTAAGGCTAAACTAGAACCACTCC
147045 CCTTTTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (31 bp):
TTTTCTAAGGCTAAACTAGAACCACTCCAGT
Found at i:147932 original size:471 final size:471
Alignment explanation
Indices: 147046--147992 Score: 1867
Period size: 471 Copynumber: 2.0 Consensus size: 471
147036 AACCACTCCC
147046 CTTTTACAATGTTTGATTTCTGTAAATAAAAATACCTCTCAAGGTGGGTGTTTAAAAAGATTAAG
1 CTTTTACAATGTTTGATTTCTGTAAATAAAAATACCTCTCAAGGTGGGTGTTTAAAAAGATTAAG
147111 CTCACAAGAATAAAATAAAGGATATGCAATTAAGCTCTATACACTTATGAACTTGAGAAAATGAA
66 CTCACAAGAATAAAATAAAGGATATGCAATTAAGCTCTATACACTTATGAACTTGAGAAAATGAA
147176 TGAAACAAGAATGTAAACTTTTTCTCTTGATCTCTAAGCTTGGATTGGTGTAGTAACCTTCTTCA
131 TGAAACAAGAATGTAAACTTTTTCTCTTGATCTCTAAGCTTGGATTGGTGTAGTAACCTTCTTCA
147241 AGTGTCCTTGGGTTGTTTTTATATGATGGAATGAGCTTGTGGCCATTTCTAGCCATTGGAGATGT
196 AGTGTCCTTGGGTTGTTTTTATATGATGGAATGAGCTTGTGGCCATTTCTAGCCATTGGAGATGT
147306 TTTGGAGCCATTGGAAGATGAAAAGTATGCAATTATGCATAGGGGTTTCGAAACCACCAAAGAAG
261 TTTGGAGCCATTGGAAGATGAAAAGTATGCAATTATGCATAGGGGTTTCGAAACCACCAAAGAAG
147371 GTTTTGAAACTACCTTTAAAATTTTGATCGTTCGAATAGGGGGTTTCAAAACCATACCCGAAATT
326 GTTTTGAAACTACCTTTAAAATTTTGATCGTTCGAATAGGGGGTTTCAAAACCATACCCGAAATT
*
147436 GCCTAATTTCGCCCTTTAAAATCTTAAAATCTTGAATTTTTTTTGCAATATTTTAAAAAAATCAA
391 GCCTAATTTCACCCTTTAAAATCTTAAAATCTTGAATTTTTTTTGCAATATTTTAAAAAAATCAA
147501 TTAAGTCCGAAAAACA
456 TTAAGTCCGAAAAACA
147517 CTTTTACAATGTTTGATTTCTGTAAATAAAAATACCTCTCAAGGTGGGTGTTTAAAAAGATTAAG
1 CTTTTACAATGTTTGATTTCTGTAAATAAAAATACCTCTCAAGGTGGGTGTTTAAAAAGATTAAG
147582 CTCACAAGAATAAAATAAAGGATATGCAATTAAGCTCTATACACTTATGAACTTGAGAAAATGAA
66 CTCACAAGAATAAAATAAAGGATATGCAATTAAGCTCTATACACTTATGAACTTGAGAAAATGAA
147647 TGAAACAAGAATGTAAACTTTTTCTCTTGATCTCTAAGCTTGGATTGGTGTAGTAACCTTCTTCA
131 TGAAACAAGAATGTAAACTTTTTCTCTTGATCTCTAAGCTTGGATTGGTGTAGTAACCTTCTTCA
147712 AGTGTCCTTGGGTTGTTTTTATATGATGGAATGAGCTTGTGGCCATTTCTAGCCATTGGAGATGT
196 AGTGTCCTTGGGTTGTTTTTATATGATGGAATGAGCTTGTGGCCATTTCTAGCCATTGGAGATGT
*
147777 TTTGGAGCCATTGGAAGATGAAAAGTATGCAATTATGCATAGGGGTTTCGAAATCACCAAAGAAG
261 TTTGGAGCCATTGGAAGATGAAAAGTATGCAATTATGCATAGGGGTTTCGAAACCACCAAAGAAG
147842 GTTTTGAAACTACCTTTAAAATTTTGATCGTTCGAATAGGGGGTTTCAAAACCATACCCGAAATT
326 GTTTTGAAACTACCTTTAAAATTTTGATCGTTCGAATAGGGGGTTTCAAAACCATACCCGAAATT
*
147907 GCCTAATTTCACCCTTTATAATCTTAAAATCTTGAATTTTTTTTGCAATATTTTAAAAAAATCAA
391 GCCTAATTTCACCCTTTAAAATCTTAAAATCTTGAATTTTTTTTGCAATATTTTAAAAAAATCAA
147972 TTAAGTCCGAAAAACA
456 TTAAGTCCGAAAAACA
147988 CTTTT
1 CTTTT
147993 CCCTTATTTT
Statistics
Matches: 473, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
471 473 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (471 bp):
CTTTTACAATGTTTGATTTCTGTAAATAAAAATACCTCTCAAGGTGGGTGTTTAAAAAGATTAAG
CTCACAAGAATAAAATAAAGGATATGCAATTAAGCTCTATACACTTATGAACTTGAGAAAATGAA
TGAAACAAGAATGTAAACTTTTTCTCTTGATCTCTAAGCTTGGATTGGTGTAGTAACCTTCTTCA
AGTGTCCTTGGGTTGTTTTTATATGATGGAATGAGCTTGTGGCCATTTCTAGCCATTGGAGATGT
TTTGGAGCCATTGGAAGATGAAAAGTATGCAATTATGCATAGGGGTTTCGAAACCACCAAAGAAG
GTTTTGAAACTACCTTTAAAATTTTGATCGTTCGAATAGGGGGTTTCAAAACCATACCCGAAATT
GCCTAATTTCACCCTTTAAAATCTTAAAATCTTGAATTTTTTTTGCAATATTTTAAAAAAATCAA
TTAAGTCCGAAAAACA
Found at i:148093 original size:36 final size:35
Alignment explanation
Indices: 148023--148095 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
148013 ATATTGGTTC
** *
148023 TACAGCATGATATATCTGCGCTTGCTACTGATGAT
1 TACAGCATGATATAAATGCGCTTGCTACTAATGAT
* *
148058 TACATGCATGATATAAATGCGCTTGTTGCTAATGAT
1 TACA-GCATGATATAAATGCGCTTGCTACTAATGAT
148094 TA
1 TA
148096 TGTGTATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (35 bp):
TACAGCATGATATAAATGCGCTTGCTACTAATGAT
Found at i:149306 original size:60 final size:60
Alignment explanation
Indices: 149213--149325 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
149203 AAGACCCTCA
* *
149213 ATAGTGCAACCCTATTCAGCCAAAAACAACAGAGAATTAGAAAACTAAACTAAACTCTCG
1 ATAGTGCAACCCTATTCAGCAAAAAACAACAGAGAATTAGAAAACAAAACTAAACTCTCG
149273 ATAGTGCAACCCTATTCAGCAAAAAACAACAGAGAATTAGAAAACAAAACTAA
1 ATAGTGCAACCCTATTCAGCAAAAAACAACAGAGAATTAGAAAACAAAACTAA
149326 CACAGTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.17
Consensus pattern (60 bp):
ATAGTGCAACCCTATTCAGCAAAAAACAACAGAGAATTAGAAAACAAAACTAAACTCTCG
Found at i:151746 original size:2 final size:2
Alignment explanation
Indices: 151739--151763 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
151729 TTAATTCCTT
151739 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
151764 TCATGATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:163359 original size:13 final size:13
Alignment explanation
Indices: 163341--163370 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
163331 AGTGGTCAAC
*
163341 GGTCAACGGGTCG
1 GGTCAACAGGTCG
163354 GGTCAACAGGTCG
1 GGTCAACAGGTCG
163367 GGTC
1 GGTC
163371 GAGTCAACGG
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:0.17, C:0.23, G:0.43, T:0.17
Consensus pattern (13 bp):
GGTCAACAGGTCG
Found at i:163370 original size:18 final size:18
Alignment explanation
Indices: 163347--163392 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
163337 CAACGGTCAA
163347 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* *
163365 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACAGGT
*
163383 TGGGTCGGGT
1 CGGGTCGGGT
163393 TATGACCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.20, G:0.48, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:166001 original size:30 final size:30
Alignment explanation
Indices: 165967--166042 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
165957 TTTTAATGAA
*
165967 TATTTAATTCAGAATAATTAAATAATATTT
1 TATTTAATTCAGAATAATTAAATAAAATTT
*
165997 TATTTAATTCTGAATAATTAAATAAAATTT
1 TATTTAATTCAGAATAATTAAATAAAATTT
* *
166027 TAATTAATTCAAAATA
1 TATTTAATTCAGAATA
166043 TATAAACCCG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (30 bp):
TATTTAATTCAGAATAATTAAATAAAATTT
Found at i:167758 original size:75 final size:76
Alignment explanation
Indices: 167691--167854 Score: 215
Period size: 76 Copynumber: 2.2 Consensus size: 76
167681 AAAAAATAAT
* * * *
167691 ATAATATTCTAAATCCTAATTAAAATACTAAAATC-TATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACAAATTTAAACTAAAATACAAAGATAAAGAT
167755 AAAATATAAAA
66 AAAATATAAAA
* *
167766 ATAATATCCTAAAACTTAATTAAAATTCTAAAAACAAATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACAAATTTAAACTAAAATACAAAGATAAAGAT
* * *
167830 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
167842 ATATTATCCTAAA
1 ATAATATCCTAAA
167855 TTTGAGTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 36 0.47
76 41 0.53
