Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015296.1 Kokia drynarioides strain JFW-HI SEQ_130341, 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: 852674
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 334 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:1846 original size:40 final size:40
Alignment explanation
Indices: 1789--2008 Score: 325
Period size: 40 Copynumber: 5.5 Consensus size: 40
1779 CTGCACAGGT
* * *
1789 TCATATGTCTT-CCTTTTAACAATCTTATGCTCTATCGAT
1 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
*
1828 TCATAAGTCTTCCTTTTTAACAATCTTATGCTCTACCGAG
1 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
*
1868 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAA
1 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
* **
1908 TCATAAGTCTTCCCTTTTAACAATCTTATGCTATACTAAG
1 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
*
1948 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTTCCGAG
1 TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
* * *
1988 TCGTAATTCTTCCTTTTTAAC
1 TCATAAGTCTTCCCTTTTAAC
2009 CATATTCTCA
Statistics
Matches: 163, Mismatches: 17, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 10 0.06
40 153 0.94
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (40 bp):
TCATAAGTCTTCCCTTTTAACAATCTTATGCTCTACCGAG
Found at i:11976 original size:20 final size:20
Alignment explanation
Indices: 11953--12001 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
11943 AGTTGAAATT
*
11953 GGACAACATAGCATATTCGA
1 GGACAACACAGCATATTCGA
11973 GGACAACACAGCATATTCGA
1 GGACAACACAGCATATTCGA
11993 GGACAACAC
1 GGACAACAC
12002 CTAACATTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.14
Consensus pattern (20 bp):
GGACAACACAGCATATTCGA
Found at i:12438 original size:40 final size:40
Alignment explanation
Indices: 12392--12559 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
12382 CATATGTTTT
12392 CCTTTTAACAATCTTATACTCTACCGAGTCATAAGTCTTC
1 CCTTTTAACAATCTTATACTCTACCGAGTCATAAGTCTTC
* * * * *
12432 CTTTTTAACAATCTTATGCT-AACCGAGTAATAAGTCTAC
1 CCTTTTAACAATCTTATACTCTACCGAGTCATAAGTCTTC
* *
12471 CCTTTTAACAATCTTATGC-CGTAACGAGTCATAAGTCTTC
1 CCTTTTAACAATCTTATACTC-TACCGAGTCATAAGTCTTC
*
12511 CCTTTTAACAATCTTATGA-TCTACCGAGTCATAAATCTTC
1 CCTTTTAACAATCTTAT-ACTCTACCGAGTCATAAGTCTTC
*
12551 CTTTTTAAC
1 CCTTTTAAC
12560 CATATTCTCA
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 34 0.31
40 75 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (40 bp):
CCTTTTAACAATCTTATACTCTACCGAGTCATAAGTCTTC
Found at i:12486 original size:79 final size:79
Alignment explanation
Indices: 12392--12559 Score: 232
Period size: 79 Copynumber: 2.1 Consensus size: 79
12382 CATATGTTTT
* *
12392 CCTTTTAACAATCTTATACTC-TACCGAGTCATAAGTCTTCCTTTTTAACAATCTTATG-CTAAC
1 CCTTTTAACAATCTTATAC-CGTAACGAGTCATAAGTCTTCCCTTTTAACAATCTTATGACT-AC
*
12455 CGAGTAATAAGTCTAC
64 CGAGTAATAAATCTAC
*
12471 CCTTTTAACAATCTTATGCCGTAACGAGTCATAAGTCTTCCCTTTTAACAATCTTATGATCTACC
1 CCTTTTAACAATCTTATACCGTAACGAGTCATAAGTCTTCCCTTTTAACAATCTTATGA-CTACC
* *
12536 GAGTCATAAATCTTC
65 GAGTAATAAATCTAC
*
12551 CTTTTTAAC
1 CCTTTTAAC
12560 CATATTCTCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
78 1 0.01
79 53 0.67
80 23 0.29
81 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (79 bp):
CCTTTTAACAATCTTATACCGTAACGAGTCATAAGTCTTCCCTTTTAACAATCTTATGACTACCG
AGTAATAAATCTAC
Found at i:16692 original size:2 final size:2
Alignment explanation
Indices: 16685--16715 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16675 TGTTTATTAT
16685 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
16716 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17129 original size:132 final size:132
Alignment explanation
Indices: 16875--17130 Score: 341
Period size: 132 Copynumber: 1.9 Consensus size: 132
16865 GGATTTTTTT
* ** * * * **
16875 GTTATATGGGTGTTGGTCTTAGATGTCCTACCGATGGTTGAGATCCGGTATGTGTTGTGGATTCT
1 GTTATATGGGTGCTAATCTTAGATGTCCTACCGATGGCTGAGATCCGGCATATGTTACGGATTCT
* * * * * *
16940 TCACAGCTCGTGTGAGCAGCATCGTGTGGCCTAACATCTCGACTCATAGCTCATGTGAGCATTAC
66 CCACAACTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAGCATTAC
17005 AG
131 AG
* *
17007 GTTATATGGGTGCTAATCTTAGATGTCCTACCGATGGCTGAGATCTGGCATATGTTACGGGTTCT
1 GTTATATGGGTGCTAATCTTAGATGTCCTACCGATGGCTGAGATCCGGCATATGTTACGGATTCT
* * *
17072 CCACAACTCATGTGAGCAGCATCGTGTAGCCTAACATCTTGACCCACATCTCGTGTGAG
66 CCACAACTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAG
17131 TAAGCCCATT
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 105 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (132 bp):
GTTATATGGGTGCTAATCTTAGATGTCCTACCGATGGCTGAGATCCGGCATATGTTACGGATTCT
CCACAACTCATGTGAGCAGCATCGTGTAGCCTAACATCTCGACCCACAGCTCATGTGAGCATTAC
AG
Found at i:24370 original size:19 final size:19
Alignment explanation
Indices: 24346--24383 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
24336 CGAAGTGGAG
24346 TTTTTCTTTGT-TTTTTCTC
1 TTTTTCTTT-TCTTTTTCTC
24365 TTTTTCTTTTCTTTTTCTC
1 TTTTTCTTTTCTTTTTCTC
24384 ATTCACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTCTTTTTCTC
Found at i:24556 original size:19 final size:19
Alignment explanation
Indices: 24534--24609 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 19
24524 TTACAGTGTG
*
24534 CCCAACCCGTTAACTTTGA
1 CCCAACCCATTAACTTTGA
*
24553 CCCAACCCATTGACTTTGA
1 CCCAACCCATTAACTTTGA
* *** *
24572 CTCGGTCCATTGACTTTGA
1 CCCAACCCATTAACTTTGA
* *
24591 CCCGACCCATTGACTTTGA
1 CCCAACCCATTAACTTTGA
24610 TCTGACTCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.22, C:0.34, G:0.14, T:0.29
Consensus pattern (19 bp):
CCCAACCCATTAACTTTGA
Found at i:24620 original size:19 final size:18
Alignment explanation
Indices: 24559--24622 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
24549 TTGACCCAAC
* *
24559 CCATTGACTTTGACTCGGT
1 CCATTGACTTTGA-TCCGA
*
24578 CCATTGACTTTGACCCGA
1 CCATTGACTTTGATCCGA
*
24596 CCCATTGACTTTGATCTGA
1 -CCATTGACTTTGATCCGA
24615 CTCATTGA
1 C-CATTGA
24623 TCGTTGACTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 3 0.08
19 35 0.92
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (18 bp):
CCATTGACTTTGATCCGA
Found at i:24621 original size:38 final size:38
Alignment explanation
Indices: 24546--24622 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
24536 CAACCCGTTA
*
24546 ACTTTGACCCAACCCATTGACTTTGACTCGGTCCATTG
1 ACTTTGACCCAACCCATTGACTTTGACTCGGACCATTG
* *
24584 ACTTTGACCCGACCCATTGACTTTGA-TCTGACTCATTG
1 ACTTTGACCCAACCCATTGACTTTGACTCGGAC-CATTG
24622 A
1 A
24623 TCGTTGACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 4 0.11
38 31 0.89
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (38 bp):
ACTTTGACCCAACCCATTGACTTTGACTCGGACCATTG
Found at i:24636 original size:12 final size:12
Alignment explanation
Indices: 24619--24643 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24609 ATCTGACTCA
24619 TTGATCGTTGAC
1 TTGATCGTTGAC
24631 TTGATCGTTGAC
1 TTGATCGTTGAC
24643 T
1 T
24644 GTTGACTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TTGATCGTTGAC
Found at i:24641 original size:19 final size:21
Alignment explanation
Indices: 24619--24662 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
24609 ATCTGACTCA
*
24619 TTGATC-GTTGAC-TTGATCG
1 TTGATCTGTTGACTTTGACCG
24638 TTGA-CTGTTGACTTTGACCG
1 TTGATCTGTTGACTTTGACCG
24658 TTGAT
1 TTGAT
24663 TTTTTTGAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (21 bp):
TTGATCTGTTGACTTTGACCG
Found at i:25388 original size:10 final size:10
Alignment explanation
Indices: 25373--25411 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
25363 GGCCTAGACT
25373 AAAATAAACC
1 AAAATAAACC
25383 AAAAT-AACC
1 AAAATAAACC
25392 AAAATATAACAC
1 AAAATA-AAC-C
25404 AAAATAAA
1 AAAATAAA
25412 TTAAAACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 5 0.19
11 5 0.19
12 7 0.27
ACGTcount: A:0.72, C:0.15, G:0.00, T:0.13
Consensus pattern (10 bp):
AAAATAAACC
Found at i:30100 original size:43 final size:42
Alignment explanation
Indices: 30052--30153 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 42
30042 TTGATGTATA
* * ** *
30052 AATGGAAGACTCATGTCTTGGATTGAGCATGAGAATTTATGTG
1 AATGGAAGACTCATGTCTCGAAACGAGCATGAGAATATAT-TG
* * *
30095 AATGGAAGACTCGTGACTCGAAACGAGCATGAGGATATATTG
1 AATGGAAGACTCATGTCTCGAAACGAGCATGAGAATATATTG
30137 AA-GGAAGACTCATGTCT
1 AATGGAAGACTCATGTCT
30154 AGGGTAGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
41 13 0.27
42 4 0.08
43 32 0.65
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.26
Consensus pattern (42 bp):
AATGGAAGACTCATGTCTCGAAACGAGCATGAGAATATATTG
Found at i:30846 original size:21 final size:21
Alignment explanation
Indices: 30805--30858 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
30795 GGAATTTTTA
30805 GTATCGGTAGAAGCATGACTT
1 GTATCGGTAGAAGCATGACTT
* *
30826 GTTTCGGTAGAAGTTAT-ACTT
1 GTATCGGTAGAAG-CATGACTT
*
30847 GTATCGATAGAA
1 GTATCGGTAGAA
30859 CTATCATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACTT
Found at i:52401 original size:42 final size:42
Alignment explanation
Indices: 52353--52980 Score: 720
Period size: 42 Copynumber: 15.4 Consensus size: 42
52343 TCATTGAAGC
* *
52353 CATCCAATCTCTTACCCCGATCACGAGGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
52395 CATCCAATCTCTTACCCCGACCATGGGGCAGATTGAAGAC-T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
52436 CCATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACAT
1 -CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
52479 CATCCAATCTTTTACCCCGATCATGGGGAAAATTGAAAACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
52521 CATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAG---T
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
52560 CATCCAATCTCTTACCACGATCATGGAGCAGATTGAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
52602 CATCCAATCTCTTACCCCGACCATGGGGAAG-TTAAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
52640 CATCCAATCTCTTAACCCGATAATGGGGCAGATTGAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * *
52682 CATCCAATCTCTTACCCCAACCATGGGGTAGATTGAAG-C--
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
*
52721 CATCCAATCTCTTACCCCGATCATGGGGCAGATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
52763 CATTCAATCTCTTACCCCGATCATAGGGCAAATTAAAGACAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * *
52805 CATCCAATCTCTTACCTCGATCATGGGGCATATTAAAGATAT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* * * * * *
52847 CATCCAATCTCTTACTCTGACCATAGGGCAAATT-AA-A-GT
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
* *
52886 CATCCAATCTCTAACACCGATCATGGGGCAGATTGAAG--A-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
** * *
52925 CATCCAATCTCTTACCCTAAGCAGGGGGCAGATTGAAG--A-
1 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
52964 CATCCAATCTCTTACCC
1 CATCCAATCTCTTACCC
52981 TAACCAGAGG
Statistics
Matches: 505, Mismatches: 67, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
38 27 0.05
39 153 0.30
40 5 0.01
41 8 0.02
42 311 0.62
43 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (42 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACAT
Found at i:52494 original size:84 final size:83
Alignment explanation
Indices: 52345--52980 Score: 691
Period size: 81 Copynumber: 7.8 Consensus size: 83
52335 AACTCGTATC
* * * *
52345 ATTGAAG-C-CATCCAATCTCTTACCCCGATCACGAGGCAGATTGAAGACATCATCCAATCTCTT
1 ATTGAAGACTCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCTT
*
52408 ACCCCGACCATGGGGCAG
66 ACCCCGATCATGGGGCAG
* * *
52426 ATTGAAGACTCCATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACATCATCCAATCTTT
1 ATTGAAGACT-CATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
* *
52491 TACCCCGATCATGGGGAAA
65 TACCCCGATCATGGGGCAG
* * *
52510 ATTGAAAACATCATCCAATCTTTTACCCCGACCATGGGGCAGATTGAAG---TCATCCAATCTCT
1 ATTGAAGAC-TCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
* *
52572 TACCACGATCATGGAGCAG
65 TACCCCGATCATGGGGCAG
* *
52591 ATTGAAGACATCATCCAATCTCTTACCCCGACCATGGGG-AAGTTAAAG-C--CATCCAATCTCT
1 ATTGAAGAC-TCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
* *
52652 TAACCCGATAATGGGGCAG
65 TACCCCGATCATGGGGCAG
* * * *
52671 ATTGAAGATATCATCCAATCTCTTACCCCAACCATGGGGTAGATTGAAG-C--CATCCAATCTCT
1 ATTGAAGA-CTCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
52733 TACCCCGATCATGGGGCAG
65 TACCCCGATCATGGGGCAG
* * * * *
52752 ATTAAAGACATCATTCAATCTCTTACCCCGATCATAGGGCAAATTAAAGACATCATCCAATCTCT
1 ATTGAAGAC-TCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
* *
52817 TACCTCGATCATGGGGCAT
65 TACCCCGATCATGGGGCAG
* * * * * *
52836 ATTAAAGATATCATCCAATCTCTTACTCTGACCATAGGGCAAATT-AA-A-GTCATCCAATCTCT
1 ATTGAAGA-CTCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCT
* *
52898 AACACCGATCATGGGGCAG
65 TACCCCGATCATGGGGCAG
** * * *
52917 ATTGAAGA--CATCCAATCTCTTACCCTAAGCAGGGGGCAGATTGAAG--A-CATCCAATCTCTT
1 ATTGAAGACTCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCTT
52977 ACCC
66 ACCC
52981 TAACCAGAGG
Statistics
Matches: 476, Mismatches: 65, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
78 43 0.09
79 2 0.00
80 69 0.14
81 181 0.38
82 3 0.01
83 2 0.00
84 175 0.37
85 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (83 bp):
ATTGAAGACTCATCCAATCTCTTACCCCGACCATGGGGCAAATTGAAGACATCATCCAATCTCTT
ACCCCGATCATGGGGCAG
Found at i:56120 original size:11 final size:11
Alignment explanation
Indices: 56093--56130 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
56083 TCCTTTTTTA
*
56093 TTTATTTAACCT
1 TTTATTTAA-TT
56105 TTTATTTAATT
1 TTTATTTAATT
56116 TTTA-TTAATT
1 TTTATTTAATT
56126 TTTAT
1 TTTAT
56131 CTACTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTAATT
Found at i:56585 original size:105 final size:109
Alignment explanation
Indices: 56441--56649 Score: 266
Period size: 107 Copynumber: 1.9 Consensus size: 109
56431 GGAGGCAATA
* * * * *
56441 TTCTTTTATTTTAGGGAATTCGAAAATTGTGCCCTAACGTATTGGGTA-TG-ATTTTTCTTTGAA
1 TTCTTTTATTTTAGAGAACTCGAAAATTGTGCCCAAACGTACTGGATATTGTATTTTTCTTTGAA
** *
56504 CCTAAATAATCGAGTATCCTATTTAAAATC-TAAATGTTCGATG
66 CCTAAATAATCGAACATCCTAATTAAAATCATAAATGTTCGATG
* * *
56547 TTCTTTTA-TTTAGAGAACTCGAGAAA-TGTGCTCAAACGTGCTGGATATTGTTTTTTTCTTTGA
1 TTCTTTTATTTTAGAGAACTCGA-AAATTGTGCCCAAACGTACTGGATATTGTATTTTTCTTTGA
56610 ACCTAAATAATCGAACATCCTAATTAAAATCGATAAATGT
65 ACCTAAATAATCGAACATCCTAATTAAAATC-ATAAATGT
56650 CCTTTGTCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
105 28 0.32
106 13 0.15
107 39 0.45
109 7 0.08
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (109 bp):
TTCTTTTATTTTAGAGAACTCGAAAATTGTGCCCAAACGTACTGGATATTGTATTTTTCTTTGAA
CCTAAATAATCGAACATCCTAATTAAAATCATAAATGTTCGATG
Found at i:58755 original size:17 final size:18
Alignment explanation
Indices: 58720--58755 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
58710 AGGGAGTTGC
58720 TTGAATTGTGGAGGGAGG
1 TTGAATTGTGGAGGGAGG
*
58738 TTGATTTGTGGA-GGAGG
1 TTGAATTGTGGAGGGAGG
58755 T
1 T
58756 AGATCCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.33
Consensus pattern (18 bp):
TTGAATTGTGGAGGGAGG
Found at i:62874 original size:3 final size:3
Alignment explanation
Indices: 62868--62905 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
62858 ATATATAAAT
*
62868 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
62906 TTCTAAACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:62957 original size:16 final size:17
Alignment explanation
Indices: 62932--62965 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
62922 AATTTATTTA
*
62932 TTTATTATTAAA-ATAT
1 TTTATAATTAAATATAT
62948 TTTATAATTAAATATAT
1 TTTATAATTAAATATAT
62965 T
1 T
62966 AATTTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTATAATTAAATATAT
Found at i:64326 original size:21 final size:21
Alignment explanation
Indices: 64300--64355 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
64290 AATAGTGCAG
*
64300 ACTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGAGAC
* *
64321 AGTTCTACTGATACAAGAGAC
1 ACTTCTACCGATACAAGAGAC
*
64342 TCTTCTACCGATAC
1 ACTTCTACCGATAC
64356 TAAAAACTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (21 bp):
ACTTCTACCGATACAAGAGAC
Found at i:64364 original size:21 final size:21
Alignment explanation
Indices: 64301--64364 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
64291 ATAGTGCAGA
** *
64301 CTTCTACCGATACAAGTGACA
1 CTTCTACCGATACAAGAAACT
* * *
64322 GTTCTACTGATACAAGAGACT
1 CTTCTACCGATACAAGAAACT
64343 CTTCTACCGATACTAA-AAACT
1 CTTCTACCGATAC-AAGAAACT
64364 C
1 C
64365 CAAAGAGCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (21 bp):
CTTCTACCGATACAAGAAACT
Found at i:81846 original size:29 final size:27
Alignment explanation
Indices: 81814--81868 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
81804 TGTATATTTG
* *
81814 AAATTTAATCTCTTTATTTTTATTTTTAT
1 AAATATAAT-TCTTTACTTTT-TTTTTAT
*
81843 AAATATAATTTTTTACTTTTTTTTTA
1 AAATATAATTCTTTACTTTTTTTTTA
81869 ATTTAGCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 9 0.39
29 8 0.35
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (27 bp):
AAATATAATTCTTTACTTTTTTTTTAT
Found at i:93987 original size:21 final size:20
Alignment explanation
Indices: 93959--94001 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
93949 CACACTTAGG
93959 CTTAGTTTTAGTTAGTTTTT
1 CTTAGTTTTAGTTAGTTTTT
**
93979 CTTATGTTTTCTTTAGTTTTT
1 CTTA-GTTTTAGTTAGTTTTT
94000 CT
1 CT
94002 ATGCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (20 bp):
CTTAGTTTTAGTTAGTTTTT
Found at i:95753 original size:17 final size:18
Alignment explanation
Indices: 95731--95766 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95721 GATATGACCA
*
95731 TAAAAATC-TTTTTCACT
1 TAAAAATCAATTTTCACT
95748 TAAAAATCAATTTTCACT
1 TAAAAATCAATTTTCACT
95766 T
1 T
95767 TGGCATGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAATCAATTTTCACT
Found at i:96808 original size:37 final size:37
Alignment explanation
Indices: 96762--96849 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
96752 AGCGAAGGAG
96762 AAAGAAAGGAGAAGGGTTTCTTCACTTAATAAAAGAA
1 AAAGAAAGGAGAAGGGTTTCTTCACTTAATAAAAGAA
96799 AAAGAAAGGAGAAGGGTTTCTTCACTTAATAAAAGAA
1 AAAGAAAGGAGAAGGGTTTCTTCACTTAATAAAAGAA
96836 AAAGAAAGGAGAAG
1 AAAGAAAGGAGAAG
96850 AGAATAAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (37 bp):
AAAGAAAGGAGAAGGGTTTCTTCACTTAATAAAAGAA
Found at i:101142 original size:43 final size:43
Alignment explanation
Indices: 101094--101193 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 43
101084 GATACAATCG
101094 TGTGACCCTATTTCGA-ACGCACACACAGG-TGGGCACACGACCA
1 TGTGACCCTATTTCGAGAC-CACACACAGGCT-GGCACACGACCA
* * * * **
101137 TGTGACCCAACTTCGAGACCACACACGGGCTGGCACATGGTCA
1 TGTGACCCTATTTCGAGACCACACACAGGCTGGCACACGACCA
*
101180 TGTGCCCCTATTTC
1 TGTGACCCTATTTC
101194 ACAATTTTTC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 43 0.93
44 3 0.07
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (43 bp):
TGTGACCCTATTTCGAGACCACACACAGGCTGGCACACGACCA
Found at i:102234 original size:29 final size:29
Alignment explanation
Indices: 102165--102223 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
102155 TGTGGTAGAG
102165 TATGAAAGGGAATTTTCTCAATTAAGTAA
1 TATGAAAGGGAATTTTCTCAATTAAGTAA
102194 TATGAAAGGGAATTTTCTCAATTAAGTAA
1 TATGAAAGGGAATTTTCTCAATTAAGTAA
102223 T
1 T
102224 TGCGCTAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.36
Consensus pattern (29 bp):
TATGAAAGGGAATTTTCTCAATTAAGTAA
Found at i:103192 original size:4 final size:4
Alignment explanation
Indices: 103183--103225 Score: 59
Period size: 4 Copynumber: 10.2 Consensus size: 4
103173 AAATTTAGTG
*
103183 ATAA ATAA ATAA ATAA ATAA GATAA TATCA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA -ATAA -ATAA ATAA ATAA ATAA A
103226 AATAAAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:103333 original size:15 final size:15
Alignment explanation
Indices: 103313--103361 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
103303 AAGCAAGAAT
103313 ATAAATAACATTAAA
1 ATAAATAACATTAAA
*
103328 ATAAATAA-ATGAACA
1 ATAAATAACATTAA-A
*
103343 ATAAAT-ACAGT-AA
1 ATAAATAACATTAAA
103356 ATAAAT
1 ATAAAT
103362 TTAAATAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.24
14 6 0.21
15 16 0.55
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.24
Consensus pattern (15 bp):
ATAAATAACATTAAA
Found at i:103337 original size:19 final size:18
Alignment explanation
Indices: 103313--103369 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
103303 AAGCAAGAAT
103313 ATAAATAACATTAAAATAA
1 ATAAATAACATT-AAATAA
*
103332 ATAAATGAACAATAAATACA
1 ATAAAT-AACATTAAATA-A
*
103352 GTAAATAA-ATTTAAATAA
1 ATAAATAACA-TTAAATAA
103370 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 19 0.59
20 11 0.34
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (18 bp):
ATAAATAACATTAAATAA
Found at i:103384 original size:34 final size:39
Alignment explanation
Indices: 103314--103385 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 39
103304 AGCAAGAATA
*
103314 TAAATAACATTAAAATAAATAAATGAACAATAAATACAG
1 TAAATAACATTAAAATAAACAAATGAACAATAAATACAG
*
103353 TAAATAA-ATTTAAAT-AACAAAT-AA-AAT-AATACA
1 TAAATAACATTAAAATAAACAAATGAACAATAAATACA
103386 AATAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 6 0.19
35 3 0.10
36 2 0.06
37 6 0.19
38 7 0.23
39 7 0.23
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (39 bp):
TAAATAACATTAAAATAAACAAATGAACAATAAATACAG
Found at i:103544 original size:21 final size:22
Alignment explanation
Indices: 103518--103567 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
103508 TAAAGGTGCG
103518 AATTAAAACAAAAAT-AAATAA
1 AATTAAAACAAAAATAAAATAA
* *
103539 AATT-AAACGAAATTAAAATAA
1 AATTAAAACAAAAATAAAATAA
*
103560 AATAAAAA
1 AATTAAAA
103568 TTTCAAGGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.33
21 13 0.54
22 3 0.12
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AATTAAAACAAAAATAAAATAA
Found at i:105400 original size:98 final size:97
Alignment explanation
Indices: 105117--105480 Score: 496
Period size: 98 Copynumber: 3.7 Consensus size: 97
105107 CTTCAGGAAG
* * * * *
105117 ATAGGATTTGGGTGTGGCTTCACTCCATTCCAATGCAACTTCTATGGAGATTGAGATCTGCTACT
1 ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
* * * *
105182 TATTTTACTCCAATCCTTGCAACTTCAAGGAT
66 TGTTTTAATCCGATCCTTGCATCTTCAAGGAT
* ** * * *
105214 ATAGGATTTGAGGGTGACTTTGCTCCATTCCACT-AAACTTTAGTGGAGATTGAGATCTGCTACT
1 ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
*
105278 TGTTTTAATCTGATCCGTTGCATCTTCAAGGAT
66 TGTTTTAATCCGATCC-TTGCATCTTCAAGGAT
105311 ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
1 ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
* *
105376 TGTTTTAATCCGATCCATTACATCTTCAGGGAT
66 TGTTTTAATCCGATCC-TTGCATCTTCAAGGAT
* * * * *
105409 ATATGATTTGAGTGTGGCTTCACTCCATTCCACTATAACTTCAGTGGAGATTGAGATATGCTACT
1 ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
105474 TGTTTTA
66 TGTTTTA
105481 CTCCTCCCCT
Statistics
Matches: 235, Mismatches: 30, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
96 38 0.16
97 74 0.31
98 123 0.52
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (97 bp):
ATAGGATTTGAGTGTGACTTCACTCCATTCCACTGTAACTTCAATGGAGATTGAGATCTGCTACT
TGTTTTAATCCGATCCTTGCATCTTCAAGGAT
Found at i:106728 original size:35 final size:34
Alignment explanation
Indices: 106682--106756 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
106672 TGTGATATTC
*
106682 AATTTAGGGTTTATTAAATTTTGATTTT-GATTTTT
1 AATTTAAGGTTTATT-AATTTTGATTTTCGA-TTTT
*
106717 AATTTAAGGTTTATTGATTTTGATTTTCGATTTT
1 AATTTAAGGTTTATTAATTTTGATTTTCGATTTT
106751 AATTTA
1 AATTTA
106757 GTGTTATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 21 0.57
35 16 0.43
ACGTcount: A:0.27, C:0.01, G:0.13, T:0.59
Consensus pattern (34 bp):
AATTTAAGGTTTATTAATTTTGATTTTCGATTTT
Found at i:109373 original size:16 final size:16
Alignment explanation
Indices: 109354--109385 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109344 AGAAATTTTT
*
109354 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
109370 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
109386 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:109911 original size:52 final size:52
Alignment explanation
Indices: 109847--110103 Score: 388
Period size: 52 Copynumber: 4.9 Consensus size: 52
109837 TAAATGAAAA
* * *
109847 AGGTCCGATGACTATGTGTTATCATGAGTATATAAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
109899 AGGTCCGGTGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
109951 AGGTCCGATGATTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * * * *
110003 AGGTCTGATAACCATGTGTCATCGTGAGTATATGAATCTTTTACAGAGTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
110055 AGGTCCGATGACTATATGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
110104 TGCCCCTGAA
Statistics
Matches: 182, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 182 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:110428 original size:52 final size:52
Alignment explanation
Indices: 110288--110728 Score: 530
Period size: 52 Copynumber: 8.5 Consensus size: 52
110278 TGAAAAAGTC
* * *
110288 CCGATGACTATGTGTCATGGTGAGTATATGAATCCTTTACGGATTGTGAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* ** *
110340 TCGGCGAC--TGTGTCATCATGAGTATATGAATCCTTTACGGATTATAAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* * * *
110390 CCGATGACTATGTGTCATCGTGAGTATATGAATTCTTTATGGATTAAAATGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* * *
110442 CCGATGTCTATGTGTCATTGTGAGTATATGAATCCTTTATGGATTA-AGAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATA-AGGT
* * * * *
110494 CTGATTAGTATGTGTCATCATGAGTATATGAATCCTTTACGGATTATGAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* * * * * * *
110546 CTGATGATTATGTGTTATCATGAGTATATGAATCTTTTATGGATTATGAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* * *
110598 CCGATAACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
* * * *
110650 CCAATGACAATGTGTCATCGTGAGTATATGGATCCTATTACAGATT-TAAGGT
1 CCGATGACTATGTGTCATCGTGAGTATATGAATCCT-TTACGGATTATAAGGT
*
110702 CCGATGACTTTGTGTCATCGTGAGTAT
1 CCGATGACTATGTGTCATCGTGAGTAT
110729 TAAATGGGAA
Statistics
Matches: 335, Mismatches: 49, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
50 43 0.13
51 1 0.00
52 283 0.84
53 8 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.37
Consensus pattern (52 bp):
CCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATAAGGT
Found at i:113558 original size:52 final size:52
Alignment explanation
Indices: 113445--113796 Score: 463
Period size: 52 Copynumber: 6.7 Consensus size: 52
113435 ATTTCACTTC
* * * *
113445 ATTCATATACTCACGATGACACATAGCCACCGGACCTTATAATCCG-CAAGCG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAG-G
* * * * **
113497 ATTCGTATACTCACGATGACACAGAGTCATCGAACCTCTTAATTTGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAGG
* * * * *
113549 ATCCCTATACTCACGATGACACTTAGTCATTGGACCTTTTTTAATCCGTAAAAG
1 ATTCATATACTCACGATGACACATAGTCATCGGACC--TTTTAATCCGTAAAGG
*
113603 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAGG
*
113655 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAGG
* * *
113707 ATTCATATACTCATGATGACAGATAGTCATCGGACCTTTTAATCCGTAAAAG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAGG
* *
113759 ATTCTTATACTCACGATGACACATAAGTCATCAGACCT
1 ATTCATATACTCACGATGACACAT-AGTCATCGGACCT
113797 CTTCGTTTAT
Statistics
Matches: 264, Mismatches: 32, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
52 204 0.77
53 15 0.06
54 45 0.17
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTTTTAATCCGTAAAGG
Found at i:113734 original size:158 final size:156
Alignment explanation
Indices: 113445--113796 Score: 472
Period size: 158 Copynumber: 2.2 Consensus size: 156
113435 ATTTCACTTC
* * * * *
113445 ATTCATATACTCACGATGACACATAGCCACCGGACCTTATAATCCGCAAGCGATTCGTATACTCA
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTATAATCCGAAAGCGATTCATATACTCA
** * *
113510 CGATGACACAGAGTCATCGAACCTCTTAATTTGTAAAGGATCCCTATACTCACGATGACACTTAG
66 CGATGACACAGAGTCATCGAACCTCTTAATCCGTAAAGGATCCATATACTCACGATGACACATAG
*
113575 TCATTGGACCTTTTTTAATCCGTAAAAG
131 TCATCGGACC--TTTTAATCCGTAAAAG
*
113603 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAG-GATTCATATACTC
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTATAATCCG-AAAGCGATTCATATACTC
** * * * * *
113667 ACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGGATTCATATACTCATGATGACAGATA
65 ACGATGACACAGAGTCATCGAACCTCTTAATCCGTAAAGGATCCATATACTCACGATGACACATA
113732 GTCATCGGACCTTTTAATCCGTAAAAG
130 GTCATCGGACCTTTTAATCCGTAAAAG
* * *
113759 ATTCTTATACTCACGATGACACATAAGTCATCAGACCT
1 ATTCATATACTCACGATGACAC-TTAGTCATCGGACCT
113797 CTTCGTTTAT
Statistics
Matches: 171, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
156 37 0.22
157 13 0.08
158 118 0.69
159 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (156 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTTATAATCCGAAAGCGATTCATATACTCA
CGATGACACAGAGTCATCGAACCTCTTAATCCGTAAAGGATCCATATACTCACGATGACACATAG
TCATCGGACCTTTTAATCCGTAAAAG
Found at i:115553 original size:206 final size:206
Alignment explanation
Indices: 115199--115611 Score: 808
Period size: 206 Copynumber: 2.0 Consensus size: 206
115189 ATCATACTGG
*
115199 AAGCAAGAGATAAACCTATTCTGACCATGATGGAAATAGTAAGGACCAAAATGATGTTGCTTATT
1 AAGCAAGAGATAAACCTATTCTGACCATGATGGAAACAGTAAGGACCAAAATGATGTTGCTTATT
*
115264 CTGAAAAAAGGAATGGAATGTTATGTCCAAAGATTAGGAAAAAGTTGGATGTGAATGCCAAAAAT
66 CTGAAAAAAGGAATGGAATGTTATGTCCAAAGATTAGGAAAAAGTTGGATGTGAATACCAAAAAT
115329 TCTTTGAGGTTAAGTTACCTTAAACCTATTTTGACTTGTATAATGTTTTTTAATATTATTTTGTA
131 TCTTTGAGGTTAAGTTACCTTAAACCTATTTTGACTTGTATAATGTTTTTTAATATTATTTTGTA
115394 TGTTGTTCTTT
196 TGTTGTTCTTT
115405 AAGCAAGAGATAAACCTATTCTGACCATGATGGAAACAGTAAGGACCAAAATGATGTTGCTTATT
1 AAGCAAGAGATAAACCTATTCTGACCATGATGGAAACAGTAAGGACCAAAATGATGTTGCTTATT
115470 CTGAAAAAAGGAATGGAATGTTATGTCCAAAGATTAGGAAAAAGTTGGATGTGAATACCAAAAAT
66 CTGAAAAAAGGAATGGAATGTTATGTCCAAAGATTAGGAAAAAGTTGGATGTGAATACCAAAAAT
115535 TCTTTGAGGTTAAGTTACCTTAAACCTATTTTGACTTGTATAATGTTTTTTAATATTATTTTGTA
131 TCTTTGAGGTTAAGTTACCTTAAACCTATTTTGACTTGTATAATGTTTTTTAATATTATTTTGTA
115600 TGTTGTTCTTT
196 TGTTGTTCTTT
115611 A
1 A
115612 TTTTGTTTTG
Statistics
Matches: 205, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 205 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (206 bp):
AAGCAAGAGATAAACCTATTCTGACCATGATGGAAACAGTAAGGACCAAAATGATGTTGCTTATT
CTGAAAAAAGGAATGGAATGTTATGTCCAAAGATTAGGAAAAAGTTGGATGTGAATACCAAAAAT
TCTTTGAGGTTAAGTTACCTTAAACCTATTTTGACTTGTATAATGTTTTTTAATATTATTTTGTA
TGTTGTTCTTT
Found at i:115629 original size:12 final size:12
Alignment explanation
Indices: 115593--115632 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
115583 TTTAATATTA
115593 TTTTGTATGTTG
1 TTTTGTATGTTG
*
115605 TTCTT-TATTTTG
1 TT-TTGTATGTTG
115617 TTTTGTATGTTG
1 TTTTGTATGTTG
115629 TTTT
1 TTTT
115633 TTAATACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 20 0.83
13 2 0.08
ACGTcount: A:0.07, C:0.03, G:0.17, T:0.72
Consensus pattern (12 bp):
TTTTGTATGTTG
Found at i:115714 original size:12 final size:11
Alignment explanation
Indices: 115660--115717 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
115650 TTTTAACTTG
115660 TATGTTGTG-TT
1 TATGTTG-GCTT
115671 T-TGTTGGCTT
1 TATGTTGGCTT
* *
115681 TATGATGACTT
1 TATGTTGGCTT
*
115692 TATGTTAGCTT
1 TATGTTGGCTT
115703 TAATGTTGGCTT
1 T-ATGTTGGCTT
115715 TAT
1 TAT
115718 AATGGATGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 8 0.21
11 19 0.50
12 10 0.26
ACGTcount: A:0.16, C:0.07, G:0.22, T:0.55
Consensus pattern (11 bp):
TATGTTGGCTT
Found at i:117084 original size:18 final size:18
Alignment explanation
Indices: 117055--117247 Score: 197
Period size: 18 Copynumber: 10.7 Consensus size: 18
117045 CTCTTGCGAT
* *
117055 CCAGTAATGCTCTTATGAG
1 CCAGT-ATGCTCTAACGAG
*
117074 CCAGTATGCTCAAACGAG
1 CCAGTATGCTCTAACGAG
* * * *
117092 CTATTACGCTCTAATGAG
1 CCAGTATGCTCTAACGAG
* * * *
117110 CTAGTATGCTCAAATGAA
1 CCAGTATGCTCTAACGAG
*
117128 CCAGTACGCTCTAACGAG
1 CCAGTATGCTCTAACGAG
117146 CCAGTATGCTCTAACGAG
1 CCAGTATGCTCTAACGAG
* *
117164 CTAGTATGCTCAAACGAG
1 CCAGTATGCTCTAACGAG
* * *
117182 CTAGTATTCTCAAACGAG
1 CCAGTATGCTCTAACGAG
*
117200 CCAGTATGCTCTAAAGAG
1 CCAGTATGCTCTAACGAG
* *
117218 CCAGCATGCTCAAACGAG
1 CCAGTATGCTCTAACGAG
117236 CCAGTATGCTCT
1 CCAGTATGCTCT
117248 TCCTTCTGTG
Statistics
Matches: 144, Mismatches: 30, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
18 139 0.97
19 5 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (18 bp):
CCAGTATGCTCTAACGAG
Found at i:117144 original size:54 final size:54
Alignment explanation
Indices: 117071--117246 Score: 235
Period size: 54 Copynumber: 3.3 Consensus size: 54
117061 ATGCTCTTAT
* * * * *
117071 GAGCCAGTATGCTCAAACGAGCTATTACGCTCTAATGAGCTAGTATGCTCAAAT
1 GAGCCAGTATGCTCAAACGAGCCAGTATGCTCTAAAGAGCTAGTATGCTCAAAC
* * * *
117125 GAACCAGTACGCTCTAACGAGCCAGTATGCTCTAACGAGCTAGTATGCTCAAAC
1 GAGCCAGTATGCTCAAACGAGCCAGTATGCTCTAAAGAGCTAGTATGCTCAAAC
* * * *
117179 GAGCTAGTATTCTCAAACGAGCCAGTATGCTCTAAAGAGCCAGCATGCTCAAAC
1 GAGCCAGTATGCTCAAACGAGCCAGTATGCTCTAAAGAGCTAGTATGCTCAAAC
117233 GAGCCAGTATGCTC
1 GAGCCAGTATGCTC
117247 TTCCTTCTGT
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (54 bp):
GAGCCAGTATGCTCAAACGAGCCAGTATGCTCTAAAGAGCTAGTATGCTCAAAC
Found at i:129854 original size:18 final size:18
Alignment explanation
Indices: 129833--129867 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
129823 CTTACAAGCC
*
129833 AGTATGCTTAAACGAGCA
1 AGTATGCTCAAACGAGCA
129851 AGTATGCTCAAACGAGC
1 AGTATGCTCAAACGAGC
129868 CATTACTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (18 bp):
AGTATGCTCAAACGAGCA
Found at i:130893 original size:62 final size:61
Alignment explanation
Indices: 130803--131001 Score: 184
Period size: 62 Copynumber: 3.4 Consensus size: 61
130793 GCATTTGGTA
* **
130803 ACTCACGATGACACAGAGTCATTAGACCTTTAATCCGTAATAATATTCAATTCTCATTGAAT
1 ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATAA-ATTCAATTCTCATTGAAT
* * **
130865 ACTTACGATGACACATAGTCATCGGACCTCATAATCC---ATAAA--GGA--CTCATT---T
1 ACTCACGATGACACATAGTCATCGGACCT-TTAATCCGTAATAAATTCAATTCTCATTGAAT
* * * *
130917 ACTCACAATGACACATAGTCATCGGACCTTTAATCTGTAATAGGATTCATTTCTCATTGAAT
1 ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATA-AATTCAATTCTCATTGAAT
* *
130979 ACTCACGATAAAACATAGTCATC
1 ACTCACGATGACACATAGTCATC
131002 AAACTTCATA
Statistics
Matches: 107, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
51 5 0.05
52 28 0.26
54 3 0.03
55 7 0.07
57 1 0.01
59 7 0.07
60 4 0.04
62 46 0.43
63 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (61 bp):
ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATAAATTCAATTCTCATTGAAT
Found at i:130967 original size:52 final size:51
Alignment explanation
Indices: 130872--130972 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 51
130862 AATACTTACG
130872 ATGACACATAGTCATCGGACCTCATAATCCATAAAGGACTCATTTACTCACA
1 ATGACACATAGTCATCGGACCTCATAATCCATAAAGGACTCATTT-CTCACA
* ** *
130924 ATGACACATAGTCATCGGACCT-TTAATCTGTAATAGGATTCATTTCTCA
1 ATGACACATAGTCATCGGACCTCATAATCCATAA-AGGACTCATTTCTCA
130973 TTGAATACTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 12 0.27
52 32 0.73
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.30
Consensus pattern (51 bp):
ATGACACATAGTCATCGGACCTCATAATCCATAAAGGACTCATTTCTCACA
Found at i:131011 original size:114 final size:114
Alignment explanation
Indices: 130803--131061 Score: 347
Period size: 114 Copynumber: 2.3 Consensus size: 114
130793 GCATTTGGTA
* ** *
130803 ACTCACGATGACACAGAGTCATTAGACCTTTAATCCGTAATAATATTCAATTCTCATTGAATACT
1 ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATAAGATTCAATTCTCATTGAATACT
* * * ** *
130868 TACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGACTCATTT
66 CACGATAAAACATAGTCATCAAACCTCATAATCCATAAAGGACTCATAT
* * * *
130917 ACTCACAATGACACATAGTCATCGGACCTTTAATCTGTAATAGGATTCATTTCTCATTGAATACT
1 ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATAAGATTCAATTCTCATTGAATACT