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACAAATTTAAACTAAAATACAAAGATAAAGAT
AAAATATAAAA
Found at i:169667 original size:10 final size:10
Alignment explanation
Indices: 169654--169694 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
169644 AAAGTTCGCT
169654 AAAAAAATAA
1 AAAAAAATAA
169664 AAAAAAATAA
1 AAAAAAATAA
*
169674 AACGAAAATAA
1 AA-AAAAATAA
*
169685 AAAAATATAA
1 AAAAAAATAA
169695 CGAAATGGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:182399 original size:17 final size:17
Alignment explanation
Indices: 182365--182411 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
182355 GTTATGGTTA
* *
182365 AAATAAAAAATAAGAATT
1 AAATAAAACA-AATAATT
182383 AAATAAAACAAATAATT
1 AAATAAAACAAATAATT
182400 AAAT-AAACAAAT
1 AAATAAAACAAAT
182412 TAAAGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 8 0.30
17 10 0.37
18 9 0.33
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAAAACAAATAATT
Found at i:183116 original size:64 final size:69
Alignment explanation
Indices: 182991--183182 Score: 198
Period size: 64 Copynumber: 2.8 Consensus size: 69
182981 TAAAACATCT
* * ** *
182991 TAAATCCTAATTAAAACAGTTAAAA-CTATTTAAACTAAAATACCTA-A-AAA-AAT--ATATAA
1 TAAATCCTAATTAAAATA-CTAAAACCTATTTAAACTAAAATACAAAGATAAAGAATAAAAATAA
*
183050 TATTC
65 TATCC
183055 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAG-----A-ATAAA
183120 AATAATATCC
60 AATAATATCC
* *
183130 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAA
183183 ATATAATGTT
Statistics
Matches: 107, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
63 5 0.05
64 36 0.34
65 1 0.01
66 3 0.03
72 1 0.01
73 2 0.02
75 27 0.25
76 32 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (69 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGAATAAAAATAAT
ATCC
Found at i:183133 original size:75 final size:76
Alignment explanation
Indices: 183046--183210 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
183036 AAAAAAATAT
*
183046 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
183110 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
183121 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
183186 TAATGTTTAAA
66 AAATGATAAAA
*
183197 ATATTATCCTAAAT
1 ATAATATCCTAAAT
183211 TTGAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:185973 original size:3 final size:3
Alignment explanation
Indices: 185965--186019 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
185955 CATTCAAGCT
185965 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
186013 TTA TTA T
1 TTA TTA T
186020 GAAACACCCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:194578 original size:12 final size:12
Alignment explanation
Indices: 194561--194587 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
194551 GAAAGATAAG
194561 AGACATCCGGTA
1 AGACATCCGGTA
194573 AGACATCCGGTA
1 AGACATCCGGTA
194585 AGA
1 AGA
194588 TCTCCAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (12 bp):
AGACATCCGGTA
Found at i:202868 original size:14 final size:14
Alignment explanation
Indices: 202849--202876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
202839 GATGATTAAA
202849 ATGACAGTTAAGAG
1 ATGACAGTTAAGAG
202863 ATGACAGTTAAGAG
1 ATGACAGTTAAGAG
202877 TGGGAAACTT
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:0.43, C:0.07, G:0.29, T:0.21
Consensus pattern (14 bp):
ATGACAGTTAAGAG
Found at i:208430 original size:134 final size:130
Alignment explanation
Indices: 208266--208593 Score: 336
Period size: 133 Copynumber: 2.5 Consensus size: 130
208256 ACCTCGTTCT
* * * *
208266 TCTTTAGGGTAAGTTAGATCAAGATAGATTTGCTCCACTGCTCTTCAGGGTAGGTCAAATCAAGA
1 TCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGTAGGTCAAATCAA-A
** * * * * *
208331 GAAAATGGAATATGTTTTGTTGCTCCACAGGCTAGGTCAGAATT-ATAAAAATGGGATATGGTCC
65 -AAAAT-GAATATACTCTGCTACTCCACAGGCTAGGTCAG-ATTAAGAAAAAT-GGATATGCTCC
208395 ACTAC
126 ACTAC
* * *
208400 TCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTAATCATT-AAGGTAGGTCAAATTTAA
1 TCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTC-TTCAGGGTAGGTCAAA-TCAA
* *** * *
208464 AAAAATGAATCTACTCTGCTACTCTTTAGGGTAGGTCAGATTAAGAGAAAAATGGATCTGCTCCA
64 AAAAATGAATATACTCTGCTACTCCACAGGCTAGGTCAGATT-A-AGAAAAATGGATATGCTCCA
208529 CTAC
127 CTAC
* * * * *
208533 TCTTCAAGGTAGGTCAGGTCAAGATATATTTGGTCCACTACTCTTCAGGGTATGTCAAATC
1 TCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGTAGGTCAAATC
208594 TAATGGAATC
Statistics
Matches: 160, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
131 3 0.02
132 26 0.16
133 68 0.43
134 58 0.36
135 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (130 bp):
TCTTCAGGGTAGGTCAGATCAAGATAGATTTGCTCCACTACTCTTCAGGGTAGGTCAAATCAAAA
AAATGAATATACTCTGCTACTCCACAGGCTAGGTCAGATTAAGAAAAATGGATATGCTCCACTAC
Found at i:209103 original size:61 final size:63
Alignment explanation
Indices: 208970--209115 Score: 206
Period size: 61 Copynumber: 2.3 Consensus size: 63
208960 AATGTTTTCT
* * * *
208970 TGAATGCGGTAATGCAAGTCATGTATTCGGGGAAAGTCCTCATGAGAGGTTAAAAAGTTTGAA
1 TGAATGAGGTAATGCAATTCATGTATTCGGGAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
* * * *
209033 TGAATGAGGTAATGCAATTCATGTATT-TGGAAAAGTCCTCTTGGGAGGTTAGAAA-TCTGAA
1 TGAATGAGGTAATGCAATTCATGTATTCGGGAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
209094 TGAATGAGGTAATGCAATTCAT
1 TGAATGAGGTAATGCAATTCAT
209116 TCATTTTTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
61 27 0.36
62 23 0.31
63 25 0.33
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (63 bp):
TGAATGAGGTAATGCAATTCATGTATTCGGGAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
Found at i:209129 original size:62 final size:62
Alignment explanation
Indices: 208970--209149 Score: 202
Period size: 62 Copynumber: 2.9 Consensus size: 62
208960 AATGTTTTCT
* * * ** *
208970 TGAATGCGGTAATGCAAGTCATGTATTCGGGGAAAGTCCTCATGAGAGGTTAAAAAGTTTGAA
1 TGAATGAGGTAATGCAATTCATGTATT-TGCAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
* * * *
209033 TGAATGAGGTAATGCAATTCATGTATTTGGAAAAGTCCTCTTGGGAGGTTAGAAA-TCTGAA
1 TGAATGAGGTAATGCAATTCATGTATTTGCAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
* * *
209094 TGAATGAGGTAATGCAATTCAT-TCATTTTTCAAAAGTCCTCATGATAGGTCAAAAA
1 TGAATGAGGTAATGCAATTCATGT-A-TTTGCAAAAGTCCTCATGAGAGGTTAAAAA
209150 CCTTAATGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
60 1 0.01
61 28 0.28
62 46 0.46
63 25 0.25
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (62 bp):
TGAATGAGGTAATGCAATTCATGTATTTGCAAAAGTCCTCATGAGAGGTTAAAAAGTCTGAA
Found at i:211937 original size:18 final size:18
Alignment explanation
Indices: 211914--211955 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
211904 CTTTGTTCAA
211914 TTTCTTCTTGTCTTTTT-T
1 TTTCTT-TTGTCTTTTTCT
*
211932 TTTCTTTTTTCTTTTTCT
1 TTTCTTTTGTCTTTTTCT
211950 TTTCTT
1 TTTCTT
211956 AAAATAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTCTTTTGTCTTTTTCT
Found at i:224184 original size:2 final size:2
Alignment explanation
Indices: 224177--224229 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
224167 AAATTACAAC
224177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
224219 TA TA TA T- TA TA
1 TA TA TA TA TA TA
224230 CATTTTATTC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:232434 original size:13 final size:13
Alignment explanation
Indices: 232415--232459 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
232405 GTCACAACCC
232415 GACCCGACCCGTT
1 GACCCGACCCGTT
*
232428 TACCCGACCCGTT
1 GACCCGACCCGTT
*
232441 GACTCGACCCGTT
1 GACCCGACCCGTT
232454 GACCCG
1 GACCCG
232460 TTGACCGTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.16, C:0.44, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:233781 original size:18 final size:18
Alignment explanation
Indices: 233755--233789 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
233745 TCGAAAGGAC
*
233755 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
233773 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
233790 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:237580 original size:13 final size:13
Alignment explanation
Indices: 237579--237621 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
237569 CCGTTTACCC
237579 GACCCGACCCGTT
1 GACCCGACCCGTT
*
237592 TACCCGACCCGTT
1 GACCCGACCCGTT
*
237605 GACTCGACCCGTT
1 GACCCGACCCGTT
237618 GACC
1 GACC
237622 GTTGACCGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.16, C:0.44, G:0.21, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:237580 original size:18 final size:18
Alignment explanation
Indices: 237557--237602 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
237547 ACCGGTCACA
237557 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
237575 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
237593 ACCCGACCCG
1 ACCCGACCCG
237603 TTGACTCGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.17, C:0.52, G:0.17, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:237614 original size:18 final size:17
Alignment explanation
Indices: 237560--237615 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
237550 GGTCACAACC
*
237560 CGACCCGACCCGTTTACC
1 CGACCCGACCCG-TTACT
237578 CGACCCGACCCGTT--T
1 CGACCCGACCCGTTACT
237593 --ACCCGACCCGTTGACT
1 CGACCCGACCCGTT-ACT
237609 CGACCCG
1 CGACCCG
237616 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
13 12 0.38
16 1 0.03
17 2 0.06
18 17 0.53
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (17 bp):
CGACCCGACCCGTTACT
Found at i:238944 original size:18 final size:18
Alignment explanation
Indices: 238918--238952 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
238908 TCGAAAGGAC
*
238918 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
238936 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
238953 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:242726 original size:23 final size:23
Alignment explanation
Indices: 242694--242778 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 23
242684 TTAGTACAGA
*
242694 GGGAATCGATACCCCCCTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* *
242717 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATACCCCCCTTGAAG
* * * *
242740 AGAAACCGAT-TCCCCC-TAAAG
1 GGGAACCGATACCCCCCTTGAAG
*
242761 GGGAATCGATACCCCCCT
1 GGGAACCGATACCCCCCT
242779 GGGGTTCTGG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
21 11 0.23
22 9 0.19
23 28 0.58
ACGTcount: A:0.27, C:0.33, G:0.22, T:0.18
Consensus pattern (23 bp):
GGGAACCGATACCCCCCTTGAAG
Found at i:244355 original size:18 final size:18
Alignment explanation
Indices: 244329--244392 Score: 103
Period size: 18 Copynumber: 3.5 Consensus size: 18
244319 GAACCAGAAT
244329 AGCACGAGGAACAAGCACG
1 AGCA-GAGGAACAAGCACG
244348 AGCAGAGGAACAAGCACG
1 AGCAGAGGAACAAGCACG
244366 AGCAGAGGAACAAGCAC-
1 AGCAGAGGAACAAGCACG
244383 AGCCAGAGGA
1 AG-CAGAGGA
244393 TCAAATGTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
17 2 0.05
18 38 0.86
19 4 0.09
ACGTcount: A:0.44, C:0.23, G:0.33, T:0.00
Consensus pattern (18 bp):
AGCAGAGGAACAAGCACG
Found at i:248816 original size:6 final size:7
Alignment explanation
Indices: 248752--248841 Score: 62
Period size: 7 Copynumber: 12.9 Consensus size: 7
248742 GCTTTAGACC
248752 ATATATT
1 ATATATT
248759 ATATATGT
1 ATATAT-T
*
248767 ACATATT
1 ATATATT
*
248774 ATTTA-T
1 ATATATT
248780 ATTATATT
1 A-TATATT
248788 A-ATATGT
1 ATATAT-T
*
248795 A-ATAGT
1 ATATATT
248801 ATATATT
1 ATATATT
248808 ATA-ATT
1 ATATATT
*
248814 ATATTTT
1 ATATATT
* *
248821 ATTTGTAT
1 ATATAT-T
248829 ATATATT
1 ATATATT
248836 ATATAT
1 ATATAT
248842 ATGCATATTA
Statistics
Matches: 65, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
6 14 0.22
7 38 0.58
8 13 0.20
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (7 bp):
ATATATT
Found at i:248842 original size:11 final size:11
Alignment explanation
Indices: 248752--248843 Score: 50
Period size: 11 Copynumber: 8.4 Consensus size: 11
248742 GCTTTAGACC
248752 ATATATTATAT
1 ATATATTATAT
* *
248763 ATGTA-CATAT
1 ATATATTATAT
248773 -TAT-TTATAT
1 ATATATTATAT
248782 -TATATTAATAT
1 ATATATT-ATAT
* *
248793 GTAATAGTATAT
1 AT-ATATTATAT
248805 ATTATAATTATAT
1 A-TAT-ATTATAT
* *
248818 -TTTATTTGTAT
1 ATATA-TTATAT
248829 ATATATTATAT
1 ATATATTATAT
248840 ATAT
1 ATAT
248844 GCATATTAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
9 9 0.15
10 7 0.11
11 24 0.39
12 10 0.16
13 11 0.18
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (11 bp):
ATATATTATAT
Found at i:249811 original size:32 final size:31
Alignment explanation
Indices: 249775--249858 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
249765 AACTCGATCT
*
249775 AAAAGTAACCCAAATCAAAATTAACCTGAACC
1 AAAAGTAACACAAATCAAAA-TAACCTGAACC
* ** *
249807 AAAAGTAATATGAATCGAAAATAACCTGAATC
1 AAAAGTAACACAAATC-AAAATAACCTGAACC
* *
249839 AAAAGCAACTCAAATCAAAA
1 AAAAGTAACACAAATCAAAA
249859 GCAATCCAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
31 4 0.10
32 33 0.80
33 4 0.10
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.17
Consensus pattern (31 bp):
AAAAGTAACACAAATCAAAATAACCTGAACC
Found at i:252567 original size:21 final size:21
Alignment explanation
Indices: 252525--252577 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
252515 GACCATAAAG
* * *
252525 TTTTAGTATTAAAGTTTTAGA
1 TTTTAATATTAAAGATTAAGA
*