* * *
130982 CACGATAAAACATAGTCATCAAACTTCATAATCCGTAAAGGATTCATAT
66 CACGATAAAACATAGTCATCAAACCTCATAATCCATAAAGGACTCATAT
* *
131031 ACTCACGGTGACACATAGTTATCGGACCTTT
1 ACTCACGATGACACATAGTCATCGGACCTTT
131062 TACATTTACA
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
114 125 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (114 bp):
ACTCACGATGACACATAGTCATCGGACCTTTAATCCGTAATAAGATTCAATTCTCATTGAATACT
CACGATAAAACATAGTCATCAAACCTCATAATCCATAAAGGACTCATAT
Found at i:139473 original size:30 final size:29
Alignment explanation
Indices: 139439--139495 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
139429 GCACTAGTGT
* *
139439 TGCAAGCATTCATGTTACGAACAGTGGACC
1 TGCAAACACTCATGTTACGAACA-TGGACC
* *
139469 TGCAAACACTGATGTTGCGAACATGGA
1 TGCAAACACTCATGTTACGAACATGGA
139496 TGAAAGGCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.17
30 19 0.83
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (29 bp):
TGCAAACACTCATGTTACGAACATGGACC
Found at i:159272 original size:24 final size:23
Alignment explanation
Indices: 159243--159301 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
159233 AGTTGTTTCC
159243 TTTCTTTATTTCCTTGTT-TTCTGT
1 TTTCTTTATTTCCTT-TTCTTCT-T
159267 TTTCTTT-TCTTCCTTTTCCTTCTT
1 TTTCTTTAT-TTCCTTTT-CTTCTT
159291 TTTCTTTATTT
1 TTTCTTTATTT
159302 TTTTCGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.10
24 23 0.74
25 5 0.16
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTCTTTATTTCCTTTTCTTCTT
Found at i:168171 original size:12 final size:12
Alignment explanation
Indices: 168154--168181 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
168144 GAAATGAAAT
168154 AAAACAAAAACA
1 AAAACAAAAACA
168166 AAAACAAAAACA
1 AAAACAAAAACA
168178 AAAA
1 AAAA
168182 TATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAACAAAAACA
Found at i:168656 original size:49 final size:47
Alignment explanation
Indices: 168545--168656 Score: 127
Period size: 51 Copynumber: 2.3 Consensus size: 47
168535 TTTTAATTAA
* *
168545 TAAAAAATAACAATGAATGTAAATATTTTTTGAAGTTTTTTTATTTTT
1 TAAAAAATAA-AATAAATATAAATATTTTTTGAAGTTTTTTTATTTTT
* *
168593 TAAAGTAATAAAAATAAATATACTAATTTTTTTTGAA-TTTTTTTATTTTTT
1 TAAA-AAAT-AAAATAAATATA--AATATTTTTTGAAGTTTTTTTA-TTTTT
168644 TAAAAAATAAAAT
1 TAAAAAATAAAAT
168657 GAAAGTAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
48 4 0.07
49 16 0.30
50 13 0.24
51 21 0.39
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (47 bp):
TAAAAAATAAAATAAATATAAATATTTTTTGAAGTTTTTTTATTTTT
Found at i:171287 original size:21 final size:21
Alignment explanation
Indices: 171240--171288 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
171230 AGAATAGTGT
*
171240 ACTTCTATAGATACAAGTGAC
1 ACTTCTATAGATACAAGAGAC
* *
171261 AGTTCTATCGATACAAGAGAC
1 ACTTCTATAGATACAAGAGAC
*
171282 TCTTCTA
1 ACTTCTA
171289 CCAAAACAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (21 bp):
ACTTCTATAGATACAAGAGAC
Found at i:180841 original size:214 final size:215
Alignment explanation
Indices: 180183--182415 Score: 2429
Period size: 215 Copynumber: 10.3 Consensus size: 215
180173 AATTTACGGC
* * * *
180183 TTCCATGCTCGGGAAATTGCAAT-ATTTGGTCTAAATAGTTTATCATTTTGTAAATAACTTTTAG
1 TTCCATGCTCGGGAAATCGC-ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
** *
180247 TCTTCCATTTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCTCGA
65 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTC-CGA
* * * * * *
180312 AATTGTCAAACTTTTA-GAGTACTTTTGTAACTTTGGTTCCTTAAAGTGTTCAAGACGCTCCATT
129 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
180376 CATCAGAGCAATTTTTTAAACA
194 CATTAGAGCAATTTTCTGAACA
* *
180398 TTTCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
*
180463 CTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCCGAA
66 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCT-CCGAA
* ** **
180528 CTTGTAAAACTTTTA-GAGTTCTTTTATAACTTTAGTTCCTTAAAGTATTCTTGACGATCCATTC
130 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* *
180592 ATTAGAGCAATTCTCCGAACA
195 ATTAGAGCAATTTTCTGAACA
* * * *
180613 TTTCTTACT-GGGAAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTT-G
1 TTCCATGCTCGGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * *
180676 TCTTTGAATTAAAAACTTATTTGCGTGAGAATTGTTTCTCTCTAGGTTCCTGGACGATCTCCTGA
65 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCC-GA
* * * * *
180741 GCTTGTCAAACTTTTACAAGTTCTTTTATAACTTTGGTTCCATAAAGTATTCAAGACAATCCATT
129 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* *
180806 CCTT-GAG-AATTTTCTAAACA
194 CATTAGAGCAATTTTCTGAACA
* * *
180826 TTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACCACTTTTGGA
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
180891 CTTTGAATTAAAAACTTATTTACTTGAGAAATGTTTCTCTCTTAGTTCTTGGACGATCTCCGAAC
66 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCGAAC
* * * *
180956 TTGTCAATCTTTTA-GAGTTCTTTTATAACTACGGTTCCTGAAAGAATTCAAGACGATCCATTCA
131 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCA
*
181020 TTAGAGTAATTTT-TCGAACA
196 TTAGAGCAATTTTCT-GAACA
* * * * *
181040 TTCCCTACTCGGGAAATTGCATTATTTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
181105 CTTTTAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCCAAA
66 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCT-CCGAA
* ** *
181170 CTTGTCAAACTTTTACGACTTCTTTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTC
130 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* * *
181235 CTTCGAGCAATTTTCTAAACA
195 ATTAGAGCAATTTTCTGAACA
* * * * *
181256 TTCCAAGCTTGGGAAAATTTTCAAACATTCCAAGCTTGGGAAATCACATCATTTGGTCTAAATAA
1 TTCCATGCTCGGG-AAA---TC--GCA-T-C-A--TTTGG--------TC---T-----AAATAG
* *
181321 TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCT
39 TTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * *
181386 CTATTGGTTCTTGGACAAATTTTCGAACTTTTCAAACTTTTAAGAGTTCTTTTATAACTTCGATT
104 CTCTTGGTTCTTGGAC-GATCTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
* * * * *
181451 CCATAAAGTATTCAAGACGATCCACTCCTTCGAGTAATTTT-TCGAACA
168 CCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAATTTTCT-GAACA
* * * *
181499 TTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATATTTTGTCATTTTTTAAACAACTTTTTGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
181564 GTTTGAATTCAAAGAACTTATTTAAGTGAGAATTGTTTGTCTCTTGGTTCTTGGACGAAAT-TCC
66 CTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG--ATCTCC
* * * *
181628 GAACCTGTCTAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCA
127 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * * *
181693 TTCCTTCGAGCAATTTTTTGACCC
192 TTCATTAGAGCAATTTTCTGAACA
* ** * * * * *
181717 TTCCTTGCTCGAAAAATCACATCATTTGGTGTAAATAGTTTGTAATTTTGTAAATAAGTTTTTTG
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA--CTTTTG
* * * *
181782 GTCTTTCG-ATTAAAAACTTATTTATGTGAGAATTGTTTGTCTCTTGGTTCTAGGACGAAAT-TT
64 GTCTTT-GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG--ATCTC
* * * * * * * * * *
181845 CGAACCTATCTAACTTTTACAACTTTTTTTAAAACTTCGGTTCCTTAAAGCATTCAAGATGATTC
126 CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* *
181910 ATTCTTTAGAGCAA-TTT-TGCACCA
191 ATTCATTAGAGCAATTTTCTG-AACA
* * *
181934 TTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* ** * * *
181999 CATTGAATTAAAAAAAAATATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCG
66 CTTTGAATT--AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATC-TCCG
* * *
182064 AACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGATGATCCAT
128 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * *
182128 TCATTCGAGAAATTTTTTGAACA
193 TCATTAGAGCAATTTTCTGAACA
* * * *
182151 TTCCA----AGGGAAATCACATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAAGTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
182212 CTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGACGAACTTTCGAA
66 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATC-TCCGAA
* * **
182277 CTTGTCAAACTTTTACAATTTCTTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCATTC
130 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* *
182342 ATTAGAGCATTTTTCCGAACA
195 ATTAGAGCAATTTTCTGAACA
* * * * *
182363 TTCCTTGCTCGAGAAATCACATAATTTGGTTTAAATAGTTTGTCATTTT-TAAA
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
182416 AGTTTTGTTT
Statistics
Matches: 1717, Mismatches: 238, Indels: 126
0.83 0.11 0.06
Matches are distributed among these distances:
211 63 0.04
212 107 0.06
213 145 0.08
214 262 0.15
215 321 0.19
216 190 0.11
217 128 0.07
218 279 0.16
219 6 0.00
220 13 0.01
221 2 0.00
222 2 0.00
223 1 0.00
224 2 0.00
225 1 0.00
227 3 0.00
232 4 0.00
234 1 0.00
235 3 0.00
236 1 0.00
237 2 0.00
238 1 0.00
239 2 0.00
242 4 0.00
243 171 0.10
244 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (215 bp):
TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCGAAC
TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCA
TTAGAGCAATTTTCTGAACA
Found at i:181116 original size:428 final size:429
Alignment explanation
Indices: 180183--182415 Score: 2571
Period size: 428 Copynumber: 5.1 Consensus size: 429
180173 AATTTACGGC
* * * *
180183 TTCCATGCTCGGGAAATTGCAAT-ATTTGGTCTAAATAGTTTATCATTTTGTAAATAACTTTTAG
1 TTCCATGCTCGGGAAATCGC-ATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
** * *
180247 TCTTCCATTTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCTCGA
65 TCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTC-CGA
* * * * *
180312 AATTGTCAAACTTTTA-GAGTACTTTTGTAACTTTGGTTCCTTAAAGTGTTCAAGACGCTCCATT
129 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATT
* * **
180376 -CATCAGAGCAATTTTTTAAACATTTCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTG
194 CCTTC-GAGCAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTG
180440 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCT
258 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCT
* * **
180505 TGGTTCTTGGACGATCTCCCGAACTTGTAAAACTTTTAGAGTTCTTTTATAACTTTAGTTCCTTA
323 TGGTTCTTGGACGATCT-TCGAACTTGTCAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTA
** * *
180570 AAGTATTCTTGACGATCCATTCATTAGAGCAATTCTCCGAACA
387 AAGTATTCAAGACGATCCATTCATTAGAGCAATTTTTCGAACA
* * * *
180613 TTTCTTACT-GGGAAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTT-G
1 TTCCATGCTCGGG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
** * *
180676 TCTTTGAATTAAAAACTTATTTGCGTGAGAATTGTTTCTCTCTAGGTTCCTGGACGATCTCCTGA
65 TCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCC-GA
* * * *
180741 GCTTGTCAAACTTTTACAAGTTCTTTTATAACTTTGGTTCCATAAAGTATTCAAGACAATCCATT
129 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
180806 CCTT-GAG-AATTTTCTAAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGT
194 CCTTCGAGCAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGT
* * *
180869 CATTTTGTAAACCACTTTTGGACTTTGAATTAAAAACTTATTTACTTGAGAAATGTTTCTCTCTT
259 CATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTT
* * * * *
180934 AGTTCTTGGACGATCTCCGAACTTGTCAATCTTTTAGAGTTCTTTTATAACTACGGTTCCTGAAA
324 GGTTCTTGGACGATCTTCGAACTTGTCAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAA
* *
180999 GAATTCAAGACGATCCATTCATTAGAGTAATTTTTCGAACA
389 GTATTCAAGACGATCCATTCATTAGAGCAATTTTTCGAACA
* * * * *
181040 TTCCCTACTCGGGAAATTGCATTATTTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* *
181105 CTTTTAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCCAAA
66 CTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCT-CCGAA
* *** *
181170 CTTGTCAAACTTTTACGACTTCTTTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTC
130 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTC
*
181235 CTTCGAGCAATTTTCTAAACATTCCAAGCTTGGGAAAATTTTCAAACATTCCAAGCTTGGGAAAT
195 CTTCGAGCAATTTTTTAAACATTCC-A---T--G------------C--T-----C--GGGAAAT
* *
181300 CACATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTT
233 CACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTT
* * * * *
181365 ATTTACATGAGAATTGTTTCTCTATTGGTTCTTGGACAAATTTTCGAACTTTTCAAACTTTTAAG
298 ATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGAC-GATCTTCGAACTTGTCAAACTTTT-AG
* * * * * *
181430 AGTTCTTTTATAACTTCGATTCCATAAAGTATTCAAGACGATCCACTCCTTCGAGTAATTTTTCG
361 AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAATTTTTCG
181495 AACA
426 AACA
* * * *
181499 TTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATATTTTGTCATTTTTTAAACAACTTTTTGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* *
181564 GTTTGAATTCAAAGAACTTATTTAAGTGAGAATTGTTTGTCTCTTGGTTCTTGGACGAAAT-TCC
66 CTTTGAATT-AAA-AACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG--ATCTCC
* * *
181628 GAACCTGTCTAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCA
127 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCA
* * * * ** *
181693 TTCCTTCGAGCAATTTTTTGACCCTTCCTTGCTCGAAAAATCACATCATTTGGTGTAAATAGTTT
192 TTCCTTCGAGCAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTT
* * * *
181758 GTAATTTTGTAAATAAGTTTTTTGGTCTTTCG-ATTAAAAACTTATTTA-TGTGAGAATTGTTTG
257 GTCATTTTGTAAACAA--CTTTTGGTCTTT-GAATTAAAAACTTATTTACT-TGAGAATTGTTTC
* * * * * * * *
181821 TCTCTTGGTTCTAGGACGAAAT-TTCGAACCTATCTAACTTTTACAACTTTTTTTAAAACTTCGG
318 TCTCTTGGTTCTTGGACG--ATCTTCGAACTTGTCAAACTTTTA-GAGTTCTTTTATAACTTCGG
* * * * * *
181885 TTCCTTAAAGCATTCAAGATGATTCATTCTTTAGAGCAATTTTGC-ACCA
380 TTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAATTTTTCGAACA
* * *
181934 TTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* ** * * *
181999 CATTGAATTAAAAAAAAATATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGACAAACTTCCG
66 CTTTGAATT--AAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATC-TCCG
* * * *
182064 AACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGATGATCCAT
128 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * *
182128 TCATTCGAGAAATTTTTTGAACATTCCA----AGGGAAATCACATCATTTGGTCTAAATTGTTTG
193 TCCTTCGAGCAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTG
* * *
182189 TCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA-TGTGAGAATTGTTTCTTTG
258 TCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACT-TGAGAATTGTTTCTCTC
* * *
182253 TTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACAATTTCTTTTATAACTTCGGTTCCT
322 TTGGTTCTTGGACGATC-TTCGAACTTGTCAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCT
**
182318 TAAAGTATTCTTGACGATCCATTCATTAGAGC-ATTTTTCCGAACA
385 TAAAGTATTCAAGACGATCCATTCATTAGAGCAATTTTT-CGAACA
* * * * *
182363 TTCCTTGCTCGAGAAATCACATAATTTGGTTTAAATAGTTTGTCATTTT-TAAA
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
182416 AGTTTTGTTT
Statistics
Matches: 1545, Mismatches: 200, Indels: 118
0.83 0.11 0.06
Matches are distributed among these distances:
426 1 0.00
427 136 0.09
428 380 0.25
429 131 0.08
430 147 0.10
431 3 0.00
433 1 0.00
434 110 0.07
435 125 0.08
436 127 0.08
437 3 0.00
441 1 0.00
443 1 0.00
448 1 0.00
450 1 0.00
455 1 0.00
457 101 0.07
458 19 0.01
459 126 0.08
460 3 0.00
461 124 0.08
462 1 0.00
463 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (429 bp):
TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
CTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCGAAC
TTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCATTCC
TTCGAGCAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCA
TTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGG
TTCTTGGACGATCTTCGAACTTGTCAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
ATTCAAGACGATCCATTCATTAGAGCAATTTTTCGAACA
Found at i:181284 original size:27 final size:28
Alignment explanation
Indices: 181243--181298 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
181233 TCCTTCGAGC
181243 AATTTTCTAAACATTCCAAGCTTGGGAA
1 AATTTTCTAAACATTCCAAGCTTGGGAA
181271 AATTTTC-AAACATTCCAAGCTTGGGAA
1 AATTTTCTAAACATTCCAAGCTTGGGAA
181298 A
1 A
181299 TCACATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (28 bp):
AATTTTCTAAACATTCCAAGCTTGGGAA
Found at i:181464 original size:243 final size:243
Alignment explanation
Indices: 181063--181514 Score: 685
Period size: 243 Copynumber: 1.9 Consensus size: 243
181053 AAATTGCATT
* * *
181063 ATTTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTTAATTAAAAACTTATTTAA
1 ATTTGGTCTAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAA
* * *
181128 GTGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCCAAACTTGTCAAACTTTTACGACTTCT
66 GTGAGAATTGTTTCTCTATTGGTTCTTGGACAATCTCCCAAACTTGTCAAACTTTTAAGACTTCT
* *
181193 TTTATAACTTCAATTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAA-TTTTCTAAACAT
131 TTTATAACTTCAATTCCATAAAGTATTCAAGACAATCCACTCCTTCGAGCAATTTTTC-AAACAT
181257 TCCAAGCTTGGGAAAATTTTCAAACATTCCAAGCTTGGGAAATCACATC
195 TCCAAGCTTGGGAAAATTTTCAAACATTCCAAGCTTGGGAAATCACATC
*
181306 ATTTGGTCTAAATAATTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAC
1 ATTTGGTCTAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA-
** * * *
181371 A-TGAGAATTGTTTCTCTATTGGTTCTTGGACAAAT-TTTCGAACTTTTCAAACTTTTAAGAGTT
65 AGTGAGAATTGTTTCTCTATTGGTTCTTGGAC-AATCTCCCAAACTTGTCAAACTTTTAAGACTT
* * * *
181434 CTTTTATAACTTCGATTCCATAAAGTATTCAAGACGATCCACTCCTTCGAGTAATTTTTCGAACA
129 CTTTTATAACTTCAATTCCATAAAGTATTCAAGACAATCCACTCCTTCGAGCAATTTTTCAAACA
*
181499 TTCCATGCTTGGGAAA
194 TTCCAAGCTTGGGAAA
181515 TCGCATCATT
Statistics
Matches: 187, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
243 179 0.96
244 8 0.04
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (243 bp):
ATTTGGTCTAAATAATTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAA
GTGAGAATTGTTTCTCTATTGGTTCTTGGACAATCTCCCAAACTTGTCAAACTTTTAAGACTTCT
TTTATAACTTCAATTCCATAAAGTATTCAAGACAATCCACTCCTTCGAGCAATTTTTCAAACATT
CCAAGCTTGGGAAAATTTTCAAACATTCCAAGCTTGGGAAATCACATC
Found at i:181678 original size:218 final size:216
Alignment explanation
Indices: 181273--182415 Score: 1351
Period size: 218 Copynumber: 5.3 Consensus size: 216
181263 CTTGGGAAAA
* * * * *
181273 TTTTCAAACATTCCAAGCTTGGGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGTAAAC
1 TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATATTTTGTCATTTTGTAAAC
* *
181338 AAGTTTTGGTCTTTGAATTAAAAACTTATTTACA-TGAGAATTGTTTCTCTATTGGTTCTTGGAC
66 AACTTTTGGTCTTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * *
181402 -AAATTTTCGAACTTTTCAAACTTTTAAGAGTTCTTTTATAACTTCGATTCCATAAAGTATTCAA
130 GAAA-TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * *
181466 GACGATCCACTCCTTCGAGTAAT
194 GATGATCCATTCATTCGAGCAAT
* * * *
181489 TTTTCGAACATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATATTTTGTCATTTTTTAAAC
1 TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATATTTTGTCATTTTGTAAAC
* * *
181554 AACTTTTTGTGTTTGAATTCAAAGAACTTATTTAAGTGAGAATTGTTTGTCTCTTGGTTCTTGGA
66 AACTTTTGGTCTTTGAATT-AAA-AACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * *
181619 CGAAATTCCGAACCTGTCTAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAA
129 CGAAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
*
181684 GATGATCCATTCCTTCGAGCAAT
194 GATGATCCATTCATTCGAGCAAT
* * * * * * * * *
181707 TTTTTGACCCTTCCTTGCTCGAAAAATCACATCATTTGGTGTAAATAGTTTGTAATTTTGTAAAT
1 TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATATTTTGTCATTTTGTAAAC
* * * *
181772 AAGTTTTTTGGTCTTTCG-ATTAAAAACTTATTTATGTGAGAATTGTTTGTCTCTTGGTTCTAGG
66 AA--CTTTTGGTCTTT-GAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * * * * * *
181836 ACGAAATTTCGAACCTATCTAACTTTTACAACTTTTTTTAAAACTTCGGTTCCTTAAAGCATTCA
128 ACGAAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* * *
181901 AGATGATTCATTCTTTAGAGCAAT
193 AGATGATCCATTCATTCGAGCAAT
* * * *
181925 TTTGC-ACCATTTCATGCTCGAGAAATCGCATCATTTGGTCTAAAT-TGTTTGTCATTTTGTAAA
1 TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAT-TTTGTCATTTTGTAAA
* ** *
181988 CAACTTTTGGTCATTGAATTAAAAAAAAATATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGG
65 CAACTTTTGGTCTTTGAATT--AAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* * *
182053 AC-AAACTTCCGAACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTC
128 ACGAAA-TTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC
*
182116 AAGATGATCCATTCATTCGAGAAAT
192 AAGATGATCCATTCATTCGAGCAAT
* *
182141 TTTTTGAACATTCCAAG---G-GAAATCACATCATTTGGTCTAAAT-TGTTTGTCATTTTGTAAA
1 TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAT-TTTGTCATTTTGTAAA
* * * *
182201 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGAC
65 CAACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * **
182266 GAACTTTCGAACTTGTCAAACTTTTACAATTTCTTTTATAACTTCGGTTCCTTAAAGTATTCTTG
130 GAAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* *
182331 ACGATCCATTCATTAGAGC-AT
195 ATGATCCATTCATTCGAGCAAT
* * * *
182352 TTTTCCGAACATTCCTTGCTCGAGAAATCACATAATTTGGTTTAAATAGTTTGTCATTTT-TAAA
1 TTTT-CGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATATTTTGTCATTTTGTAAA
182416 AGTTTTGTTT
Statistics
Matches: 793, Mismatches: 113, Indels: 43
0.84 0.12 0.05
Matches are distributed among these distances:
211 66 0.08
212 61 0.08
213 59 0.07
214 2 0.00
215 18 0.02
216 165 0.21
217 120 0.15
218 283 0.36
219 6 0.01
220 12 0.02
221 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (216 bp):
TTTTCGAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATATTTTGTCATTTTGTAAAC
AACTTTTGGTCTTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
AAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA
TGATCCATTCATTCGAGCAAT
Found at i:183738 original size:216 final size:216
Alignment explanation
Indices: 182728--184640 Score: 2062
Period size: 215 Copynumber: 8.9 Consensus size: 216
182718 TTTCACGCTT
* * ** *
182728 GGGAAATCACATCATTTGGTCTAAATAGTTTATCATTTTGTAAACAACTTTCAGTCTTT-CATTC
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-
* * *
182792 AAAAACTTATTTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGACG-A-TATCTCAAACTTGT-A
65 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT-TC-CGAACTTGTCT
** * * * *
182854 AAACTTTTA-GAGTTCTTTGGTTACTTTGGTTCCTTAAAGTATCCAAGACGATCCATT-CATCAG
128 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTC-G
182917 AGCAATTTTTCGAACATTCCATGCTC
192 AGCAA-TTTTCGAACATTCCATGCTC
* * *
182943 GGGAAATCGTATCATTTAGTCTAAATAGTTTGTCATTTTGTAAACCACTTTTGGTCTTTGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * * *
183008 AAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTCCTTGGACAAACTTCCAAATTTGT-AAAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTAAA
* ** *
183072 CTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGACGATCCATTCAATCGAGAA
131 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
*
183136 ATTTTCCGAACAATT-CAAGCTC
196 ATTTT-CGAAC-ATTCCATGCTC
* * * * * *
183158 GAGAAATCACATCATTTGGTGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * *
183223 AAACACTTATTTACATGAGAATTGTTTCTCTATTGGTTCTTGGATGAACTTCCGAACTTGTC-AA
66 AAA-ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTAA
* * *
183287 ACTTTTACGAGTTCTTTTATAACTT--GTTCCTTAAAGTATTCAAGATGATCCACTCCTTTGAGC
130 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* **
183350 AAATTTCCGAACATTCCACACTC
195 -AATTTTCGAACATTCCATGCTC
** * * * * * * * *
183373 GGGAAATCAAATCATTGGGTCTAAAAAG--TGACATTTCGTAAACAAGTTTTTGTTTTTTTAATT
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATT
* * * *
183436 AAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCGGAACTTGT-T
65 AAA--AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCT
* *
183500 AAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGA
128 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
* * *
183565 ACAATTTATCGAGCACTCCATGCTC
193 GCAATTT-TCGAACATTCCATGCTC
* * *
183590 TGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGTCTTCGAATTA
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * * *
183655 AAATCTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATCTCCCGAACGTATCTAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACTTCCGAACTTGTCTAA
* ** ** * *
183719 A-TTTTACGGGTAATTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCATTCATT-AAGG
130 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA-G
* *
183782 CAATTTTTCTAACATTCCTTGCTC
194 CAA-TTTTCGAACATTCCATGCTC
* * * * *
183806 GGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTTAGACTTTGAATTG
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* * * *
183871 AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGATCTCCCGAACTTGT-AAAA
66 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTAAA
* * *
183935 CTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCA
131 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
*
184000 ATTTTCTAAACATTCCATGCTC
196 ATTTTC-GAACATTCCATGCTC
** * * * * *
184022 GAAAAATCG---CATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGAT
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTT-TGGTCTTTGAAT
* * * *** *
184084 TAAAAACTTATTTACGTGAGAATTGTCTGTCTCTTGGTTCTTGGACGAAATTTAAAACTTGT-TT
64 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTA
* * * * *
184148 AACTTTTACGAGTTCTTTTATAACTTCGATTCCTTGAAGTATGCAAGATGATCCACTCCTTCGAG
129 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
*
184213 TAATTTTCCGAACA-TCCAATGCTC
194 CAATTTT-CGAACATTCC-ATGCTC
* * * *
184237 GGGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTTGTGTTTGAATTC
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-
* * * * *
184302 AAAGAACTTATTTACATGAGAATTGTTTGTCTCATGGTTCTTGGACGAAATTTCGAACTTGTCT-
65 AAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTA
* * *
184366 ATCTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGGCGATCCATTCCTTCGAG
129 AACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAG
* * *
184431 CAATTATTCGACCCTTCCTTGCTC
194 CAATT-TTCGAACATTCCATGCTC
** * * * * * **
184455 GAAAAATCACATCATTTGGTCTAAATAGTTTGTAATTTTGTTAATAAGTTTTTTGGTCTTTCCAT
1 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA--CTTTTGGTCTTTGAAT
* * * * ** *
184520 TAAAAACTTATTTACGAGAGAATTGTTTGTCTCTTGGTT-TTAGGATGAAATTTTGAACCTGTCT
64 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCCGAACTTGTCT
* * * * *
184584 -AACTTTTACAACTTTTTTTATAACATCGGTTCCTTAAAGCATTCAAGACGATCCATT
128 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
184641 TGGTCTAAAT
Statistics
Matches: 1438, Mismatches: 217, Indels: 83
0.83 0.12 0.05
Matches are distributed among these distances:
213 45 0.03
214 29 0.02
215 523 0.36
216 390 0.27
217 106 0.07
218 309 0.21
219 24 0.02
220 12 0.01
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (216 bp):
GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCTAAA
CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTCGAACATTCCATGCTC
Found at i:184094 original size:647 final size:643
Alignment explanation
Indices: 182740--187806 Score: 2937
Period size: 647 Copynumber: 7.7 Consensus size: 643
182730 GAAATCACAT
* * * *
182740 CATTTGGTCTAAATAGTTTATCATTTTGTAAACAA-CTTTC-AGTCTTT-CATTCAAAAACTTAT
1 CATTTGGTCTAAATAG-TTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATT-AAAAACTTAT
* * * *
182802 TTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGACGATA-TCTC-AAACTTGTAAAACTTTTA-G
64 TTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGA-ACT-TCGGAACTTGTTAAACTTTTACG
** * * * ** *
182864 AGTTCTTTGGTTACTTTGGTTCCTTAAAGTATCCAAGACGATCCATTCATCAGAGCAATTTTTCG
127 AGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAACAA-TTTTCG
* * *
182929 AACATTCCATGCTCGGGAAATCGTATCATTTAGTCTAAATAGTTTGTCATTTTGTAAACCACTTT
191 AACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTT
* * *
182994 TGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTCCTTGGACAAACTTC
256 TGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
* * *
183059 C-AA-ATTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGACGATC
321 CGAACATATCT-AAA-TTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATC
* * * * ** *
183122 CATTCAATCGAGAAATTTTCCGAACAATT-CAAGCTCGAGAAATCACATCATTTGGTGTAAATAG
384 CATTCATTAGAGCAATTTTTCGAAC-ATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATAG
* * * *
183186 TTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAAAAACACTTATTTACATGAGAATTGTTTC
448 TTTGTCATTTTGTAAAAAACTTTTGGTCTTTGAATTAAAA-ACTTATTTACATGAGAATTGTTTC
*
183251 TCTATTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC-TTGTT
512 TCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGTT
* * * * ** ** **
183315 CCTTAAAGTATTCAAGATGATCCACTCCTTTGAGCAAATTTCCGAACATTCCACACTCGGGAAAT
577 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAAT
*
183380 CAAAT
642 C---G
* * * * * * *
183385 CATTGGGTCTAAAAAG-TGACATTTCGTAAACAAGTTTT-TGTTTTTTTAATTAAAGGAACTTAT
1 CATTTGGTCTAAATAGTTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAA--AACTTAT
* *
183448 TTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCGGAACTTGTTAAACTTTTACGAG
64 TTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGGAACTTGTTAAACTTTTACGAG
* * *
183513 TTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAACAATTTATCGAG
129 TTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAACAATTT-TCGAA
* * *
183578 CACTCCATGCTCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTA
193 CATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTG
* * * *
183643 GTCTTCGAATTAAAATCTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATCTCCC
258 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACTTCC
* * ** **
183707 GAACGTATCTAAATTTTACGGGTAATTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCA
322 GAACATATCTAAATTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * *
183772 TTCATTA-AGGCAATTTTTCTAACATTCCTTGCTCGGGAAATCGCATCATTTTGTCTAAATAGTT
386 TTCATTAGA-GCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATAGTT
* * *
183836 TGTCATTTTGTAAAAAACTTTTAGACTTTGAATTGAAAACTTATTTACATGAGAATTGTTTCTCT
450 TGTCATTTTGTAAAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCT
* * * * *
183901 CTTGGTTCTTGGACGATCTCCCGAACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCC
515 CTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTT-GTTCC
*
183966 TTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAATCG
579 TTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAATCG
* * * *
184031 CATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGATTAAAAACTTATT
1 CATTTGGTCTAAATAG-TTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAAAACTTATT
* * * * *** *
184096 TACGTGAGAATTGTCTGTCTCTTGGTTCTTGGACGAAATTTAAAACTTGTTTAACTTTTACGAGT
65 TACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGGAACTTGTTAAACTTTTACGAGT
* * * * * * * **
184161 TCTTTTATAACTTCGATTCCTTGAAGTATGCAAGATGATCCACTCCTTCGAGTAATTTTCCGAAC
130 TCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAACAATTTT-CGAAC
* * *
184226 A-TCCAATGCTCGGGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTT
194 ATTCC-ATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTG
* * * * * *
184290 GTGTTTGAATTCAAAGAACTTATTTACATGAGAATTGTTTGTCTCATGGTTCTTGGACGAAATTT
258 GTCTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
* * ** * *
184355 CGAACTTGTCTATCTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGGCGATCC
321 CGAACATATCTAAATTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* * * * * *
184420 ATTCCTTCGAGCAATTATTCGACCCTTCCTTGCTCGAAAAATCACATCATTTGGTCTAAATAGTT
385 ATTCATTAGAGCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATAGTT
* *** ** *
184485 TGTAATTTTGTTAATAAGTTTTTTGGTCTTTCCATTAAAAACTTATTTACGA-GAGAATTGTTTG
450 TGTCATTTTG-TAA-AAAACTTTTGGTCTTTGAATTAAAAACTTATTTAC-ATGAGAATTGTTTC
* ** * * * * * **
184549 TCTCTTGGTT-TTAGGATGAAATTTTGAACCTGTCTAACTTTTACAACTTTTTTTATAACATCGG
512 TCTCTTGGTTCTT-GGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC-TTTG
* *** * ** *
184613 TTCCTTAAAGCATTCAAGACGATCCATTTGGTCTA--AATTGTT-T-GTCATT--TTG-T--AAA
575 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT-TTCTAAACATTCCATGCTCGAAA
184669 CAA---
639 -AATCG
* * *** * * * * * *
184672 CTTTTGGTCTTTGAATTAAAAAAGT-ATTTACGT-GAGAATTGTTTCT-CTC-TTG-GTT-----
1 CATTTGGTC--T-AA--ATAGTTGTCATTT-TGTAAACAAGT-TTTCTGGTCTTTGAATTAAAAA
*** ** **** * ** * ** *
184727 CTTGGACGAACTTCCGAACTTGTAAAACTTTTAGAGTTCTTTTA-TAACTTCGG---TTCCCTAG
59 CTT--ATTTACTTGAGAA-TTGTTTCTCTCTT-G-GTTCTTGGACGAACTTCGGAACTT-GTTAA
* * * * ** * ** * * *
184788 AGTATTCAAGATGATC-CAT-TCA-TTCGAGAAATTTTTTGAA-CATTCGAAGGGA-AATCACA-
118 ACT-TTTACGA-GTTCTTTTATAACTTCG-G---TTCCTTAAAGTATTC-AA--GACGATC-CAT
** * ** * ** **** * * *
184847 TCATTTGGTCTAAATAGTTT-G-TCATT-TTTGGTCTTTGAATAAAAAACTTATTTATGT-GAGA
173 TCATTTGAAC--AAT--TTTCGAACATTCCATGCTC-GGGAA-ATCGCA-TCATTT-GGTCTA-A
* * * ** * ** * * * * *
184908 ATTA-TTTCTTTATTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACAATTTCTTTTA-
229 A-TAGTTT-GTCATT--TT-GTAAAC-AACTTTTGGTCTT-T-GAA--TTAAAAACTT-ATTTAC
* * * * * **** * *
184971 -T-A-ACTTCGGTTC-CT-TAAAGTATTCTT-GACG-A--TCC-ATTCATTAGGGCATTTTTCCG
283 GTGAGAATT-GTTTCTCTCT--TG-GTTCTTGGACGAACTTCCGA-ACA-TATCTAAATTTT-AG
* * * * *** * ** * * *
185026 AACATTCCTTGCTCGAGAA-ATCACATCATT-TGGT-TT-AA-ACAGTTTGTCATT-TTTA-A--
341 -A-GTT-CTT--T-TATAACTTCGGTTCCTTAAAGTATTCAAGAC-G-AT-CCATTCATTAGAGC
** * ** * *** * *** ** *
185082 AAGTTTTGTTTATA-ATT-ATTATTTGTCTAATTAC-T-ATTTTACCCTTAAGCA-TTTCCTTCA
397 AA-TTTT-TCGA-ACATTCCTTGCTCGAGAAATCACATCA-TTTGGTC-TAAATAGTTT--GTCA
** * *** * * * * * *
185142 TATTTCACCAATTTAAAAGGTTAAACCGTCCATCTAACATCTCAAAAGTATAATTACAACTTA-A
455 T-TTT--GTAA---AAAA-CTT--TTGGT-C-TTTGA-AT-TAAAAACT-TATTTAC-A-TGAGA
* * ** ** ** *** *
185206 GTTCCTTAATACT-TCTTCCAATTAACTTATAGTGCCCTTAATTAA-TAGACTTC-AAC-TTT-C
504 ATT-GTT--T-CTCTCTT--GGTT--CTTGGA-TGAACTT-CCGAACTTG---TCAAACTTTTAC
* * * * * **
185266 -ACTTCTTTTACGATTTAATCCTTT-TTACTTAATTAACTATCCAA-ATGATAAAATTTCCTAAC
556 GAGTTCTTTT---A--TAA--CTTTGTTCCTT-A--AAGTATTCAAGACGAT-CCA-TTCCT---
* * ** * ** *
185328 CAAAATCTAATACAATGTTGATAATATCATAAT-TATTAAAAT-AAATAAATTTACG
606 -----TC-GA-GCAAT-TTTCTAA-A-CAT--TCCA-T--GCTCGAA-AAA--T-CG
* * * * * **
185383 -ACTTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTATAAACAACTTT-
1 CA-TT---TGGTC---TAA----AT-AGTT-GTC---AT--TTTGT-A----A-ACA-AGTTTTC
* * ** * * * *
185446 TGGTCTTTCATTTAAAAGTTTATTTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGAGGATCTTC
41 TGGTCTTTGAATTAAAAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC
* * * * *
185511 CGAACTTGTCAAACTTTTA-GAGTTCTTTTGTAACTTTGGTTCTTTAAAGTATTCAAGACGATCC
106 GGAACTTGTTAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
** * *
185575 ATTCATCGGAACAATTTTCTGAACATTCCATGCTCGGGAAATCGTATCATTTGGTTTAAATAGTT
171 ATTCATTTGAACAATTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT
* * * *
185640 TGTCATTTTGTAAACCACTTTTGGTATTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCACT
235 TGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT
* * *
185705 CTTGGTTCTTGGACGAACTTCC-AA-ATTTGTAAAACTTTTAGAGTTCTCTTATAACTTCGGTTC
300 CTTGGTTCTTGGACGAACTTCCGAACATATCT-AAA-TTTTAGAGTTCTTTTATAACTTCGGTTC
* * * * *
185768 CTTAGAGTATTCAAGACGATCCATTCAATCGAGAAATTTTTCGAACAATTCAC--GCTCGGGAAA
363 CTTAAAGTATTCAAGACGATCCATTCATTAGAGCAATTTTTCGAAC-ATTC-CTTGCTCGAGAAA
* * * * *
185831 TCACATCATTTGGTGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAAAAAAAC
426 TCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTTGGTCTTTGAAT-TAAAAAC
* * *
185896 TTATTTACATGAGAATTGTTTCTTTATTGGTTCTTGGATGAACTTCCAAACTTGTCAAACTTTTA
490 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTA
** * ** *
185961 CGAGTTCTTTTATAAC-TTGTTCCTTAAAGTATTCAAGTTGATCCACTCCTTTAAGCAATTTTCC
555 CGAGTTCTTTTATAACTTTGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCT
* **
186025 GAACATTCCATGCTCGGGAAATCG
620 AAACATTCCATGCTCGAAAAATCG
* * * * * *
186049 AATCATTGGGTCTAAAAAG-TGTCATTTCGTAAACAAGTTTT-TGTTGTTTTAATTAAAGGAACT
1 ---CATTTGGTCTAAATAGTTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAA--AACT
* *
186112 TATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCGGAACTTGTCAAACTTTTAC
61 TATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGGAACTTGTTAAACTTTTAC
* * * *
186177 GAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAAAAATTTCTT
126 GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAACAATTT-TC
* *
186242 GAGCATTCCATGCTCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTT
190 GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTT
* * *
186307 TTTGTCTTCGAATT-AAAACTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATC-
255 TTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACT
* * * * * **
186369 TCTCGAACCTGTCTAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCTTGACGA
319 TC-CGAACATATCTAAATTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGA
* * * *
186434 T-CATTCATTAAAGCAATTTTTTGAACATTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATA
382 TCCATTCATTAGAGCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATA
* * * *
186498 GTTTGTCATTTTGTAAACAACTTTTAGACTTTGAATTAAGAACTTATTTACATGAGAATTGTTTC
447 GTTTGTCATTTTGTAAAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTC
* * * *
186563 TCTCTTGGTTTTTGGATGATC-TCTCGAACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGG
512 TCTCTTGGTTCTTGGATGAACTTC-CGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTT-G
*
186627 TTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAA
575 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAA
186692 ATCG
640 ATCG
* * * *
186696 CATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGATTAAAAACTTATT
1 CATTTGGTCTAAATAG-TTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAAAACTTATT
* * *** * *
186761 TACATGAGAATT-TTTCGTCTCTTGGTTCTTGGACGAAATTTAAAACCTGTCT-AACTCTTACGA
65 TACTTGAGAATTGTTTC-TCTCTTGGTTCTTGGACGAACTTCGGAACTTGT-TAAACTTTTACGA
* * * * * * *
186824 GTTCTTTTATAACTTCGATTCCTTGAAGTATGCAAGACGATCCACTC-CTTCAAGTAATTTTCCG
128 GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAA-CAATTTT-CG
* * *
186888 AACATTCCATGCTCGAGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AACAAGTTT
191 AACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTT
* * * * * * *
186952 TTGTGTTTGAATTCAAAGAACTTATTTACTTGATAATTGTTTGTCTCTTGGTTCTTGGAAGAAAT
256 TGGTCTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
** * * * * * *
187017 TTTGAACCTGTCTAACTTTTGTGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATGAT
319 TCCGAACATATCTAAATTTT-AGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * * * * * * *
187082 CCATTCCTTTGAGCAATTATCCGACCCTTCCTTGCTCGAAAAATCACATCCTTTGGTGTAAATAG
383 CCATTCATTAGAGCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATAG
* ** * *
187147 TTTGTAATTTTGTAAATAAGTTTTTTGGTCTTTCG-ATTAAAAACTTATTTACATGAGCATTGTC
448 TTTGTCATTTTGTAAA-AA-ACTTTTGGTCTTT-GAATTAAAAACTTATTTACATGAGAATTGTT
* * * * * * * *
187211 TGTCTCTTGGTTCTAGGATGAAATTTCGAACCTGTCTAACTTTTACGACTTTTTTTTATAACTTC
510 TCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGA-GTTCTTTTATAACTT-
* * * * * **
187276 TGTTCCTTAAAGCATTCAAGACGATCCATTCTTTAGAGCAATTTTC-CAACATTTCATGCTCGGG
573 TGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAA
187340 AAATCG
638 AAATCG
* *
187346 CATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAA-CTTT-TGGTCTTTGAATTAAAAA-TT
1 ---CATTTGGTCTAAATAG-TTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAAAACTT
* * *
187408 ATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGA-GAAACTTCCGAACTTATAAAACTTTTA-
62 ATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCGGAACTTGTTAAACTTTTAC
* * *
187471 GAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCATTCATTCGAGA-AATTTTT
126 GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGA-ACAA-TTTT
** * * * *
187535 TTAACATTCCA----AGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTCTGTAAACAAGT
189 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT
* * * *
187596 TTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGACAAACT
254 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT
* * **
187661 TCCGAACTTATC-AAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCTTGACGA
319 TCCGAACATATCTAAA-TTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGA
* * *
187725 TCCATTCATTAGAGCATTTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGATTTAAATA
382 TCCATTCATTAGAGCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATA
187790 GTTTGTCATTTT-TAAAA
447 GTTTGTCATTTTGTAAAA
187807 GTTTTGTTTA
Statistics
Matches: 3332, Mismatches: 781, Indels: 621
0.70 0.16 0.13
Matches are distributed among these distances:
637 3 0.00
638 6 0.00
639 12 0.00
640 14 0.00
641 18 0.01
642 19 0.01
643 39 0.01
644 244 0.07
645 318 0.10
646 322 0.10
647 772 0.23
648 230 0.07
649 295 0.09
650 174 0.05
651 218 0.07
652 35 0.01
653 51 0.02
654 14 0.00
655 11 0.00
656 11 0.00
657 3 0.00
658 1 0.00
659 3 0.00
660 1 0.00
661 2 0.00
662 2 0.00
663 8 0.00
664 7 0.00
665 3 0.00
666 8 0.00
667 1 0.00
668 5 0.00
669 7 0.00
670 3 0.00
671 2 0.00
672 10 0.00
673 11 0.00
674 7 0.00
675 7 0.00
676 6 0.00
677 10 0.00
678 3 0.00
679 5 0.00
680 8 0.00
681 2 0.00
686 4 0.00
687 9 0.00
688 4 0.00
689 5 0.00
690 7 0.00
692 3 0.00
693 6 0.00
694 6 0.00
695 5 0.00
696 8 0.00
697 15 0.00
699 3 0.00
700 2 0.00
701 5 0.00
703 4 0.00
704 5 0.00
705 10 0.00
706 8 0.00
707 3 0.00
708 1 0.00
709 2 0.00
711 4 0.00
712 3 0.00
714 9 0.00
715 10 0.00
716 11 0.00
717 18 0.01
718 20 0.01
719 35 0.01
720 19 0.01
721 14 0.00
722 9 0.00
723 3 0.00
724 2 0.00
725 6 0.00
726 10 0.00
727 6 0.00
728 6 0.00
729 12 0.00
730 20 0.01
731 12 0.00
732 16 0.00
733 10 0.00
734 14 0.00
735 13 0.00
736 2 0.00
737 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (643 bp):
CATTTGGTCTAAATAGTTGTCATTTTGTAAACAAGTTTTCTGGTCTTTGAATTAAAAACTTATTT
ACTTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGGAACTTGTTAAACTTTTACGAGTT
CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTTGAACAATTTTCGAACAT
TCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAC
ATATCTAAATTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCAT
TAGAGCAATTTTTCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTCTAAATAGTTTGTCAT
TTTGTAAAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGT
TCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGTTCCTTAAAGT
ATTCAAGACGATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAATCG
Found at i:184758 original size:168 final size:168
Alignment explanation
Indices: 184467--184807 Score: 407
Period size: 168 Copynumber: 2.0 Consensus size: 168
184457 AAAATCACAT
* * * * **
184467 CATTTGGTCTAAATAGTTTGTAATTTTGTTAATAAGTTTTTTGGTCTTTCCATTAAAAACTTATT
1 CATTTGGTCTAAATAGTTTGTAATTTTGTAAACAAG-CTTTTGGTCTTTCAATTAAAAAAGTATT
* * ** **
184532 TACGAGAGAATTGTTTGTCTCTTGGTTTTAGGATGAAATTTTGAACCTGTCTAACTTTTACAACT
65 TACGAGAGAATTGTTTCTCTCTTGGTTTTAGGACGAAATTCCGAACCTGTAAAACTTTTA-AACT
* *
184597 TTTTTTATAACATCGGTTCCTTAAAGCATTCAAGACGATC
129 TCTTTTATAACATCGGTTCCCTAAAGCATTCAAGACGATC
* * *
184637 CATTTGGTCTAAATTGTTTGTCATTTTGTAAACAA-CTTTTGGTCTTTGAATTAAAAAAGTATTT
1 CATTTGGTCTAAATAGTTTGTAATTTTGTAAACAAGCTTTTGGTCTTTCAATTAAAAAAGTATTT
* * * * *
184701 ACGTGAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCCGAACTTGTAAAACTTTTAGAGTT
66 ACGAGAGAATTGTTTCTCTCTTGGTT-TTAGGACGAAATTCCGAACCTGTAAAACTTTTAAACTT
* * * *
184765 CTTTTATAACTTCGGTTCCCTAGAGTATTCAAGATGATC
130 CTTTTATAACATCGGTTCCCTAAAGCATTCAAGACGATC
184804 CATT
1 CATT
184808 CATTCGAGAA
Statistics
Matches: 144, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
167 40 0.28
168 71 0.49
169 2 0.01
170 31 0.22
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (168 bp):
CATTTGGTCTAAATAGTTTGTAATTTTGTAAACAAGCTTTTGGTCTTTCAATTAAAAAAGTATTT
ACGAGAGAATTGTTTCTCTCTTGGTTTTAGGACGAAATTCCGAACCTGTAAAACTTTTAAACTTC
TTTTATAACATCGGTTCCCTAAAGCATTCAAGACGATC
Found at i:185779 original size:215 final size:216
Alignment explanation
Indices: 185385--187805 Score: 2600
Period size: 215 Copynumber: 11.2 Consensus size: 216
185375 AATTTACGAC
* *
185385 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTATAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * ** * * * *
185450 CTTTCATTTAAAAGTTTATTTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGAGGATCTTCCGAA
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAA
* * *
185515 CTTGTCAAACTTTTA-GAGTTCTTTTGTAACTTTGGTTCTTTAAAGTATTCAAGACGATCCATTC
131 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
*
185579 ATCGGAACAATTTTCTGAACA
196 ATCTGAACAATTTTCTGAACA
* * *
185600 TTCCATGCTCGGGAAATCGTATCATTTGGTTTAAATAGTTTGTCATTTTGTAAACCACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* ** * *
185665 ATTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCACTCTTGGTTCTTGGACGAACTTCCAAA
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAA
* * * *
185730 TTTGTAAAACTTTTA-GAGTTCTCTTATAACTTCGGTTCCTTAGAGTATTCAAGACGATCCATTC
131 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
185794 AATC-GAGA-AATTTT-TCGAACAA
196 -ATCTGA-ACAATTTTCT-GAAC-A
* * * *
185816 TT-CACGCTCGGGAAATCACATCATTTGGTGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * * *
185880 CTTTTAATAAAAAAACTTATTTACATGAGAATTGTTTCTTTATTGGTTCTTGGATGAACTTCCAA
66 CTTTGAAT-TAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGA
** *
185945 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTT--GTTCCTTAAAGTATTCAAGTTGATCCACT
130 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
186008 CCT-TTAAGCAATTTTCCGAACA
195 CATCTGAA-CAATTTTCTGAACA
* * * * * *
186030 TTCCATGCTCGGGAAATCGAATCATTGGGTCTAAAAAG--TGTCATTTCGTAAACAAGTTTTTGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGG
* * * * *
186093 TGTTTTAATTAAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCG
65 TCTTTGAATTAAA--AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCC
*
186158 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCA
128 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * *
186223 TTCCTTTGAA-AAATTTCTTGAGCA
193 TTCATCTGAACAATTTTC-TGAACA
* *
186247 TTCCATGCTCTGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
186312 CTTCGAATT-AAAACTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATC-TCTCG
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACTTC-CG
* * * * **
186374 AACCTGTCTAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCTTGACGAT-CAT
129 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* *
186438 TCAT-TAAAGCAATTTTTTGAACA
194 TCATCTGAA-CAATTTTCTGAACA
* * *
186461 TTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGA
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * *
186526 CTTTGAATTAAGAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTTTTGGATGATC-TCTCGA
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC-CGA
* * * *
186590 ACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCAAGACAATCCATT
130 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
186655 CCT-TCGAGCAATTTTCTAAACA
195 CATCT-GAACAATTTTCTGAACA
** * * * *
186677 TTCCATGCTCGAAAAATCG---CATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTG
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTT-TG
* * **
186739 GTCTTTGGATTAAAAACTTATTTACATGAGAATT-TTTCGTCTCTTGGTTCTTGGACGAAATTTA
64 GTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTC-TCTCTTGGTTCTTGGACGAACTTCC
* * * * * * *
186803 AAACCTGTCTAACTCTTACGAGTTCTTTTATAACTTCGATTCCTTGAAGTATGCAAGACGATCCA
128 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * * *
186868 CTCCT-TCAAGTAATTTTCCGAACA
193 TTCATCTGAA-CAATTTTCTGAACA
* * * *
186892 TTCCATGCTCGAGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AACAAGTTTTTGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * * * **
186956 GTTTGAATTCAAAGAACTTATTTACTTGATAATTGTTTGTCTCTTGGTTCTTGGAAGAAATTTTG
66 CTTTGAATT-AAA-AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
* * ** * *
187021 AACCTGTCTAACTTTTGTGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCAT
129 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * * * * *
187086 TCCTTTGAGCAATTATCCGACCC
194 TCATCTGAACAATTTTCTGAACA
* ** * * * * * *
187109 TTCCTTGCTCGAAAAATCACATCCTTTGGTGTAAATAGTTTGTAATTTTGTAAATAAGTTTTTTG
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA--CTTTTG
* * * * * * *
187174 GTCTTTCG-ATTAAAAACTTATTTACATGAGCATTGTCTGTCTCTTGGTTCTAGGATGAAATTTC
64 GTCTTT-GAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCC
* * * * * *
187238 GAACCTGTCTAACTTTTACGACTTTTTTTTATAACTTCTGTTCCTTAAAGCATTCAAGACGATCC
128 GAACTTGTCAAACTTTTACGA-GTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCC
* * *
187303 ATTC-TTTAGAGCAATTTTC-CAACA
192 ATTCATCT-GAACAATTTTCTGAACA
* *
187327 TTTCATGCTCGGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
*
187392 CTTTGAATTAAAAA-TTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGA-GAAACTTCCGA
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCCGA
* * * *
187455 ACTTATAAAACTTTTA-GAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGATGATCCATT
130 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* *
187519 CAT-TCGAGA-AATTTTTTTAACA
195 CATCT-GA-ACAATTTTCTGAACA
* * * *
187541 TTCCA----AGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTCTGTAAACAAGTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
** * * *
187602 CTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGACAAACTTCCGAA
66 CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAA
* * * **
187667 CTTATCAAACTTTTATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCTTGACGATCCATTC
131 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
* *
187732 AT-TAGAGC-ATTTTTTCGAACA
196 ATCT-GAACAATTTTCT-GAACA
* * * * *
187753 TTCCTTGCTCGAGAAATCACATCATTTGATTTAAATAGTTTGTCATTTT-TAAA
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
187806 AGTTTTGTTT
Statistics
Matches: 1870, Mismatches: 276, Indels: 120
0.83 0.12 0.05
Matches are distributed among these distances:
210 65 0.03
211 65 0.03
212 59 0.03
213 104 0.06
214 123 0.07
215 788 0.42
216 174 0.09
217 245 0.13
218 164 0.09
219 70 0.04
220 12 0.01
221 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (216 bp):
TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
CTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAA
CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
ATCTGAACAATTTTCTGAACA
Found at i:187048 original size:862 final size:854
Alignment explanation
Indices: 182729--187811 Score: 3389
Period size: 862 Copynumber: 5.8 Consensus size: 854
182719 TTCACGCTTG
* * **
182729 GGAAATCACATCATTTGGTCTAAATAGTTTATCATTTTGTAAACAACTTTCAGTCTTTC--ATTC
1 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTCGAATT-
* * * * **
182792 AAAAACTTATTTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGACGATATCTCAAACTTGTAAAA
65 -AAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTCTTGGACGATCT-TCGAACCTGTCTAA
* ** * * * * * *
182857 CTTTTA-GAGTTCTTTGGTTACTTTGGTTCCTTAAAGTATCCAAGACGATCCATTCATCAGAGCA
127 CTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCAAGACGATCCATTCATTAAAGCA
* * *
182921 ATTTTTCGAACATTCCATGCTCGGGAAATCGTATCATTTAGTCTAAATAGTTTGTCATTTTGTAA
192 ATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * ** *
182986 ACCACTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCTCTCTTGGTCCTTGGA
257 ACAACTTTTGGACTTTGAATT-AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * *
183051 CAAACTTCCAAATTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAG
321 -GAACTTCCGAACTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
* ** * *
183116 ACGATCCATTCAATCGAGAAATTTTCCGAACAATT-CAAGCTCGAGAAATCACATCATTTGGTGT
385 ACGATCCATTCATTCGAGAAATTTT-TAAAC-ATTCCAAGCTCGAAAAAT--C--CATTTGGTCT
* * * *
183180 AAATAGTTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAAAAACACTTATTTACATGAGAAT
444 AAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAA-ACTTATTTACATGAGAAT
* * * *
183245 TGTTTCTCTATTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
508 TGTTTCTTTATTGGTTCTTGGACGAAATTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * * **
183310 TT-G-TTCCTTAAAGTATTCAAGATGATCCACTCCTTTGAGCAAATTTCCGAACATTCCACACTC
573 TTCGATTCCTTAAAGTATTCAAGACGATCCACTCC-TTAAGCAATTTTCCGAACATTCCATGCTC
* ** * * * * * *
183373 GGGAAATCAAATCATTGGGTCTAAAAAG--TGACATTTCGTAAACAAGTTTTTGTTTTTTTAATT
637 GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AACAAGTTTTTGTTGTTTGAATT
* * * * *
183436 AAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGATGAACTTCGGAACTTGTTA
701 AAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGAAGAAATTCGGAACCTGTCA
183501 AACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAA
766 AACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAA
* * *
183566 CAATTTAT-CGAGCACTCCATGCTC
831 -AAATTATCCGACCATTCCATGCTC
*
183590 TGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGTC-TTCGAATT
1 -GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTCGAATT
* * *
183654 AAAATCTTATTTACGTGAGAATTGTTTCTCTTTCGGTTCTTGGACGATCTCCCGAACGTATCTAA
65 AAAA-CTTATTTACGTGAGAATTGTTTCTCTTT-GGTTCTTGGACGATCT-TCGAACCTGTCTAA
* * * * ** *
183719 ATTTTACGGGTAATTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCATTCATTAAGGCA
127 CTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCAAGACGATCCATTCATTAAAGCA
* *
183784 ATTTTTCT-AACATTCCTTGCTCGGGAAATCGCATCATTTTGTCTAAATAGTTTGTCATTTTGTA
192 ATTTTT-TGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
183848 AAAAACTTTTAGACTTTGAATTGAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGG
256 AACAACTTTTGGACTTTGAATT-AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * *
183913 ACGATCTCCCGAACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCA
320 A-GAACTTCCGAACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* * * * *
183978 AGACAATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAATCGCATTTGATCTAA
383 AGACGATCCATTCATTCGAGAAATTTT-TAAACATTCCAAGCTCGAAAAATC-CATTTGGTCTAA
* * * *
184043 ATAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGATTAAAAACTTATTTACGTGAGAATT
446 ATAGTTTGTCATTTTGTAAACAAG-TTT-TGGTCTTTGAATTAAAAACTTATTTACATGAGAATT
* * * * ** **
184108 GTCTGTCTCTTGGTTCTTGGACGAAATTTAAAACTTGTTTAACTTTTACGAGTTCTTTTATAACT
509 GTTTCTTTATTGGTTCTTGGACGAAATTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * *
184173 TCGATTCCTTGAAGTATGCAAGATGATCCACTCCTTCGAGTAATTTTCCGAACA-TCCAATGCTC
574 TCGATTCCTTAAAGTATTCAAGACGATCCACTCCTT-AAGCAATTTTCCGAACATTCC-ATGCTC
* *
184237 GGGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTTG-TGTTTGAATT