252546 TTTTAATATTTAAGATTAAGA
1 TTTTAATATTAAAGATTAAGA
* *
252567 TATTCATATTA
1 TTTTAATATTA
252578 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTAATATTAAAGATTAAGA
Found at i:258048 original size:10 final size:11
Alignment explanation
Indices: 258023--258060 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
258013 TAATTATTTA
258023 AAAAATTAAAT
1 AAAAATTAAAT
258034 AAAAATTAAAT
1 AAAAATTAAAT
*
258045 AAAAAATAAA-
1 AAAAATTAAAT
258055 AAAAAT
1 AAAAAT
258061 AGGTTGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAATTAAAT
Found at i:258284 original size:9 final size:9
Alignment explanation
Indices: 258270--258294 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
258260 TCAACGTGGG
258270 TTTTTTAAT
1 TTTTTTAAT
258279 TTTTTTAAT
1 TTTTTTAAT
258288 TTTTTTA
1 TTTTTTA
258295 TTGCCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:260196 original size:33 final size:33
Alignment explanation
Indices: 260158--260221 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
260148 ACTAAAACAT
* *
260158 TATTTAA-ATATAAAATATAAACAATTGTTAAGA
1 TATTTAATACATAAAATATAAA-AATTATTAAGA
*
260191 TATTTAATACATTAAATATAAAAATTATTAA
1 TATTTAATACATAAAATATAAAAATTATTAA
260222 AAATTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 15 0.56
34 12 0.44
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (33 bp):
TATTTAATACATAAAATATAAAAATTATTAAGA
Found at i:261143 original size:15 final size:15
Alignment explanation
Indices: 261125--261157 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
261115 AAATTCTAAA
261125 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
261140 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
261155 TAT
1 TAT
261158 ATTTATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:261162 original size:17 final size:16
Alignment explanation
Indices: 261124--261163 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
261114 GAAATTCTAA
*
261124 ATATTTAAATAAAAAT
1 ATATTTATATAAAAAT
261140 -TATTTATATAAAAATT
1 ATATTTATATAAAAA-T
261156 ATATTTAT
1 ATATTTAT
261164 TGATAATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 13 0.62
16 1 0.05
17 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTATATAAAAAT
Found at i:263129 original size:93 final size:94
Alignment explanation
Indices: 262977--263166 Score: 301
Period size: 93 Copynumber: 2.0 Consensus size: 94
262967 CTATGTTTCG
* * *
262977 AGTAGCAAACACATGAACACTTGACAAACTTTTTACAGTTGCCGCTGAGACAAGAGGAAACACAA
1 AGTAGCAAACACATGAACACTAGAC-AACTTTTTACAATTACCGCTGAGACAAGAGGAAACACAA
*
263042 AACAAGGAACACCAACAACATAAATGCATA
65 AACAAGGAAAACCAACAACATAAATGCATA
* *
263072 AGTAGCAAACACATGAACACTAGAC-ACTTTTTACAATTACCGCTGAGACAAGTGGAAACACTAA
1 AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTACCGCTGAGACAAGAGGAAACACAAA
*
263136 ACAAGGAAAACCAACAGCATAAATGCATA
66 ACAAGGAAAACCAACAACATAAATGCATA
263165 AG
1 AG
263167 AAGCTTCAGA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 64 0.73
95 24 0.27
ACGTcount: A:0.46, C:0.22, G:0.16, T:0.16
Consensus pattern (94 bp):
AGTAGCAAACACATGAACACTAGACAACTTTTTACAATTACCGCTGAGACAAGAGGAAACACAAA
ACAAGGAAAACCAACAACATAAATGCATA
Found at i:266202 original size:60 final size:60
Alignment explanation
Indices: 266136--266629 Score: 783
Period size: 60 Copynumber: 8.2 Consensus size: 60
266126 AACTGTTAAA
*
266136 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTTCCAAAATGCACAGTTAGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
** * *
266196 CATTTAACCTTTCATCTAACTTGCATTAGTGGTTCTTTTCTACCAAAATGCACAGTTAGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
* * * *
266256 CATTTAACCTTTCATCTAACTTGCGTTAGTGGCACCTTTCTGCCAAAATGCATAATTAGA
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
* *
266316 CATTTAACCTTTCATCTAACTTGTATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGA
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
* * ** *
266376 CATTTAACCTTTCATCTAACTTCCATTAGTGGTATTTTTATGCCAAAATGCACAGTTAGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
* *
266436 CATTTAACCTTTTATTTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
*
266496 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTTGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
* *
266556 CA-TTAACCTTTCATCTAAGTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAATTAGG
1 CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
*
266615 CATTTAAGCTTTCAT
1 CATTTAACCTTTCAT
266630 TTTTAGAGGA
Statistics
Matches: 396, Mismatches: 37, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
59 56 0.14
60 340 0.86
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (60 bp):
CATTTAACCTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACAGTTAGG
Found at i:266547 original size:27 final size:27
Alignment explanation
Indices: 266517--266606 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
266507 TCATCTAACT
266517 TGCATTAGTGGCACCTTTCTGCCAAAA
1 TGCATTAGTGGCACCTTTCTGCCAAAA
* * **
266544 TGCA-CAGTTTGGCATTAACCTTTCAT-CTAAGT
1 TGCATTAG--TGGC----ACCTTTC-TGCCAAAA
266576 TGCATTAGTGGCACCTTTCTGCCAAAA
1 TGCATTAGTGGCACCTTTCTGCCAAAA
266603 TGCA
1 TGCA
266607 CAATTAGGCA
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
26 3 0.07
27 18 0.39
28 4 0.09
31 4 0.09
32 14 0.30
33 3 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (27 bp):
TGCATTAGTGGCACCTTTCTGCCAAAA
Found at i:273874 original size:60 final size:60
Alignment explanation
Indices: 273623--273875 Score: 317
Period size: 60 Copynumber: 4.2 Consensus size: 60
273613 TAAACCAATA
* * * * * *
273623 AGTGGCACCTTTTATGCCGAAATGAACTGTTAGACATTTAACCCTTCATCTAACTTGCAAT
1 AGTGGCACC-TTTCTGCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
* *
273684 AATGGCACCTTTCTTCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
1 AGTGGCACCTTTCTGCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
** * * * *
273744 AGTGGCATATTTCTACCAAAAGGCATAGTTAGGCATTTAACCTTTCATCTAACTTGCATT
1 AGTGGCACCTTTCTGCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
* * * * *
273804 AGTGGAACCTTTCTGCCAAAATGTACAGTTAGGCATTTAACCTTTCATCTAGCTTGGATT
1 AGTGGCACCTTTCTGCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
*
273864 TGTGGCACCTTT
1 AGTGGCACCTTT
273876 TGTAACCCTC
Statistics
Matches: 166, Mismatches: 26, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 158 0.95
61 8 0.05
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (60 bp):
AGTGGCACCTTTCTGCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATT
Found at i:279341 original size:32 final size:31
Alignment explanation
Indices: 279305--279379 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
279295 GGGCCACGGG
*
279305 GCCTACCTAAGAACACATCTTAGGGCCGCAGA
1 GCCTACCTAAGAA-ACATCTCAGGGCCGCAGA
** **
279337 GCCTACCCGAGAATGATCTCAGGGCCGCAGA
1 GCCTACCTAAGAAACATCTCAGGGCCGCAGA
279368 GCCTACCTAAGA
1 GCCTACCTAAGA
279380 GTCACATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (31 bp):
GCCTACCTAAGAAACATCTCAGGGCCGCAGA
Found at i:282769 original size:60 final size:60
Alignment explanation
Indices: 282691--282853 Score: 238
Period size: 60 Copynumber: 2.7 Consensus size: 60
282681 TGGGGTGTTA
* * *
282691 CACCTTTCTGCCAAAATGCACATTTAGGCATTTAACATTTCATCTAACTTGCAATAGTGG
1 CACCTTTCTCCCAAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTGCAATAGTGG
* * *
282751 CACCTCTCTCCCAAAATGCACAGTTAGACATTTAACCTTTCATCTAACTTGCATTAGTGG
1 CACCTTTCTCCCAAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTGCAATAGTGG
* *
282811 C-CCATTTTTTCCAAAATGCACAGTTAGGCATTTAACCTTTCAT
1 CACC-TTTCTCCCAAAATGCACAGTTAGGCATTTAACCTTTCAT
282854 TTTAGAGCAG
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 2 0.02
60 90 0.98
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (60 bp):
CACCTTTCTCCCAAAATGCACAGTTAGGCATTTAACCTTTCATCTAACTTGCAATAGTGG
Found at i:283395 original size:18 final size:18
Alignment explanation
Indices: 283372--283417 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
283362 TCTTTCTCTT
** *
283372 AGTATCGATACCCTCCTC
1 AGTATCGATACAATCATC
*
283390 AGTATCGATGCAATCATC
1 AGTATCGATACAATCATC
283408 AGTATCGATA
1 AGTATCGATA
283418 TTGTTCATCG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (18 bp):
AGTATCGATACAATCATC
Found at i:284717 original size:16 final size:19
Alignment explanation
Indices: 284684--284719 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
284674 TTCTTTATTT
284684 TTATTTAAATCACTTTTTA
1 TTATTTAAATCACTTTTTA
284703 TTATTT-AATC-CTTTTTA
1 TTATTTAAATCACTTTTTA
284720 CCAAACCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTAAATCACTTTTTA
Found at i:299860 original size:16 final size:16
Alignment explanation
Indices: 299811--299878 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 16
299801 ATGAGATTAA
299811 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
*
299827 -AAAATGGATAA-AAA-T
1 AAAAAT--CTAAGAAATT
299842 AAAAATCTAAGAAATT
1 AAAAATCTAAGAAATT
299858 AAAAAAT-TAAGAAACTT
1 -AAAAATCTAAGAAA-TT
299875 AAAA
1 AAAA
299879 TTTATAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 20 0.47
17 11 0.26
ACGTcount: A:0.66, C:0.04, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAAATCTAAGAAATT
Found at i:299864 original size:17 final size:17
Alignment explanation
Indices: 299810--299878 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
299800 TATGAGATTA
299810 AAAAAATCTAAGAAATT
1 AAAAAATCTAAGAAATT
****
299827 AAAATGGATAA-AAA-T
1 AAAAAATCTAAGAAATT
299842 -AAAAATCTAAGAAATT
1 AAAAAATCTAAGAAATT
299858 AAAAAAT-TAAGAAACTT
1 AAAAAATCTAAGAAA-TT
299875 AAAA
1 AAAA
299879 TTTATAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
14 6 0.15
15 4 0.10
16 11 0.28
17 19 0.47
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (17 bp):
AAAAAATCTAAGAAATT
Found at i:299867 original size:57 final size:56
Alignment explanation
Indices: 299754--299876 Score: 124
Period size: 57 Copynumber: 2.2 Consensus size: 56
299744 TCAACATAGG
** * ** *
299754 AAAAAATTAAGAAATTAAAATGGATAAAAATAAATTTTGCTATAACTATGAGATTA
1 AAAAAATTAAGAAATTAAAATGGATAAAAATAAATAATGCTAAAACTAAAAAATTA
*
299810 AAAAAATCTAAGAAATTAAAATGGATAAAAATAAA-AAT-CTAAGAAATTAAAAAATTA
1 AAAAAAT-TAAGAAATTAAAATGGATAAAAATAAATAATGCT-A-AAACTAAAAAATTA
* *
299867 AGAAACTTAA
1 AAAAAATTAA
299877 AATTTATAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
55 2 0.04
56 12 0.22
57 41 0.75
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (56 bp):
AAAAAATTAAGAAATTAAAATGGATAAAAATAAATAATGCTAAAACTAAAAAATTA
Found at i:323556 original size:13 final size:13
Alignment explanation
Indices: 323538--323579 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
323528 AATGACTTCT
*
323538 ATCTCTTCAATTC
1 ATCTCTTTAATTC
323551 ATCTCTTTAATTC
1 ATCTCTTTAATTC
*
323564 CTCTCTTTAATTC
1 ATCTCTTTAATTC
323577 ATC
1 ATC
323580 ATTCTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (13 bp):
ATCTCTTTAATTC
Found at i:325975 original size:19 final size:20
Alignment explanation
Indices: 325936--325980 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
325926 AATCCCTTTA
325936 AAAATACATGATTTTTAATG
1 AAAATACATGATTTTTAATG
*
325956 AAAATACATGA-TTTTGATG
1 AAAATACATGATTTTTAATG
325975 AAAATA
1 AAAATA
325981 AATACTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (20 bp):
AAAATACATGATTTTTAATG
Found at i:331906 original size:20 final size:21
Alignment explanation
Indices: 331877--331933 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 21
331867 TTTCATGGTA
*
331877 GTATCAATACTATCTTG-ATG
1 GTATCGATACTATCTTGCATG
331897 GTATCGATACTACTCTTGCCTATG
1 GTATCGATACTA-TCTTG-C-ATG
*
331921 GTACCGATACTAT
1 GTATCGATACTAT
331934 AAGAACAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 11 0.35
21 5 0.16
23 1 0.03
24 14 0.45
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (21 bp):
GTATCGATACTATCTTGCATG
Found at i:333140 original size:20 final size:20
Alignment explanation
Indices: 333117--333168 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
333107 ATATGAAAAA
333117 TATCGATACTGTTCATGAGG
1 TATCGATACTGTTCATGAGG
333137 TATCGATACTGTTCATGAGG
1 TATCGATACTGTTCATGAGG
333157 TATCGATACTGT
1 TATCGATACTGT
333169 AAGAACAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (20 bp):
TATCGATACTGTTCATGAGG
Found at i:340266 original size:20 final size:22
Alignment explanation
Indices: 340228--340288 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
340218 TTTTGGTGCA
*
340228 GAGGGAATCGA-TCCGCCC-TT-
1 GAGGGAACCGATTCC-CCCTTTC
340248 GAGGGAACCGATTCCCCCTTTC
1 GAGGGAACCGATTCCCCCTTTC
*
340270 AAGGGGAACCGATTCCCCC
1 GA-GGGAACCGATTCCCCC
340289 CACAGGGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 13 0.37
21 5 0.14
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.34, G:0.26, T:0.18
Consensus pattern (22 bp):
GAGGGAACCGATTCCCCCTTTC
Found at i:340297 original size:21 final size:20
Alignment explanation
Indices: 340250--340315 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
340240 CCGCCCTTGA
340250 GGGAACCGATTCCCCCTTTCAAG
1 GGGAACCGATTCCCCC---CAAG
340273 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCA-AG
* * *
340294 GGGAATCGATACCCCCCTAG
1 GGGAACCGATTCCCCCCAAG
340314 GG
1 GG
340316 TTCTGGTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
20 6 0.15
21 17 0.44
23 16 0.41
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (20 bp):
GGGAACCGATTCCCCCCAAG