637 GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AACAAGTTTTTGTTGTTTGAATT
* * * * *
184301 CAAA-GAACTTATTTACATGAGAATTGTTTGTCTCATGGTTCTTGGACGAAATTTC-GAACTTGT
701 -AAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGAAGAAA-TTCGGAACCTGT
* * * * * *
184364 CTATCTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGGCGATCCATTCCTTCG
764 CAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTG
** * * *
184429 AGCAATTATTCGACCCTTCCTTGCTC
829 AAAAATTATCCGACCATTCCATGCTC
* * * * * * *
184455 GAAAAATCACATCATTTGGTCTAAATAGTTTGTAATTTTGTTAATAAGTTTTTTGGTCTTTC-CA
1 G-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTT-GTCTTTCGAA
* * * *
184519 TTAAAAACTTATTTACGAGAGAATTGTTTGTCTCTTGGTT-TTAGGATGAAAT-TTTGAACCTGT
63 TT-AAAACTTATTTACGTGAGAATTGTTTCTCT-TTGGTTCTT-GGACG--ATCTTCGAACCTGT
* * * * *** *
184582 CTAACTTTTACAACTTTTTTTATAACATCGGTTCCTTAAAG-CATTCAAGACGATCCATTTGGTC
123 CTAACTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTC-TTCAAGACGATCCATTCATTA
* * * * * * * ****
184646 TA--AATTGTTTG-TCATT---T--T--GTAAA---CAACTTTTGGTCTTTGAATTAAAAAAGT-
187 AAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC--T-AAAT-AGTTTGTC
* * * *** ** *** ** * * * **** *
184697 ATTTACGT-GAGAA-TTGTTTCTCTCTTGGTTCTTGGACGAACTT-C-CGA-ACTTGTAAAACTT
248 ATTT-TGTAAACAACTT-TTGGACT-TTGAAT-TAAAACTTATTTACATGAGAATTGTTTCTCTC
** * * ** * ** ** * ** *
184757 TTAGAGTTCTTTTATAACTTCGGTTCCCTAG-AGTA-TTCAAGATGATC-CAT-TCA-TTCGAGA
309 TT-G-GTTCTTGGAGAACTTCCG--AACTTGTAAAACTTTTAGA-GTTCTTTTATAACTTCG-G-
** * * * * * ** ****
184817 AATTTTTTGAA-CATTCGAAGGGA-AATCACA-TCATTTG-GTCTAAATAGTTT-GTCATTTTTG
367 --TTCCTTAAAGTATTC-AA--GACGATC-CATTCATTCGAG---AAAT-TTTTAAACATTCCAA
* * * * * * * * ** *
184877 GTCTTTGAATAAAAAACTTATTTATGT-GAGAATTA-TTTCTTTATTGGTTCTTGGACGAACTTT
422 G-C-TCG---AAAAATC-CATTT-GGTCTA-AA-TAGTTT-GTCATT--TT-GTAAAC-AAGTTT
* ** * * * * * * * * * ** *
184940 CGAACTTGTCAAACTTTTACAATTTCTTT-TAT-A-ACTTCGGTTCCTTAAAGTATTCTT-GACG
473 TGGTCTT-T-GAA--TTAAAAACTTATTTACATGAGAATT-GTTTCTTTATTG-GTTCTTGGACG
* * * * * *
185001 ATCCATT-CATTAGGGCATTTTTCCGAACATTCCTTGCTCGAGAAATCACATCATTTGGTTTAAA
532 A--AATTCCA--A----ACTTGT-CAAAC-TT--TT--ACGAG---T----TC-TTT--TAT-AA
* * * * ** * * ** * *
185065 CAGTTTGTCATT-TTTAAAAGTTTTGTTTATA-ATTAT-TATTTGTCTAATTACTATTTTACCCT
572 C--TTCG--ATTCCTT-AAAG---TATTCA-AGACGATCCACTCCT-TAA--GCAATTTT--CC-
* * ** * ** **
185127 TAAGCATTTCC-T--TC---ATATTTCACCAATTTAAAAGGT-TAAACCGTCCATCTAACATCTC
622 GAA-CA-TTCCATGCTCGAGAAATCGCATC-ATTT----GGTCTAAATAGT---T-TGTCAT-T-
* * * ** ** * * ** ** * *
185185 AAAAGTATAATTACAA-CTTAAGTTCCTTAATACTTCTTCCAATTAACTTATAGTGCCCTTAATT
674 -----T-T-GTAACAAGTTTTTGTTGTTTGA-A----TT-AAAGGAACTTAT--T-TACTTGA-G
* * * ** ** * * *** * *
185249 AATAGACTTCAACT-TTCACTTCTTTTACG--ATT--TAATCCT-TTTTACTTAATTAACTA-TC
722 AATTG-TTTC-TCTCTT-GGTTCTTGGAAGAAATTCGGAA-CCTGTCAAACTT--TT-ACGAGTT
** * * * * * ** * *
185307 CAAATGATAAAAT---TTCCTAACCAAAATCTAATACAATGTTGAT-AATATCATAATT-ATTAA
780 C-TTTTATAACATCGGTTCCT----TAAA-GT-ATTCAA-GACGATCCAT-TCCT--TTGA--AA
*
185367 AATAAATAAATTTACGA-C-TTCCATGCTC
832 AAT---T--A--TCCGACCATTCCATGCTC
* * * *
185395 GGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTATAAACAACTTTTGGTCTTTC-ATTT
1 -GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTCGAATT
* * * * *
185459 AAAAGTTTATTTACGTGAGAATTGTCTCTCTCTTGGTTCTTGGAGGATCTTCCGAACTTGTCAAA
65 AAAA-CTTATTTACGTGAGAATTGTTTCTCT-TTGGTTCTTGGACGATCTT-CGAACCTGTCTAA
* * * * * **
185524 CTTTTA-GAGTTCTTTTGTAACTTTGGTTCTTTAAAGTATTCAAGACGATCCATTCATCGGAA-C
127 CTTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCAAGACGATCCATTCAT-TAAAGC
* * *
185587 AATTTTCTGAACATTCCATGCTCGGGAAATCGTATCATTTGGTTTAAATAGTTTGTCATTTTGTA
191 AATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* ** *
185652 AACCACTTTTGGTA-TTTGAATTAAAAACTTATTTATGTGAGAATTGTTTCACTCTTGGTTCTTG
256 AACAACTTTTGG-ACTTTGAATT-AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTG
* * * *
185716 GACGAACTTCCAAATTTGTAAAACTTTTAGAGTTCTCTTATAACTTCGGTTCCTTAGAGTATTCA
319 GA-GAACTTCCGAACTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* * *
185781 AGACGATCCATTCAATCGAGAAATTTTTCGAACAATT-CACGCTCGGGAAATCACAT-CATTTGG
383 AGACGATCCATTCATTCGAGAAATTTTT-AAAC-ATTCCAAGCTC--GAAA--A-ATCCATTTGG
* * * * *
185844 TGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAAAAAAACTTATTTACATGAG
441 TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT-TAAAAACTTATTTACATGAG
* *
185909 AATTGTTTCTTTATTGGTTCTTGGATGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTAT
505 AATTGTTTCTTTATTGGTTCTTGGACGAAATTCCAAACTTGTCAAACTTTTACGAGTTCTTTTAT
**
185974 AACTT-G-TTCCTTAAAGTATTCAAGTTGATCCACTCCTTTAAGCAATTTTCCGAACATTCCATG
570 AACTTCGATTCCTTAAAGTATTCAAGACGATCCACTCC-TTAAGCAATTTTCCGAACATTCCATG
* * * * * *
186037 CTCGGGAAATCGAATCATTGGGTCTAAAAAG--TGTCATTTCGTAAACAAGTTTTTGTTGTTTTA
634 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AACAAGTTTTTGTTGTTTGA
* * * *
186100 ATTAAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTCGGAACTTG
698 ATTAAAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGAAGAAATTCGGAACCTG
186165 TCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTT
763 TCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTT
* *
186230 GAAAAATT-TCTTGAGCATTCCATGCTC
828 GAAAAATTATC-CGACCATTCCATGCTC
186257 TGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTC-TTCGAATT
1 -GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTCGAATT
186321 AAAACTTATTTACGTGAGAATTGTTTCTCTTTCGGTTCTTGGACGATCTCTCGAACCTGTCTAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTTT-GGTTCTTGGACGATCT-TCGAACCTGTCTAAC
**
186386 TTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCTTGACGAT-CATTCATTAAAGCAA
128 TTTTACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCAAGACGATCCATTCATTAAAGCAA
*
186450 TTTTTTGAACATTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
193 TTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* *
186515 CAACTTTTAGACTTTGAATTAAGAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTTTTGGAT
258 CAACTTTTGGACTTTGAATTAA-AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGA-
* * *
186580 GATC-TCTCGAACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCAA
321 GAACTTC-CGAACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAA
* * * * *
186644 GACAATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTCGAAAAATCGCATTTGATCTAAA
384 GACGATCCATTCATTCGAGAAATTTT-TAAACATTCCAAGCTCGAAAAATC-CATTTGGTCTAAA
* * *
186709 TAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGATTAAAAACTTATTTACATGAGAATT-
447 TAGTTTGTCATTTTGTAAACAAG-TTT-TGGTCTTTGAATTAAAAACTTATTTACATGAGAATTG
* * ** * * *
186773 TTTCGTCTCTTGGTTCTTGGACGAAATTTAAAACCTGTCTAACTCTTACGAGTTCTTTTATAACT
510 TTTC-TTTATTGGTTCTTGGACGAAATTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * *
186838 TCGATTCCTTGAAGTATGCAAGACGATCCACTCCTTCAAGTAATTTTCCGAACATTCCATGCTCG
574 TCGATTCCTTAAAGTATTCAAGACGATCCACTCCTT-AAGCAATTTTCCGAACATTCCATGCTCG
*
186903 AGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAACAAGTTTTTG-TGTTTGAATTCA
638 AGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAACAAGTTTTTGTTGTTTGAATT-A
* * ** *
186967 AA-GAACTTATTTACTTGATAATTGTTTGTCTCTTGGTTCTTGGAAGAAATTTTGAACCTGTCTA
702 AAGGAACTTATTTACTTGAGAATTGTTTCTCTCTTGGTTCTTGGAAGAAATTCGGAACCTGTCAA
** * * * **
187031 ACTTTTGTGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGATGATCCATTCCTTTGAGC
767 ACTTTTACGAGTTCTTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAAA
* *
187096 AATTATCCGACCCTTCCTTGCTC
832 AATTATCCGACCATTCCATGCTC
* * * * * * *
187119 GAAAAATCACATCCTTTGGTGTAAATAGTTTGTAATTTTGTAAATAAGTTTTTTGGTCTTTCG-A
1 G-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTT-GTCTTTCGAA
* * * *
187183 TTAAAAACTTATTTACATGAGCATTGTCTGTCTC-TTGGTTCTAGGATGAAAT-TTCGAACCTGT
63 TT-AAAACTTATTTACGTGAGAATTGT-T-TCTCTTTGGTTCTTGGACG--ATCTTCGAACCTGT
* * * *
187246 CTAACTTTTACGACTTTTTTTTATAACTTCTGTTCCTTAAAG-CATTCAAGACGATCCATTCTTT
123 CTAACTTTTACGA-GTTATTTTATAACTTCGGTTCCTTAAAGTC-TTCAAGACGATCCATTCATT
* ** * *
187310 AGAGCAA-TTTTCCAACATTTCATGCTCGGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATT
186 AAAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* * *
187374 TTGTAAACAACTTTTGGTCTTTGAATTAAAAATTATTTACTTGAGAATTGTTTCTCTCTTGGTTC
251 TTGTAAACAACTTTTGGACTTTGAATTAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTC
* *
187439 TTGGAGAAACTTCCGAACTTATAAAACTTTTAGAGTTCTTTTATAACTTCGATTCCTTAAAGTAT
316 TTGGAG-AACTTCCGAACTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * *
187504 TCAAGATGATCCATTCATTCGAGAAATTTTTTTAACATTCCAAG--GGAAATCACAT-CATTTGG
380 TCAAGACGATCCATTCATTCGAGAAA-TTTTTAAACATTCCAAGCTCGAAA--A-ATCCATTTGG
* **
187566 TCTAAATAGTTTGTCATTCTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTATGTGAGA
441 TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGA
* * * *
187631 ATTGTTTCTTTGTTGGTTCTTGGAC-AAACTTCCGAACTTATCAAACTTTTATGAGTTCTTTTAT
506 ATTGTTTCTTTATTGGTTCTTGGACGAAA-TTCCAAACTTGTCAAACTTTTACGAGTTCTTTTAT
** * * * * *
187695 AACTTCGATTCCTTAAAGTATTCTTGACGATCCATTCATTAGAGCATTTTTTCGAACATTCCTTG
570 AACTTCGATTCCTTAAAGTATTCAAGACGATCCACTCCTTA-AGCAATTTTCCGAACATTCCATG
* * *
187760 CTCGAGAAATCACATCATTTGATTTAAATAGTTTGTCATTTT-TAA-AAGTTTT
634 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAACAAGTTTT
187812 GTTTATAATT
Statistics
Matches: 3242, Mismatches: 681, Indels: 599
0.72 0.15 0.13
Matches are distributed among these distances:
853 3 0.00
854 11 0.00
855 12 0.00
856 21 0.01
857 39 0.01
858 27 0.01
859 53 0.02
860 105 0.03
861 431 0.13
862 615 0.19
863 265 0.08
864 246 0.08
865 304 0.09
866 159 0.05
867 117 0.04
868 18 0.01
869 12 0.00
870 20 0.01
871 14 0.00
872 14 0.00
873 14 0.00
874 15 0.00
875 10 0.00
876 6 0.00
877 17 0.01
878 3 0.00
879 11 0.00
880 2 0.00
881 2 0.00
883 5 0.00
884 5 0.00
885 9 0.00
886 1 0.00
890 2 0.00
891 4 0.00
892 4 0.00
893 2 0.00
894 3 0.00
896 7 0.00
897 8 0.00
898 13 0.00
899 4 0.00
900 4 0.00
901 25 0.01
902 22 0.01
903 5 0.00
904 5 0.00
905 14 0.00
906 8 0.00
908 5 0.00
909 6 0.00
910 1 0.00
911 3 0.00
912 2 0.00
914 3 0.00
915 2 0.00
916 4 0.00
917 9 0.00
918 2 0.00
919 1 0.00
922 9 0.00
923 7 0.00
924 2 0.00
925 13 0.00
926 9 0.00
927 13 0.00
928 16 0.00
929 13 0.00
930 1 0.00
931 7 0.00
932 9 0.00
933 11 0.00
934 12 0.00
935 17 0.01
936 15 0.00
937 48 0.01
938 62 0.02
939 13 0.00
940 58 0.02
941 12 0.00
942 13 0.00
943 7 0.00
944 8 0.00
945 13 0.00
946 24 0.01
947 32 0.01
948 19 0.01
949 13 0.00
950 12 0.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (854 bp):
GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTTGTCTTTCGAATTA
AAACTTATTTACGTGAGAATTGTTTCTCTTTGGTTCTTGGACGATCTTCGAACCTGTCTAACTTT
TACGAGTTATTTTATAACTTCGGTTCCTTAAAGTCTTCAAGACGATCCATTCATTAAAGCAATTT
TTTGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA
CTTTTGGACTTTGAATTAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAGAACT
TCCGAACTTGTAAAACTTTTAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATC
CATTCATTCGAGAAATTTTTAAACATTCCAAGCTCGAAAAATCCATTTGGTCTAAATAGTTTGTC
ATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTTTATTG
GTTCTTGGACGAAATTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAA
AGTATTCAAGACGATCCACTCCTTAAGCAATTTTCCGAACATTCCATGCTCGAGAAATCGCATCA
TTTGGTCTAAATAGTTTGTCATTTTGTAACAAGTTTTTGTTGTTTGAATTAAAGGAACTTATTTA
CTTGAGAATTGTTTCTCTCTTGGTTCTTGGAAGAAATTCGGAACCTGTCAAACTTTTACGAGTTC
TTTTATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAAAAATTATCCGACCAT
TCCATGCTC
Found at i:189109 original size:216 final size:214
Alignment explanation
Indices: 188104--190521 Score: 2640
Period size: 215 Copynumber: 11.2 Consensus size: 214
188094 AATTTACTAC
* * * *
188104 TTCCACGCTTGGGAAATCGTATCATTTGGTCTAAATAGTTTATCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTCGGG-AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
** * * * *
188169 CTTT-CTTTCAAAAACTTATTTACGTGTGAATTGTCTCTCTCTTGGTTCTTGGACGATCTCCTGA
65 CTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC-GA
* * * *
188233 ACTTGTCAAACTTTTA-GAGTTTTTTTGTAACTTTGGTTCCTTAAAGTATCCAAGACGATCCATT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
188297 -CATCAGGGCAATTTTCCGAACA
193 CCTTC-GAGCAATTTTTCGAACA
* * *
188319 TTCCATGCTCGGGAAATCGTATCATTTGGTCTAAGTAGTTTGTCATTTTGTAAACCACTTTTGGT
1 TTCCATGCTCGGG-AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * *
188384 CTTTGAATTAAAAAGTTATTTATGTGAGAATTGTTTATCTCTTGGTTCTTGGACGAACTTCCAAA
65 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CGAA
* * *
188449 TTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGACGATCCATTC
129 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
** * *
188513 AATCGAGAAATTTTCCGAACAA
194 CTTCGAGCAATTTTTCGAAC-A
* * * * * *
188535 TT-TAAGCTCGAGAAATCACATCATTTGGTGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGT
1 TTCCATGCTCG-GGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
188599 CTTTTAATAAAAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTTCTTGGATGAACTTCCGA
65 CTTTGAAT-TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CGA
* * * *
188664 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTT--GTTCCTTAAAGTATTCGAGATGATCTACT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
*
188727 CCTTTGAGCAATTTTTCGAACA
193 CCTTCGAGCAATTTTTCGAACA
* * * * * *
188749 TTCCATCCTCGGGAAATCGAATCATTGGGTCTAAAAAG--TGTCATTTTGTAAACAAGTTTTTGT
1 TTCCATGCTCGGG-AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTTTGG
* * * * * * *
188812 TTTTTTAATTAACGGAGCTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTTGGACAAACTTCG
64 TCTTTGAATTAA--AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCG
* * *
188877 AAACTTGTCAAACTTTTACGAGTTCTTTTGTAACATCGGTTCCTTAAAGTATTCAAGACGATTCA
127 -AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCA
* * * *
188942 TTCCTTTGAACAATTTCTCGAGCA
191 TTCCTTCGAGCAATTTTTCGAACA
* *
188966 TTCCATGCTCTGGGTATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGT
1 TTCCATGCTC-GGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
*** *
189031 CTCCAAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATCTCTCGA
65 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACT-TCGA
* * * * * **
189095 ACCTGTCTAACTTTTACGAGTTATTTTATAACTTCGATTCTTTAAAGTATTCTTGACGATCCATT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* *
189160 CATT-AAGGCAATTTTTCGAACA
193 CCTTCGA-GCAATTTTTCGAACA
* * *
189182 TTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGA
1 TTCCATGCTCGGG-AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
189247 CTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGGAC-AATCTCCCGA
65 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAA-CT-TCGA
* * * **
189311 ACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCAAGAAAATCCATT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
*
189376 CCTTCGAGCAA-TTTTCTAAACA
193 CCTTCGAGCAATTTTTC-GAACA
** * * * *
189398 TTCCATGCTCGAAAATCG---CATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTGG
1 TTCCATGCTCGGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTT-TGG
* * * * **
189460 TCTTTGGATTAAAAACTTATTTACGTGAGAATTGTCTGTCTCTTGGTTCTTGGACGAAATTTAAA
64 TCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCGA
* * * ** * * *
189525 ACCTGTCTAACTTTTACGAATTCTTTTATAACTTCAATTCCTTGAAGTATGCAAGACGATCCACT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
*
189590 CCTTCGAGTAATTTTTCGAACA
193 CCTTCGAGCAATTTTTCGAACA
* * *
189612 TTCCATGCTTGGGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTTGT
1 TTCCATGCTCGGGA-ATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * * * *
189677 GTTTGAATTCAAAGAACTTATTTACATGAGAATTATTTGTCTCTTGGTTCTTGGAAGAAATTTTG
65 CTTTGAATT-AAA-AACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCG
* * *
189742 AACCTGTCTAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACGATCCAT
127 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * *
189807 TCCTTCGAGCAATTATCCGACCC
192 TCCTTCGAGCAATTTTTCGAACA
* ** * ** * * *
189830 TTCCTTGCTCGAAAAATCACATCATTTGGAGTAAATAGTTTGTAATTTTGTAAATAAGTTTTTTG
1 TTCCATGCTCG-GGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA--CTTTTG
* * * *
189895 GTCTTTGGATTAAAAACTTATTTACGTGAGAATTGTTTGTCTCTTGGTTCTAGGACGAAATTTCG
63 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCG
* * * * * * *
189960 AACCTGTCTAACTTTTACGACTTTTTTTATAACTTTGGTTCTTTAAAGCATTCAAGACGATCCAT
127 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * *
190025 TCTTTAGAGCAA-TTTTCAAACA
192 TCCTTCGAGCAATTTTTCGAACA
* * *
190047 TTTCATGCTCAGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAACTTTTGGT
1 TTCCATGCTC-GGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
*
190112 CTTTGAATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA-GAAACTTTCGA
65 CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AAC-TTCGA
* * *
190176 ACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAGATGATCCATT
128 ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATT
* * *
190240 CATTCGAGAAATTTTTTGAACA
193 CCTTCGAGCAATTTTTCGAACA
* * * * *
190262 TTCCAAG---GGAAATCACATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAAGTTTTGGTC
1 TTCCATGCTCGGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * *
190324 TTTGAATTAAAAACTTA-TTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGACAAACTTCCGAAC
66 TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CGAAC
* * ** *
190388 TTATCAAACTTTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCATTCA
130 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* *
190453 TTAGAGCATTTTTTCGAACA
195 TTCGAGCAATTTTTCGAACA
* * * *
190473 TTCCTTGCTC--G-AGCACATCATTTGGTTTAAATAGTTTGTCATTTT-TAAA
1 TTCCATGCTCGGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
190522 AGTTTTGTTT
Statistics
Matches: 1865, Mismatches: 289, Indels: 103
0.83 0.13 0.05
Matches are distributed among these distances:
209 2 0.00
210 55 0.03
211 167 0.09
212 32 0.02
213 21 0.01
214 201 0.11
215 491 0.26
216 378 0.20
217 152 0.08
218 332 0.18
219 21 0.01
220 13 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (214 bp):
TTCCATGCTCGGGAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGAACT
TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
TCGAGCAATTTTTCGAACA
Found at i:189286 original size:432 final size:428
Alignment explanation
Indices: 188115--190521 Score: 2733
Period size: 432 Copynumber: 5.6 Consensus size: 428
188105 TCCACGCTTG
** * **
188115 GGAAATCGTATCATTTGGTCTAAATAGTTTATCATTTTGTAAACAACTTTTGGTCTTT-CTTTCA
1 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-A
* * * * *
188179 AAAACTTATTTACGTGTGAATTGTCTCTCTCTTGGTTCTTGGACGATCTCCTGAACTTGTCAAAC
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTC-GAACCTGTCAAAC
* * * * * *
188244 TTTTA-GAGTTTTTTTGTAACTTTGGTTCCTTAAAGTATCCAAGACGATCCATTCATCAGGGCAA
129 TTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAA
* * *
188308 TTTTCCGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAAGTAGTTTGTCATTTTGTAAA
194 TTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * ** *
188373 CCACTTTTGGTCTTTGAATTAAAAAGTTATTTATGTGAGAATTGTTTATCTCTTGGTTCTTGGAC
259 CAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * *
188438 GAACTTCCAAATTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCAAG
324 AAACTT-CGAACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAG
** * *
188502 ACGATCCATTCAATCGAGA-AATTTTCCGAACAATT-TAAGCTC
388 ACGATCCATTCCTTCGA-ACAATTTT-CGAAC-ATTCCATGCTC
* * * *
188544 GAGAAATCACATCATTTGGTGTAAATAGTTTGTCATTTTCTAAACAACTTTTGGTCTTTTAATAA
1 G-GAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAAT-T
* * * *
188609 AAAAACTTATTTACATGAGAATTGTTTCTCTATTGGTTCTTGGATGAACTTCCGAACTTGTCAAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CGAACCTGTCAAA
* * * * * *
188674 CTTTTACGAGTTCTTTTATAACTT--GTTCCTTAAAGTATTCGAGATGATCTACTCCTTTGAGCA
128 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCA
* * * *
188737 ATTTTTCGAACATTCCATCCTCGGGAAATCGAATCATTGGGTCTAAAAAG--TGTCATTTTGTAA
193 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * * * * * *
188800 ACAAGTTTTTGTTTTTTTAATTAACGGAGCTTATTTACTTGAGAATTGTTTCTCTCTTTGTTCTT
258 ACAA-CTTTTGGTCTTTGAATTAA--AAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTT
* * *
188865 GGACAAACTTCGAAACTTGTCAAACTTTTACGAGTTCTTTTGTAACATCGGTTCCTTAAAGTATT
320 GGACAAACTTCG-AACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATT
* * *
188930 CAAGACGATTCATTCCTTTGAACAATTTCTCGAGCATTCCATGCTC
384 CAAGACGATCCATTCCTTCGAACAATTT-TCGAACATTCCATGCTC
** * * ***
188976 TGGGTATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTAGTCTCCAAATTA
1 -GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
* *
189041 AAAACTTATTTACGTGAGAATTGTTTCTCT-TTCGGTTCTTGGACGATCTCTCGAACCTGTCTAA
65 AAAACTTATTTACGTGAGAATTGTTTCTCTCTT-GGTTCTTGGACGAACT-TCGAACCTGTCAAA
* * * **
189105 CTTTTACGAGTTATTTTATAACTTCGATTCTTTAAAGTATTCTTGACGATCCATTCATTA-AGGC
128 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGA-GC
*
189169 AATTTTTCGAACATTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
192 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* * *
189234 AACAACTTTTAGACTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGTTCTTGG
257 AACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGG
* * * *
189299 ACAATCTCCCGAACTTGTAAAACTTTTACGAGTTCTTTTATAGCTTTGGTTCCTTAAAGTATTCA
322 ACAAACT-TCGAACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
** * *
189364 AGAAAATCCATTCCTTCGAGCAATTTTCTAAACATTCCATGCTC
386 AGACGATCCATTCCTTCGAACAATTTTC-GAACATTCCATGCTC
* * * * * * *
189408 GAAAAT--C-GCATTTGATCTAAATAGTTTGTAATTTTGTAAATAAGTTTTCTGGTCTTTGGATT
1 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA-CTTT-TGGTCTTTGAATT
* * * ** *
189470 AAAAACTTATTTACGTGAGAATTGTCTGTCTCTTGGTTCTTGGACGAAATTTAAAACCTGTCTAA
64 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCGAACCTGTCAAA
* ** * * * * * *
189535 CTTTTACGAATTCTTTTATAACTTCAATTCCTTGAAGTATGCAAGACGATCCACTCCTTCGAGTA
128 CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCA
* *
189600 ATTTTTCGAACATTCCATGCTTGGGATATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
193 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
* * * * *
189665 ACAAGTTTTTGTGTTTGAATTCAAAGAACTTATTTACATGAGAATTATTTGTCTCTTGGTTCTTG
258 ACAACTTTTGGTCTTTGAATT-AAA-AACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTG
* * * * ** *
189730 GAAGAAATTTTGAACCTGTCTAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTC
321 G-ACAAACTTCGAACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC
* * * * *
189795 AAGACGATCCATTCCTTCGAGCAATTATCCGACCCTTCCTTGCTC
385 AAGACGATCCATTCCTTCGAACAATT-TTCGAACATTCCATGCTC
* ** * * * *
189840 GAAAAATCACATCATTTGGAGTAAATAGTTTGTAATTTTGTAAATAAGTTTTTTGGTCTTTGGAT
1 G-GAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAA--CTTTTGGTCTTTGAAT
* * * *
189905 TAAAAACTTATTTACGTGAGAATTGTTTGTCTCTTGGTTCTAGGACGAAATTTCGAACCTGTCTA
63 TAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCGAACCTGTCAA
* * * * * *
189970 ACTTTTACGACTTTTTTTATAACTTTGGTTCTTTAAAGCATTCAAGACGATCCATTCTTTAGAGC
127 ACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGC
* * * *
190035 AA-TTTTCAAACATTTCATGCTCAGGAAATCGCATCATTTGGTCTAAATTGTTTGTCATTTTGTA
192 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
190099 AACAACTTTTGGTCTTTGAATTAAAAAATTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
257 AACAACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGG
* *
190164 AGAAACTTTCGAACTTGTAAAACTTTTA-GAGTTCTTTTATAACTTCGGTTCCTTAGAGTATTCA
322 ACAAAC-TTCGAACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
* * * *
190228 AGATGATCCATTCATTCGAGA-AATTTTTTGAACATTCCAAG---
386 AGACGATCCATTCCTTCGA-ACAA-TTTTCGAACATTCCATGCTC
* *
190269 GGAAATCACATCATTTGGTCTAAATTGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAA
1 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
* * * * * *
190334 AAACTTA-TTATGTGAGAATTGTTTCTTTGTTGGTTCTTGGACAAACTTCCGAACTTATCAAACT
66 AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CGAACCTGTCAAACT
* ** *
190398 TTTATGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCTTGACGATCCATTCATTAGAGCATT
130 TTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAAT
* * * *
190463 TTTTCGAACATTCCTTGCTC--G--AGCACATCATTTGGTTTAAATAGTTTGTCATTTT-TAAA
195 TTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
190522 AGTTTTGTTT
Statistics
Matches: 1682, Mismatches: 254, Indels: 92
0.83 0.13 0.05
Matches are distributed among these distances:
421 4 0.00
422 30 0.02
424 5 0.00
425 96 0.06
426 41 0.02
428 87 0.05
429 21 0.01
430 320 0.19
431 214 0.13
432 449 0.27
433 143 0.09
434 16 0.01
435 93 0.06
436 159 0.09
437 4 0.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (428 bp):
GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
AAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGAACCTGTCAAACTT
TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCATTAGAGCAATT
TTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACA
ACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTTGGACAA
ACTTCGAACTTGTAAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG
ATCCATTCCTTCGAACAATTTTCGAACATTCCATGCTC
Found at i:191206 original size:215 final size:215
Alignment explanation
Indices: 190821--191356 Score: 770
Period size: 215 Copynumber: 2.5 Consensus size: 215
190811 AATTTACGAC
* * *
190821 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTATCATTTTGTAAACTACTTTTGGC
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
190886 CTTTCATTTGAAAACTTATTTATGTGAGAATTGTTTCTCTCTTAGTTCTTGGACGATCCCCTGAA
66 CTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGACAATCCCCTGAA
* ** *
190951 CTTGTCAAACTTTTAGAGTTCTTTTGTAACTTTGGTTCCTTAAAGTATTCAAGACGATCCA-TTC
131 CTTGTCAAACTTTTAGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACAATCCATTTC
*
191015 ATCAAAGCAATTTTCCGAACA
196 ATC-AAGCAATTTTCCAAACA
** *
191036 TTCCATGCTCGGGAAATCTTATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACCACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * *
191101 CTTTGAATT-AAAACTTATTTACGTGACAATTGTTTCTCTCGTGGTTCTTGGACAATCTCCTGAA
66 CTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGACAATCCCCTGAA
*
191165 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGATAATCCATTT
131 CTTGTCAAACTTTTA-GAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACAATCCATTT
* * *
191230 CTTCGAGCAATTTTCTAAACA
195 CATCAAGCAATTTTCCAAACA
* * *
191251 TTCCATGCTCGGAAAATCGCATCATTTGGTATAAATAGTTTGTCATTTTATAAACAACTTTTGGT
1 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * *
191316 CTTTTAATTAAAAAATTATTTACGTGAGAATTATTTCTCTC
66 CTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC
191357 AAGGAAACCC
Statistics
Matches: 286, Mismatches: 32, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
214 64 0.22
215 189 0.66
216 33 0.12
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (215 bp):
TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
CTTTCAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCGTAGTTCTTGGACAATCCCCTGAA
CTTGTCAAACTTTTAGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACAATCCATTTC
ATCAAGCAATTTTCCAAACA
Found at i:194776 original size:37 final size:37
Alignment explanation
Indices: 194689--195009 Score: 437
Period size: 37 Copynumber: 8.7 Consensus size: 37
194679 TTACATTTAA
* ** *
194689 GTATTTGGGCTATGTGCCTAGCAAACTTTGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
194726 -TATTCGGGCTATGTGCCTAGCAGGCTTCGTGCTGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
194762 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
194799 GTATTCAGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * * **
194836 GTATTCGGGCTCTGTGCCTAGTAGGCTTTGTGTTGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * **
194873 GTATTCGGGCTATGTGCCTAGTAGGCTTCGTGTCAAT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* *
194910 GTATTCGGGCTATGTGTCTAGCAGGATTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * *
194947 GTATCCGGGCTCTGTGCCTAGTAGGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* *
194984 GTATTCGAGCTTTGTGCCTAGCAGGC
1 GTATTCGGGCTATGTGCCTAGCAGGC
195010 CATTGTGCCA
Statistics
Matches: 250, Mismatches: 33, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
36 31 0.12
37 219 0.88
ACGTcount: A:0.12, C:0.21, G:0.33, T:0.33
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
Found at i:194807 original size:21 final size:21
Alignment explanation
Indices: 194783--194846 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
194773 ATGTGCCTAG
194783 CAGGCTTCGTGCCGGTGTATT
1 CAGGCTTCGTGCCGGTGTATT
*
194804 CAGGCTAT-GTGCC----TA-G
1 CAGGCT-TCGTGCCGGTGTATT
194820 CAGGCTTCGTGCCGGTGTATT
1 CAGGCTTCGTGCCGGTGTATT
*
194841 CGGGCT
1 CAGGCT
194847 CTGTGCCTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
15 1 0.03
16 11 0.33
17 2 0.06
20 2 0.06
21 16 0.48
22 1 0.03
ACGTcount: A:0.11, C:0.25, G:0.34, T:0.30
Consensus pattern (21 bp):
CAGGCTTCGTGCCGGTGTATT
Found at i:201605 original size:12 final size:12
Alignment explanation
Indices: 201588--201629 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
201578 TATCTTCTTG
201588 TTTTTCATTTTC
1 TTTTTCATTTTC
*
201600 TTTTTC-TTCTTG
1 TTTTTCATT-TTC
201612 TTTTTCATTTTC
1 TTTTTCATTTTC
201624 TTTTTC
1 TTTTTC
201630 CTCTTGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 2 0.08
12 22 0.85
13 2 0.08
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTCATTTTC
Found at i:201612 original size:24 final size:24
Alignment explanation
Indices: 201580--201635 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
201570 TGTATGGGTA
201580 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCTTTT
201604 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCTTGTTTTTCATTTTCTTTT
*
201628 TCCTCTTG
1 TCTTCTTG
201636 AGAACTCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTCTTTT
Found at i:203651 original size:19 final size:19
Alignment explanation
Indices: 203627--203664 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
203617 ACCCACAGAA
203627 TATTTTT-TTATTTTTCTCG
1 TATTTTTCTT-TTTTTCTCG
203646 TATTTTTCTTTTTTTCTCG
1 TATTTTTCTTTTTTTCTCG
203665 ACTTTTTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (19 bp):
TATTTTTCTTTTTTTCTCG
Found at i:210178 original size:23 final size:24
Alignment explanation
Indices: 210152--210205 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
210142 GAGAGTTCTT
*
210152 AAGAGGAAAAAGAAAATGAAAAA-
1 AAGAAGAAAAAGAAAATGAAAAAC
*
210175 AAGAAGAAAATGAAAATGAAAAAC
1 AAGAAGAAAAAGAAAATGAAAAAC
210199 AAGAAGA
1 AAGAAGA
210206 TACCCATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (24 bp):
AAGAAGAAAAAGAAAATGAAAAAC
Found at i:210897 original size:24 final size:24
Alignment explanation
Indices: 210865--210913 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
210855 AAAGTGTCCC
210865 ATAAGTCCTCTGCCTCTTGAACCA
1 ATAAGTCCTCTGCCTCTTGAACCA
210889 ATAAGTCCTCTGCCTCTTGAACCA
1 ATAAGTCCTCTGCCTCTTGAACCA
210913 A
1 A
210914 GAGTTCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.29
Consensus pattern (24 bp):
ATAAGTCCTCTGCCTCTTGAACCA
Found at i:214036 original size:15 final size:15
Alignment explanation
Indices: 213985--214044 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
213975 CGAGCATTGG
* *
213985 TGTTGCGAGCACCCA
1 TGTTGCGAACACTCA
* *
214000 TGTTACGAACACTGGA
1 TGTTGCGAACACT-CA
*
214016 -GCTGCGAACACTCA
1 TGTTGCGAACACTCA
*
214030 TGTTGCGAGCACTCA
1 TGTTGCGAACACTCA
214045 CATTGAGAAC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (15 bp):
TGTTGCGAACACTCA
Found at i:218564 original size:12 final size:12
Alignment explanation
Indices: 218544--218587 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
218534 GAGAGTTCTC
*
218544 AAAAGGAAAAAG
1 AAAATGAAAAAG
218556 AAAATGAAAAAG
1 AAAATGAAAAAG
218568 -AAA--AAAAAG
1 AAAATGAAAAAG
218577 AAAATGAAAAA
1 AAAATGAAAAA
218588 CAAGAAGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 6 0.21
10 3 0.11
11 3 0.11
12 16 0.57
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAATGAAAAAG
Found at i:218579 original size:15 final size:15
Alignment explanation
Indices: 218551--218593 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
218541 CTCAAAAGGA
218551 AAAAGAAAATGAAAAAG
1 AAAA-AAAA-GAAAAAG
*
218568 AAAAAAAAGAAAATG
1 AAAAAAAAGAAAAAG
*
218583 AAAAACAAGAA
1 AAAAAAAAGAA
218594 GATACCCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 16 0.67
16 4 0.17
17 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:230724 original size:16 final size:16
Alignment explanation
Indices: 230699--230740 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
230689 TAATCTTTGT
*
230699 TGTCTTGAAGAGAACA
1 TGTCTCGAAGAGAACA
230715 TGTCTCGAAGAGAACA
1 TGTCTCGAAGAGAACA
230731 TGTCTCGAAG
1 TGTCTCGAAG
230741 TCCCAATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (16 bp):
TGTCTCGAAGAGAACA
Found at i:239771 original size:215 final size:215
Alignment explanation
Indices: 239085--242017 Score: 2989
Period size: 216 Copynumber: 13.6 Consensus size: 215
239075 GCTCGCATCA
* * * *
239085 CATTTGGTCTAAATAGTTTGTCAGTTTG-AAGACGACTTTGGGTCTTTTAATTAAAAA-TATATT
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAA-ACAACTTTTGGTCTTTGAATTAAAAACT-TATT
** * * ** *
239148 TAGAAGAGAATTGTCTCTCTCTTGGTTCTCGGTCCAACTTTTGAACTTGACAAACTTTTACGAGT
64 TAGGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGT
* * * *
239213 T-TTTTATAACTTCGGTTACTTAAAGTATTGAAAGATGATGT-ATTCCTTTGAGCAATTTTTCGA
129 TCTTTTATAACTTCGGTTCCTTAAAGTATT-CAAGACGAT-TCATTCCTTCGAGCAA-TTTTCGA
* * *
239276 ACATTCAATGCTTGGGAAATTGCAT
191 ACATTCCATGCTCGGGAAATCGCAT
* *
239301 CATTCGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTTAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * *
239366 GGTGAAAATTGTTTCTCTCTTGGTTCACGG-CTGAACTTACAAACTTGAT-AAACTTTTACGAGT
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTC-GAACTTCCGAACTTG-TCAAACTTTTACGAGT
* * * * *
239429 TCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAATTAATTCCTTCGAGCTATTTTCTAAAC
129 TCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTC-GAAC
** *
239494 ATTCCATGCTCAAGAAATCACAT
193 ATTCCATGCTCGGGAAATCGCAT
* * * * **
239517 CATTTAGTCTAAACAGTTTGTCATTTTGTAAAAAACTTTTGGTATTCAAATTAAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * ** * *
239582 TGTGAGAATTGTTTCTTTCTAT-GTTCAAGGTCAAACTTCCAAACTTGTCAAACTTTTACGAGTT
66 GGTGAGAATTGTTTCTCTCT-TGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* ** * * * *
239646 CTTTT-TAACTTTGGGTT-CTTAAAGTAGGCAAGATGATTCATTCCTTTGAGAAATATTTCAAAC
130 CTTTTATAAC-TTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAAT-TTTCGAAC
* * *
239709 ATTCCATGATAGGGAAATCACAT
193 ATTCCATGCTCGGGAAATCGCAT
* * *
239732 CATTTGGTCTAAATAGTTTGTCATTTTGAAAATAACTTTTGGTCTTTGAATTTAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * *
239797 GGTGAGAATTGTTTCTCTCTTCGTTCTTGGTCGAACTTTCGATCTTTTCAAACTTTTACAAGTTC
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* * * * *
239862 TTTCATAACTTTGGTTCCTTAAAGTATTCAAGATGATTCATTCCTTCAAGCAATTTTTCGACCAT
131 TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAA-TTTTCGAACAT
*
239927 TTCA-GTCTCGGGAAATCGCAT
195 TCCATG-CTCGGGAAATCGCAT
* * * * *
239948 CATTTGTTCTAATTAGTTTGTCATTTTGAAAACAACTCTTGGTGTTTGAATTAAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * * * *
240013 TGTGAGAATTATTTCTCTCCTAGTT-T-GTAGTCGAACTTCCAAAGTTGTCAAACTTTCACAAGT
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCG--GTCGAACTTCCGAACTTGTCAAACTTTTACGAGT
* * * * *
240076 TCTTTTATAACTTTGATTTC-TAAAGTATTCAAGACGA-TCAATTCATTCGTGCAATTTTTCGAA
129 TCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTCCTTCGAGCAA-TTTTCGAA
* *
240139 CATTCCATGCTTGGGAAATCGTAT
192 CATTCCATGCTCGGGAAATCGCAT
* * * * * * *
240163 CATTTGGTGTAAATAGTTTATCATTCTGTAGACAACTTTGGGTCTTTTAATTAAAAACATATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * * * * *
240228 AGAGAGAATT-ATTCTCTCTT-CTTCTCGGTTGAACTTCTGAACTTGACAAAATTTTATGAGTTC
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* * * * *
240291 TTTTATAACTTCGGTTACTTAAAGTATTCAAAGATGATGCATTCCTTCAAGCAATTTTTTGAACA
131 TTTTATAACTTCGGTTCCTTAAAGTATTC-AAGACGATTCATTCCTTCGAGCAA-TTTTCGAACA