Found at i:342281 original size:17 final size:17
Alignment explanation
Indices: 342248--342292 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
342238 GTTTTAACAT
*
342248 TTTGAATATTTTGGATTG
1 TTTGAAT-TTGTGGATTG
342266 TTTGAATTTGTGGATTG
1 TTTGAATTTGTGGATTG
* *
342283 ATTGACTTTG
1 TTTGAATTTG
342293 AATCTGTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.53
Consensus pattern (17 bp):
TTTGAATTTGTGGATTG
Found at i:356120 original size:57 final size:56
Alignment explanation
Indices: 356057--356190 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 56
356047 ATAGCACTAA
*
356057 GTGTGCAAAAAGCTATGAAATTCATAATTAA-TTTATGAATTTCCGTATGGGAACTTT
1 GTGTGCAAAAAGCTAAGAAATTCATAA-TAAGTTTATGAATTTCCGTATGGGAAC-TT
* * *
356114 GTGTGCAAAATGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTTTGGGCACTT
1 GTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTT
*
356170 ATGTGCAAAAA-CTAAGAAATT
1 GTGTGCAAAAAGCTAAGAAATT
356191 ATATGAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
55 10 0.14
56 14 0.20
57 46 0.66
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (56 bp):
GTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTT
Found at i:356448 original size:81 final size:81
Alignment explanation
Indices: 356352--357169 Score: 1088
Period size: 81 Copynumber: 10.1 Consensus size: 81
356342 CTATCTCAAA
* * ** *
356352 AGTAAAAGATGAATAGCCTAGCTGTGCAATTGGTAGAAAGGTGTTAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
356417 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
356433 AGTAAAAGATTAATAGCCTAG-TCGTGCACTTGACAGAAAGGTGTAAATTATGCCAATTAGATGA
1 AGTAAAAGATTAATAGCCTAGCT-GTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
356497 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * * * * *
356514 ACTAAAATATTAATA-CCTAGTTGTGCACTTGACATAAAAGTTTTATTTTATGCCAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCA-ATTATGCCAGTTAGATGA
356578 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * *
356595 AGTAAAATATTAATAGCTTAGCTGTGCACTTGATAGAAAGGTGTCAATTATACCAATTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
356660 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * **
356676 AGTAAAATATTAATAGCCTAGATGTGTAATTGGGAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
356741 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
356757 AGTAAAAGATTAATAGCCTAGCTTTGCACTTGGA-AAAAAGTTATCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGA
356821 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* * * * *
356838 AATAAAAAATTAATAGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATTCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
356903 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
356919 AGTAAATGATTAACAGCCTAGCTATGCCCTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
356984 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* * *
357000 AGTAAAAGATTAATAGCCTAACTGTGCACTTGACAGAAATGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
357065 AGGTTAAATA-CTTTG
66 AGGTTAAATACCTTTG
* * * * **
357080 TGTAAAAGATTAATAACCTAGCTGTGCATTTGGA-AGAAAAGTGTCAATTATGAAAGTTAGATGA
1 AGTAAAAGATTAATAGCCTAGCTGTGCACTT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGA
* *
357144 AAGGTTAAATGCCGTTG
65 AAGGTTAAATACCTTTG
*
357161 GGTAAAAGA
1 AGTAAAAGA
357170 ATAAAGGAAT
Statistics
Matches: 648, Mismatches: 81, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
80 94 0.15
81 530 0.82
82 24 0.04
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCACTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:359626 original size:2 final size:2
Alignment explanation
Indices: 359619--359643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
359609 GATGTCAGAA
359619 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
359644 GCTTTTCTAG
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:361990 original size:57 final size:56
Alignment explanation
Indices: 361902--362055 Score: 206
Period size: 57 Copynumber: 2.8 Consensus size: 56
361892 GCTTATCCAA
* *
361902 TGGCACTATGTGTGCAAAAAGCTAAGAAATTCATAATGAATTTGTGAATTTCCGTAT
1 TGGCACTTTGTGTGC-AAAAGCTAAGAAATTCATAATGAATTTATGAATTTCCGTAT
361959 TGGCACTTTGTGTGCAAAATGCTAAGAAATTCATAAT-AAGTTTATGAATTTCCGTAT
1 TGGCACTTTGTGTGCAAAA-GCTAAGAAATTCATAATGAA-TTTATGAATTTCCGTAT
* * * *
362016 GGGTACTTTATGTGCAAAAACTAAGAAATT-AT-ATGAATTT
1 TGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAATTT
362056 TCGTATTGGC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
54 5 0.06
55 4 0.05
56 16 0.18
57 63 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (56 bp):
TGGCACTTTGTGTGCAAAAGCTAAGAAATTCATAATGAATTTATGAATTTCCGTAT
Found at i:366013 original size:15 final size:15
Alignment explanation
Indices: 366002--366048 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
365992 GTAAGAAGGC
366002 AACATCTAAGAAGAA
1 AACATCTAAGAAGAA
366017 AACATCTAAGAAGAA
1 AACATCTAAGAAGAA
* *
366032 AACGTCAAAGAAGAA
1 AACATCTAAGAAGAA
366047 AA
1 AA
366049 TGTCAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.11
Consensus pattern (15 bp):
AACATCTAAGAAGAA
Found at i:366053 original size:15 final size:15
Alignment explanation
Indices: 366009--366064 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
365999 GGCAACATCT
* *
366009 AAGAAGAAAACATCT
1 AAGAAGAAAACGTCA
366024 AAGAAGAAAACGTCA
1 AAGAAGAAAACGTCA
*
366039 AAGAAGAAAATGTCA
1 AAGAAGAAAACGTCA
366054 AAGAAGGAAAA
1 AAGAA-GAAAA
366065 AGAAAGCATC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 32 0.86
16 5 0.14
ACGTcount: A:0.62, C:0.09, G:0.20, T:0.09
Consensus pattern (15 bp):
AAGAAGAAAACGTCA
Found at i:375110 original size:21 final size:21
Alignment explanation
Indices: 375066--375111 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
375056 TGAAATAAAG
* *
375066 AAAATAAAAGAAAATGAAGCA
1 AAAATAAAAAAAAAAGAAGCA
* *
375087 AAAATAAAAAAAAAAGGAGTA
1 AAAATAAAAAAAAAAGAAGCA
375108 AAAA
1 AAAA
375112 ATGAATAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAATAAAAAAAAAAGAAGCA
Found at i:375460 original size:37 final size:38
Alignment explanation
Indices: 375419--375504 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
375409 AATAAGAATT
375419 ATATATATATATATATACGA-ATA-AAAAAATA-ATTAAA
1 ATATATATATATA-ATA-GACATACAAAAAATATATTAAA
* *
375456 ATATATATA-ATAATAGAGCATACATAAAATATTTTAAA
1 ATATATATATATAATAGA-CATACAAAAAATATATTAAA
375494 ATATATATATA
1 ATATATATATA
375505 CAAATATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
34 2 0.05
35 3 0.07
36 6 0.14
37 16 0.38
38 14 0.33
39 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (38 bp):
ATATATATATATAATAGACATACAAAAAATATATTAAA
Found at i:375561 original size:22 final size:21
Alignment explanation
Indices: 375536--375606 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
375526 TAGTATAAAA
*
375536 AATAAAACATATGTATATATAT
1 AATAAAACATA-ATATATATAT
* *
375558 AATAATA-ATAATACATATAAT
1 AATAAAACATAATATATAT-AT
* *
375579 AATAAAACATAATATATTTAA
1 AATAAAACATAATATATATAT
375600 AATAAAA
1 AATAAAA
375607 ATTAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.15
21 19 0.47
22 15 0.38
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (21 bp):
AATAAAACATAATATATATAT
Found at i:375573 original size:28 final size:27
Alignment explanation
Indices: 375523--375575 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
375513 AAATGATGGA
375523 ATATAGTATAAAAAATAAAACATATGT
1 ATATAGTATAAAAAATAAAACATATGT
*
375550 ATATA-TATAATAATAATAATACATAT
1 ATATAGTATAA-AA-AATAAAACATAT
375576 AATAATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 7 0.30
28 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
ATATAGTATAAAAAATAAAACATATGT
Found at i:375579 original size:15 final size:15
Alignment explanation
Indices: 375559--375589 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
375549 TATATATATA
*
375559 ATAATAATAATACAT
1 ATAATAATAAAACAT
375574 ATAATAATAAAACAT
1 ATAATAATAAAACAT
375589 A
1 A
375590 ATATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAATAAAACAT
Found at i:375593 original size:18 final size:18
Alignment explanation
Indices: 375554--375594 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
375544 ATATGTATAT
*
375554 ATATAATAATAATAATAC
1 ATATAATAATAAAAATAC
375572 ATATAATAATAAAACATA-
1 ATATAATAATAAAA-ATAC
375590 ATATA
1 ATATA
375595 TTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAATAATAAAAATAC
Found at i:375607 original size:22 final size:22
Alignment explanation
Indices: 375536--375606 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
375526 TAGTATAAAA
**
375536 AATAAAACAT-ATGTATATATAT
1 AATAAAACATAATACATATA-AT
*
375558 AATAATA-ATAATACATATAAT
1 AATAAAACATAATACATATAAT
* *
375579 AATAAAACATAATATATTTAA-
1 AATAAAACATAATACATATAAT
375600 AATAAAA
1 AATAAAA
375607 ATTAAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 17 0.41
22 24 0.59
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (22 bp):
AATAAAACATAATACATATAAT
Found at i:377178 original size:105 final size:106
Alignment explanation
Indices: 376993--377822 Score: 1007
Period size: 105 Copynumber: 8.0 Consensus size: 106
376983 TTGTTCTGAT
* ** * ** *
376993 TCCAATATCCTCCG-TCGTGAAGTTGAAATTGATTCTGGAACCGGGAAATTGTTTGTTGACAGCC
1 TCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACC
* * * * * *
377057 TGCCGT-CTTTCGTTGTGAAGTTGAACTTGTGCTGTCTTGGA-
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* * * * *
377098 TTCAATATCCTTCGCTGTGAAGTTAAAATTGGTTCCGAAATTGGGAAATTGTTGTTGACAACTAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
* * * *
377163 CCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT-GAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* * * * * * *
377203 TCCTATATCCTTCGCTGTGAAGTT-ACAATCGGTTATGAAATTGGTAAAATATTCGTTGACAACC
1 TCCAATATCCTTCGCTGTGAAGTTGA-AATTGGCTCTGAAATTGGGAAATTGTT-GTTGACAACC
* * *
377267 AGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTT-CAG
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* *
377309 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
377374 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* * * * *
377414 TCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGGCAAACAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
377479 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* * *
377519 TCCAATATCCTTCGTTGTGAAGTTGAACTTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
377584 -GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-TTGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* *
377623 TCCAATGTCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
* * *
377688 CGGTCCCATCATCGTGAAGTTGAACTTACGTTGTC-TGGAG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
* *
377728 TCCAATATCCTTCACTGTGAAGTTGAAATTGGCTC--------CGAAATTGTTGTTGACAACCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
* * *
377785 TC-GTCCCTTCGTTGTGAAGATGAACTTGTGTTGTCTTG
66 -CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
377823 AATGATATCT
Statistics
Matches: 644, Mismatches: 69, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
97 47 0.07
98 3 0.00
104 119 0.18
105 387 0.60
106 87 0.14
107 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGGAG
Found at i:377693 original size:209 final size:210
Alignment explanation
Indices: 376993--377770 Score: 1028
Period size: 209 Copynumber: 3.7 Consensus size: 210
376983 TTGTTCTGAT
* ** * ** *
376993 TCCAATATCCTCCG-TCGTGAAGTTGAAATTGATTCTGGAACCGGGAAATTGTTTGTTGACAGCC
1 TCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACC
* * * * * * *
377057 TGCCGT-CTTTCGTTGTGAAGTTGAACTTGTGCTGTCTTGGA-TTCAATATCCTTCGCTGTGAAG
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAG
* * * * * * *
377120 TTAAAATTGGTTCCGAAATTGGGAAATTGTTGTTGACAACTAGCCGTCCCTTCATTGTGAAGTTG
128 TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
*
377185 AACTTGTGTTGTCTT-GAG
193 AACTTGCGTTGT-TTGGAG
* * * * * * *
377203 TCCTATATCCTTCGCTGTGAAGTT-ACAATCGGTTATGAAATTGGTAAAATATTCGTTGACAACC
1 TCCAATATCCTTCGCTGTGAAGTTGA-AATTGGCTCTGAAATTGGGAAATTGTT-GTTGACAACC
* * **
377267 AGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTTCAGTCCAATATCCTTCGCTGTGAAGT
64 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
377332 TGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
129 TGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
377397 ACTTGCGTTGTCTGGAG
194 ACTTGCGTTGTTTGGAG
* * * * *
377414 TCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTGTTGGCAAACAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
*
377479 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
* *
377544 AACTTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAG-GGTCCCTTCGTCGTGAAGTTGAAC
131 AAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
377608 TTGCGTTGTTTGGAG
196 TTGCGTTGTTTGGAG
* *
377623 TCCAATGTCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAG
1 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
* * * *
377688 CGGTCCCATCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
377753 AAATTGGCTCCGAAATTG
131 AAATTGGCTCCGAAATTG
377771 TTGTTGACAA
Statistics
Matches: 497, Mismatches: 64, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
209 177 0.36
210 160 0.32
211 159 0.32
212 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (210 bp):
TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
AAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTTTGGAG
Found at i:377709 original size:314 final size:316
Alignment explanation
Indices: 377071--377769 Score: 1014
Period size: 314 Copynumber: 2.2 Consensus size: 316
377061 GTCTTTCGTT
* * * * * *
377071 GTGAAGTTGAACTTGTGCTGTCTTGGA-TTCAATATCCTTCGCTGTGAAGTTAAAATTGGTTCCG
1 GTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCG
* * * *
377135 AAATTGGGAAATTGTTGTTGACAACTAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTT
65 AAATTAGGAAATTGTTGTTGACAACTAGCCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
* * *
377200 GAGTCCTATATCCTTCGCTGTGAAGTTACAATCGGTTATGAAATTGGTAAAATATTCGTTGACAA
130 GAGTCCAATATCCTTCGCTGTGAAGTTACAATCGGCTATGAAATTGGGAAAATATTCGTTGACAA
377265 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTTCAGTCCAATATCCTTCGCTGTGAA
195 CCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTTCAGTCCAATATCCTTCGCTGTGAA
* *
377330 GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTC
260 GTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCATCATC
* *
377387 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCTCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGA
* * * *
377452 AATTAGGAAGTTGTTGTTGGCAAAC-AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AATTAGGAAATTGTTGTTGAC-AACTAGCCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
* * * * ** *
377516 GAGTCCAATATCCTTCGTTGTGAAGTTGA-ACTTGGCTCTGAAATTGGGAAGTTGTT-GTTGACA
130 GAGTCCAATATCCTTCGCTGTGAAGTT-ACAATCGGCTATGAAATTGGGAAAATATTCGTTGACA
* * * *
377579 ACCAG-GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT-TTGGAGTCCAATGTCCTTCGCTGTG
194 ACCAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTT-CAGTCCAATATCCTTCGCTGTG
*
377642 AAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCATCATC
258 AAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCATCATC
*
377701 GTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGA
1 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGA
377766 AATT
66 AATT
377770 GTTGTTGACA
Statistics
Matches: 344, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
313 2 0.01
314 173 0.50
315 16 0.05
316 149 0.43
317 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (316 bp):
GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCCGA
AATTAGGAAATTGTTGTTGACAACTAGCCGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGCTGTGAAGTTACAATCGGCTATGAAATTGGGAAAATATTCGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTAAACTTGCATTGTCTTCAGTCCAATATCCTTCGCTGTGAAG
TTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCATCATC
Found at i:389370 original size:2 final size:2
Alignment explanation
Indices: 389317--389350 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
389307 TAATAAGAAT
389317 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
389351 AAAAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:389491 original size:15 final size:15
Alignment explanation
Indices: 389471--389501 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
389461 ATATATAATA
*
389471 ATAATAATAATACAT
1 ATAATAATAAAACAT
389486 ATAATAATAAAACAT
1 ATAATAATAAAACAT
389501 A
1 A
389502 ATATATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAATAATAAAACAT
Found at i:389505 original size:18 final size:18
Alignment explanation
Indices: 389468--389506 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
389458 TATATATATA
*
389468 ATAATAATAATAATACAT
1 ATAATAATAAAAATACAT
389486 ATAATAATAAAACATA-AT
1 ATAATAATAAAA-ATACAT
389504 ATA
1 ATA
389507 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATAATAAAAATACAT
Found at i:389515 original size:21 final size:22
Alignment explanation
Indices: 389431--389518 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 22
389421 AAAATGATGG
*
389431 AATATAGTATAAAAAATAAAACAT
1 AATATA-TAT-AATAATAAAACAT
*
389455 ATGTATATATATAATAATAATA-AT
1 A---ATATATATAATAATAAAACAT
*
389479 AATACATATAATAATAAAACAT
1 AATATATATAATAATAAAACAT
*
389501 AATATATTTAA-AATAAAA
1 AATATATATAATAATAAAA
389519 ATTAAAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
21 23 0.43
22 11 0.20
24 4 0.07
25 8 0.15
26 3 0.06
27 5 0.09
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (22 bp):
AATATATATAATAATAAAACAT
Found at i:395130 original size:2 final size:2
Alignment explanation
Indices: 395123--395151 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
395113 TCAATCTACA
395123 AT AT 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 AT AT A
395152 ATTTAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:395268 original size:85 final size:84
Alignment explanation
Indices: 395171--395405 Score: 253
Period size: 85 Copynumber: 2.8 Consensus size: 84
395161 ATAAAATCAC
* * * * *
395171 GACACACGAATGTGTGTCGTCTTTTTTAATGACTTGTGG-TTTAATGACA-CGCAATGTAAGTCA
1 GACACACAAATGTGTGTCGTCTTATTT-ATGAC-GGGGGCTTCAATGA-AGCGCAATGTAAGTCA
**
395234 TACATGTGTGTCATAAATTTAT
63 TACATGCATGTCATAAATTTAT
** *
395256 GACACACAAATGTGTGTCAAG-CAGATTTATGACGGGGGCTTCAATGAAGCTCAATGTAAGTCAT
1 GACACACAAATGTGTGTC--GTCTTATTTATGACGGGGGCTTCAATGAAGCGCAATGTAAGTCAT
395320 ACATGCATGTCATAAATTTAT
64 ACATGCATGTCATAAATTTAT
* * * *
395341 GACACATAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGAGGCTCAATG-AACGTCAT
1 GACACACAAATGTGTGTCGTCTT-ATTTATGACGGGGGCTTCAATGAAGCGCAATGTAA-GTCAT
395405 A
64 A
395406 AATGTGCATC
Statistics
Matches: 128, Mismatches: 15, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
84 7 0.05
85 116 0.91
86 4 0.03
87 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (84 bp):
GACACACAAATGTGTGTCGTCTTATTTATGACGGGGGCTTCAATGAAGCGCAATGTAAGTCATAC
ATGCATGTCATAAATTTAT
Found at i:395418 original size:85 final size:85
Alignment explanation
Indices: 395222--395421 Score: 266
Period size: 85 Copynumber: 2.4 Consensus size: 85
395212 TAATGACACG
**
395222 CAATGTAAGTCATACATGTGTGTCATAAATTTATGACACACAAATGTGTGTCAAGCAGATTTATG
1 CAATGTAAGTCATACATGTGCATCATAAATTTATGACACACAAATGTGTGTCAAGCAGATTTATG
395287 ACGGGGGCTTCAATGAAGCT
66 ACGGGGGCTTCAATGAAGCT
* *
395307 CAATGTAAGTCATACA--TGCATGTCATAAATTTATGACACATAAATGTGTGTC-ATCTTA-ATT
1 CAATGTAAGTCATACATGTGCA--TCATAAATTTATGACACACAAATGTGTGTCAAGC--AGATT
*
395368 TATGACGGGGGCTTCAATGAGGCT
62 TATGACGGGGGCTTCAATGAAGCT
*
395392 CAATG-AACGTCATAAATGTGCATCATAAAT
1 CAATGTAA-GTCATACATGTGCATCATAAAT
395422 GAGTGTCATA
Statistics
Matches: 102, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
83 2 0.02
84 4 0.04
85 91 0.89
86 1 0.01
87 4 0.04
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (85 bp):
CAATGTAAGTCATACATGTGCATCATAAATTTATGACACACAAATGTGTGTCAAGCAGATTTATG
ACGGGGGCTTCAATGAAGCT
Done.