* * *
240356 TTCAATGCTTGGGAAATTGCA-
194 TTCCATGCTCGGGAAATCGCAT
* *
240377 AATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATATA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * *
240442 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTTGAACGTT-AGAACTTGACAAACCTTTACGAGTT
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAAC-TTCCGAACTTGTCAAACTTTTACGAGTT
* * * * * *
240506 CTTTAATAACTTCGTTTCCTTATAGTATTCAAGACGA-TCTATTTCTTCAATG-AATTTCTCAAA
130 CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTCCTTCGA-GCAATTT-TCGAA
* *
240569 CATTCCATTCTCAGGAAATCGCAT
192 CATTCCATGCTCGGGAAATCGCAT
* * * * *
240593 CATTTGGTCTAATTAGTTTTTCATTTTGTCAAA-AAATTTTGATCTTTGAATTTAAAACTTATTT
1 CATTTGGTCTAAATAGTTTGTCATTTTGT-AAACAACTTTTGGTCTTTGAATTAAAAACTTATTT
*** * * * * * ** *
240657 ACAAGATAATTATTTCTCTTTTGGTTCTTGGTCAAACTTTTGAACTTGTCAAACTTTTACAAGTT
65 AGGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* ** *
240722 CTTTTATAACTTCGGTTACAAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACA
130 CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTC-GAACA
*
240787 TTCCATGCTTGGGAAATCGCAT
194 TTCCATGCTCGGGAAATCGCAT
* * **
240809 CATTTGCTCTAAATAGTTTGTCATTTTGTTAACAACTATTT-GTCTTTGAATTAAAATTTTATTT
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACT-TTTGGTCTTTGAATTAAAAACTTATTT
* * * ** * *
240873 ACGTAAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTTTTGAACTTGACAAACTTTTACGACTT
65 AGGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* * * * * ** *
240938 CTTTTATAACTTCGGTTCCTTAACGTATTAAAGACAATCCTTTCCTTCGATTAATTTTCCAAACA
130 CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTT-CGAACA
* * *
241003 TTCCATGCTCGGGGAATTGCTT
194 TTCCATGCTCGGGAAATCGCAT
* * * * * * *
241025 AATTTGGTTTAAACAGATTGTCATTTTCTAAACAACTTTTTGTCTTTAAATT-AAAACATTATTT
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAAC-TTATTT
* * * * *
241089 ACGTGAGAATTGTTTCTCTCTTTGTTCTTGGCCGAACTTCCGAATTTGTCAAACTTTTACGAGTT
65 AGGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* * * * * * *
241154 CTTTTATAACTTCGGTTCTTTAAAGTATTTAAGATGA-CCA-ACCTTTCAAGCAATTTTCCAAAC
130 CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCC-TTCGAGCAATTTT-CGAAC
*
241217 ATTCCATGCTCGGTAAATCGCAT
193 ATTCCATGCTCGGGAAATCGCAT
* * * * **
241240 TATTTGGTCTAAATAGTTTGTCATTTGGCATACAACTTTTTCTCTTCT-AATTAAAAACTTATTT
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTT-TGAATTAAAAACTTATTT
* * * * *
241304 ACGTGAGAATTGTTTCTCTCTTGATTCTTGGTCGAACTTCCGAACTTGTCCAACTTTTATGAGTT
65 AGGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* * * *
241369 CTTTCATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGAACA
130 CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAA-TTTTCGAACA
241434 TTCCATGCTCGGGAAATCGCAT
194 TTCCATGCTCGGGAAATCGCAT
* * * *
241456 TATTTGGTCTAAATAATTTGTCATTTTGTAAATAACTTTTGGTCTTTAAATTAAAAA-TTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * ** * * *
241520 GGTGAGAATTGTATCTCTCTTGGTTCACGACCGAACTTCCGAACTTGACGAACTTTTACAAGTTC
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* * *
241585 TTTTATAACTTTGGTTCCTTAAAGAATTCAAGACGA-TCTATTCCTTCGAGAAATTTTTCGAACA
131 TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTCCTTCGAGCAA-TTTTCGAACA
*
241649 TTCCATTCTCGGGAAATCGCAT
194 TTCCATGCTCGGGAAATCGCAT
* * * * *
241671 CAATTAGTCTAAATAGTTTTTCATTTTGTAAACAACTTTTAGTCTTCGAATTAAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
241736 TGTGAGAATTGTTTCTCTCTAGGTTCTTGG-CTGAACCTCCGAACTTGTCAAACTTTTATGAGTT
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTC-GAACTTCCGAACTTGTCAAACTTTTACGAGTT
* * * *
241800 CCTTTT-TAACTTTGGTTACTTAAAGTAGTCAAGAC-AATCATTCCATT-GAGCAATTTT-GCAA
130 -CTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCC-TTCGAGCAATTTTCG-AA
*** *
241861 GCATTCCATGCTCTAAAAATCACAT
192 -CATTCCATGCTCGGGAAATCGCAT
* * * ** *
241886 CATTTGATCTAAATAGTTTGTTATTTTGTAAACAACTGTTCATATTTGAATTAAAAACTTATTTA
1 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
*** * * * * * * * *
241951 GGTGATTGTTGTTTCTCACTAGGTTCTTGGTAGAACTTTCGAACTTGTCAAAATTTTTCGAGCTC
66 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
242016 TT
131 TT
242018 GGTAGAACTT
Statistics
Matches: 2272, Mismatches: 386, Indels: 120
0.82 0.14 0.04
Matches are distributed among these distances:
213 45 0.02
214 103 0.05
215 905 0.40
216 1166 0.51
217 53 0.02
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (215 bp):
CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTA
GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTCGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
TTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTCGAACATT
CCATGCTCGGGAAATCGCAT
Found at i:239907 original size:431 final size:428
Alignment explanation
Indices: 239085--242007 Score: 2895
Period size: 431 Copynumber: 6.8 Consensus size: 428
239075 GCTCGCATCA
* * * **
239085 CATTTGGTCTAAATAGTTTGTCAGTTTG-AAGACGACTTTGGGTCTTTTAATTAAAAA-TATATT
1 CATTT-GTCTAAATAGTTTGTCATTTTGTAA-ACAACTTTTGGTCTTCGAATTAAAAACT-TATT
* * * * *** *
239148 TA-GAAGAGAATTGTCTCTCTCTTGGTTCTCGGTCCAACTTTTGAACTTGACAAACTTTTACGAG
63 TATG-TGAGAATTGTTTCTCTCTT-GTTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAG
* * * * *
239212 TT-TTTTATAACTTCGGTTACTTAAAGTATTGAAAGATGATGT-ATTCCTTTGAGCAATTTTTCG
126 TTCTTTT-TAACTTCGGTTCCTTAAAGTATT-CAAGACGAT-TCATTCCTTCGAGCAA-TTTTCA
* * * *
239275 AACATTCAATGCTTGGGAAATTGCATCATTCGGTCTAAATAGTTTGTCATTTTGTAAACAACTTT
187 AACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTT
* **
239340 TGGTCTTTGAATTTAAAACTTATTTAGGTGAAAATTGTTTCTCTCTTGGTTCACGG-CTGAACTT
252 TGGTCTTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTC-GAACTT
* * * * *
239404 ACAAACTTGAT-AAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAAT
316 TCGAACTTG-TCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGAT
* * * * ** *
239468 TAATTCCTTCGAGCTATTTTCTAAACATTCCATGCTCAAGAAATCACAT
380 TCATTCCTTCAAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCAT
* * * *
239517 CATTTAGTCTAAACAGTTTGTCATTTTGTAAAAAACTTTTGGTATTCAAATTAAAAACTTATTTA
1 CATTT-GTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTA
* * *
239582 TGTGAGAATTGTTTCTTTCTATGTTCAAGGTCAAACTTCCAAACTTGTCAAACTTTTACGAGTTC
65 TGTGAGAATTGTTTCTCTCT-TGTTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAGTTC
* ** * * *
239647 TTTTTAACTTTGGGTT-CTTAAAGTAGGCAAGATGATTCATTCCTTTGAGAAATATTTCAAACAT
129 TTTTTAAC-TTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAAT-TTTCAAACAT
* * * * *
239711 TCCATGATAGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGAAAATAACTTTTGGTC
192 TCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* *
239776 TTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTCGTTCTTGGTCGAACTTTCGATC
257 TTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAAC
* * * *
239841 TTTTCAAACTTTTACAAGTTCTTTCATAACTTTGGTTCCTTAAAGTATTCAAGATGATTCATTCC
322 TTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCC
* *
239906 TTCAAGCAATTTT-TCGACCATTTCA-GTCTCGGGAAATCGCAT
387 TTCAAGCAATTTTCT-GAACATTCCATG-CTCGGGAAATCGCAT
* * * * *
239948 CATTTGTTCTAATTAGTTTGTCATTTTGAAAACAACTCTTGGTGTTTGAATTAAAAACTTATTTA
1 CATTTG-TCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTA
* * * * * *
240013 TGTGAGAATTATTTCTCTCCTAGTTTGTA-GTCGAACTTCCAAAGTTGTCAAACTTTCACAAGTT
65 TGTGAGAATTGTTTCTCT-CTTG-TTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAGTT
* * * * * *
240077 CTTTTATAACTTTGATTTC-TAAAGTATTCAAGACGA-TCAATTCATTCGTGCAATTTTTCGAAC
128 CTTTT-TAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTCCTTCGAGCAA-TTTTCAAAC
* * * * * * *
240140 ATTCCATGCTTGGGAAATCGTATCATTTGGTGTAAATAGTTTATCATTCTGTAGACAACTTTGGG
190 ATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * * * * * * * *
240205 TCTTTTAATTAAAAACATATTTAAGAGAGAATT-ATTCTCTCTT-CTTCTCGGTTGAAC-TTCTG
255 TCTTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTC-G
* * ** * * *
240267 AACTTGACAAAATTTTATGAGTTCTTTTATAACTTCGGTTACTTAAAGTATTCAAAGATGATGCA
319 AACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC-AAGACGATTCA
* * * *
240332 TTCCTTCAAGCAATTTTTTGAACATTCAATGCTTGGGAAATTGCA-
383 TTCCTTCAAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCAT
* * *
240377 AATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATATA
1 CATTT-GTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTA
* * * * *
240442 GGTGAGAATTGTTTCTCTCTTGGTTCTCGGTTGAACGTT--AGAACTTGACAAACCTTTACGAGT
65 TGTGAGAATTGTTTCTCTCTT-GTTCTAGGTCGAAC-TTCCA-AACTTGTCAAACTTTTACGAGT
* * * * *
240505 TCTTTAATAACTTCGTTTCCTTATAGTATTCAAGACGA-TCTATTTCTTCAATG-AATTTCTCAA
127 TCTTT-TTAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTCCTTCGA-GCAATTT-TCAA
* * * * *
240568 ACATTCCATTCTCAGGAAATCGCATCATTTGGTCTAATTAGTTTTTCATTTTGTCAAA-AAATTT
188 ACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT-AAACAACTTT
* *** * * * *
240632 TGATCTTTGAATTTAAAACTTATTTACAAGATAATTATTTCTCTTTTGGTTCTTGGTCAAACTTT
252 TGGTCTTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTT
* * ** *
240697 TGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTACAAAAAGTATTCAAGACGATCC
317 CGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC
* *
240762 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTTGGGAAATCGCAT
382 ATTCCTTCAAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCAT
* * **
240809 CATTTGCTCTAAATAGTTTGTCATTTTGTTAACAACTATTT-GTCTTTGAATTAAAATTTTATTT
1 CATTTG-TCTAAATAGTTTGTCATTTTGTAAACAACT-TTTGGTCTTCGAATTAAAAACTTATTT
* * * * *** * *
240873 ACGTAAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTTTTGAACTTGACAAACTTTTACGACTT
64 ATGTGAGAATTGTTTCTCTCTT-GTTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAGTT
* * * * * **
240938 CTTTTATAACTTCGGTTCCTTAACGTATTAAAGACAATCCTTTCCTTCGATTAATTTTCCAAACA
128 CTTTT-TAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTT-CAAACA
* * * * * * * * *
241003 TTCCATGCTCGGGGAATTGCTTAATTTGGTTTAAACAGATTGTCATTTTCTAAACAACTTTTTGT
191 TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * * *
241068 CTTT-AAATTAAAACATTATTTACGTGAGAATTGTTTCTCTCTTTGTTCTTGGCCGAACTTCCGA
256 CTTTGAATTTAAAAC-TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGA
* * * * * * *
241132 ATTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCTTTAAAGTATTTAAGATGA-CCA-A
320 ACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATT
** *
241195 CCTTTCAAGCAATTTTCCAAACATTCCATGCTCGGTAAATCGCAT
385 CC-TTCAAGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCAT
* * * * ** *
241240 TATTTGGTCTAAATAGTTTGTCATTTGGCATACAACTTTTTCTCTTCTAATTAAAAACTTATTTA
1 CATTT-GTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTA
* * * * *
241305 CGTGAGAATTGTTTCTCTCTTGATTCTTGGTCGAACTTCCGAACTTGTCCAACTTTTATGAGTTC
65 TGTGAGAATTGTTTCTCTCTTG-TTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAGTTC
* * * * *
241370 TTTCATAACATCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGAACAT
129 TTT-TTAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAA-TTTTCAAACAT
* * *
241435 TCCATGCTCGGGAAATCGCATTATTTGGTCTAAATAATTTGTCATTTTGTAAATAACTTTTGGTC
192 TCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTC
* * * ** ** *
241500 TTT-AAATTAAAAATTATTTAGGTGAGAATTGTATCTCTCTTGGTTCACGACCGAACTTCCGAAC
257 TTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAAC
* * * *
241564 TTGACGAACTTTTACAAGTTCTTTTATAACTTTGGTTCCTTAAAGAATTCAAGACGA-TCTATTC
322 TTGTCAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTC-ATTC
* * *
241628 CTTCGAGAAATTTT-TCGAACATTCCATTCTCGGGAAATCGCAT
386 CTTCAAGCAATTTTCT-GAACATTCCATGCTCGGGAAATCGCAT
* * *
241671 CAATTAGTCTAAATAGTTTTTCATTTTGTAAACAACTTTTAGTCTTCGAATTAAAAACTTATTTA
1 C-ATTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTA
* * * * *
241736 TGTGAGAATTGTTTCTCTCTAGGTTCTTGG-CTGAACCTCCGAACTTGTCAAACTTTTATGAGTT
65 TGTGAGAATTGTTTCTCTCT-TGTTCTAGGTC-GAACTTCCAAACTTGTCAAACTTTTACGAGTT
* * * * *
241800 CCTTTTTAACTTTGGTTACTTAAAGTAGTCAAGAC-AATCATTCCATT-GAGCAATTTTGCAAGC
128 -CTTTTTAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCC-TTCGAGCAATTTT-CAAAC
*** * * * * **
241863 ATTCCATGCTCTAAAAATCACATCATTTGATCTAAATAGTTTGTTATTTTGTAAACAACTGTTCA
190 ATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGG
* * *** * * *
241928 TATTTGAATTAAAAACTTATTTAGGTGATTGTTGTTTCTCACTAGGTTCTTGGTAGAACTTTCGA
255 TCTTTGAATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGA
*
241993 ACTTGTCAAAATTTT
320 ACTTGTCAAACTTTT
242008 TCGAGCTCTT
Statistics
Matches: 2066, Mismatches: 362, Indels: 127
0.81 0.14 0.05
Matches are distributed among these distances:
428 9 0.00
429 175 0.08
430 347 0.17
431 1020 0.49
432 494 0.24
433 21 0.01
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (428 bp):
CATTTGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTCGAATTAAAAACTTATTTAT
GTGAGAATTGTTTCTCTCTTGTTCTAGGTCGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTT
TTTAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTCAAACATTCCA
TGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTG
AATTTAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTTCGAACTTGT
CAAACTTTTACAAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATTCATTCCTTCA
AGCAATTTTCTGAACATTCCATGCTCGGGAAATCGCAT
Found at i:246819 original size:6 final size:6
Alignment explanation
Indices: 246794--246845 Score: 58
Period size: 6 Copynumber: 9.2 Consensus size: 6
246784 ACTAGCAAAC
*
246794 AAAAG- AAAAG- AAAAGAA AAAAGA AAAAG- AAAA-A AAGAGA AAAAGA
1 AAAAGA AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
246839 AAAAGA A
1 AAAAGA A
246846 TGAGTTGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 17 0.41
6 19 0.46
7 5 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:246828 original size:16 final size:16
Alignment explanation
Indices: 246794--246842 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
246784 ACTAGCAAAC
246794 AAAAG-AAAAGAAAAGAA
1 AAAAGAAAAAG-AAA-AA
246811 AAAAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
*
246827 AAGAGAAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
246843 GAATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 17 0.57
17 8 0.27
18 5 0.17
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAA
Found at i:246842 original size:22 final size:23
Alignment explanation
Indices: 246794--246845 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
246784 ACTAGCAAAC
246794 AAAAGAAAAGAAAAGAAAAAAGA
1 AAAAGAAAAGAAAAGAAAAAAGA
246817 AAAAG-AAA-AAAAGAGAAAAAGA
1 AAAAGAAAAGAAAAGA-AAAAAGA
246839 AAAAGAA
1 AAAAGAA
246846 TGAGTTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.22
22 15 0.56
23 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAGAAAAGAAAAAAGA
Found at i:248011 original size:80 final size:81
Alignment explanation
Indices: 247912--248093 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 81
247902 GAAGTTACAT
* * * *
247912 ATCTCTTACCCCAACCATGAGGCAGATTGAAGCCAT-CAAATCTTTTACTCTAATAAGAGGGCAA
1 ATCTCTTACCCCAACCATGAGGCAGATTGAAACCATAC-AATCTTTTACCCTAACAAGAGGACAA
* *
247976 ATTGAAGACATCATCTA
65 ATTGAAGACACCATCCA
* * *
247993 ATCTCTTA-CCCAACCATGAGGCAGATTGAAATCATACAATCTTTTACCCTGACAAGAGGACAGA
1 ATCTCTTACCCCAACCATGAGGCAGATTGAAACCATACAATCTTTTACCCTAACAAGAGGACAAA
*
248057 TTGAAGATACCATCCA
66 TTGAAGACACCATCCA
* * *
248073 ATCTTTTATCCTAACCATGAG
1 ATCTCTTACCCCAACCATGAG
248094 AATCTTTTAC
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 67 0.77
81 20 0.23
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (81 bp):
ATCTCTTACCCCAACCATGAGGCAGATTGAAACCATACAATCTTTTACCCTAACAAGAGGACAAA
TTGAAGACACCATCCA
Found at i:248034 original size:38 final size:38
Alignment explanation
Indices: 247907--248041 Score: 96
Period size: 39 Copynumber: 3.4 Consensus size: 38
247897 GGAGTGAAGT
* *
247907 TACATATCTCTTACCCCAACCATGAGGCAGATTGAAGCCA
1 TACAAATCTCTTA-CCCAACCATGAGGCAGATTGAA-ACA
* * * * *
247947 T-CAAATCTTTTACTCTAA-TAAGAGGGCAAATTGAAGACA
1 TACAAATCTCTTAC-CCAACCATGA-GGCAGATTGAA-ACA
*
247986 TCATCTAATCTCTTACCCAACCATGAGGCAGATTGAAATCA
1 T-A-CAAATCTCTTACCCAACCATGAGGCAGATTGAAA-CA
*
248027 TAC-AATCTTTTACCC
1 TACAAATCTCTTACCC
248042 TGACAAGAGG
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
38 15 0.20
39 27 0.36
40 3 0.04
41 16 0.22
42 13 0.18
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (38 bp):
TACAAATCTCTTACCCAACCATGAGGCAGATTGAAACA
Found at i:248079 original size:42 final size:40
Alignment explanation
Indices: 247912--248087 Score: 130
Period size: 42 Copynumber: 4.4 Consensus size: 40
247902 GAAGTTACAT
* * * *
247912 ATCTCTTACCCCAACCATGAGGCAGATTGAAG--CCATCAA
1 ATCTTTTACCCTAA-CAAGAGGCAGATTGAAGATCCATCCA
* * * *
247951 ATCTTTTACTCTAATAAGAGGGCAAATTGAAGA-CATCATCTA
1 ATCTTTTACCCTAACAAGA-GGCAGATTGAAGATC--CATCCA
* * *
247993 ATCTCTTACCC-AACCATGAGGCAGATTGAA-AT-CATACA
1 ATCTTTTACCCTAA-CAAGAGGCAGATTGAAGATCCATCCA
*
248031 ATCTTTTACCCTGACAAGAGGACAGATTGAAGATACCATCCA
1 ATCTTTTACCCTAACAAGAGG-CAGATTGAAGAT-CCATCCA
*
248073 ATCTTTTATCCTAAC
1 ATCTTTTACCCTAAC
248088 CATGAGAATC
Statistics
Matches: 106, Mismatches: 20, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
38 23 0.22
39 32 0.30
40 4 0.04
41 12 0.11
42 35 0.33
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (40 bp):
ATCTTTTACCCTAACAAGAGGCAGATTGAAGATCCATCCA
Found at i:248131 original size:64 final size:64
Alignment explanation
Indices: 248030--248155 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 64
248020 GAAATCATAC
* * * *
248030 AATCTTTTACCCTGACAAGAGGACAGATTGAAGATACCATCCAATCTTTTATCCTAACCATGAG
1 AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATGAG
248094 AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATG
1 AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATG
248156 GGGCAAATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (64 bp):
AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATGAG
Found at i:248185 original size:39 final size:39
Alignment explanation
Indices: 248131--248267 Score: 141
Period size: 39 Copynumber: 3.4 Consensus size: 39
248121 TTGAAGATAC
* *
248131 CATCCAATCTCTTACCCCAACCATGGGGCAAATTGAAGG
1 CATCCAATCTTTTACCCCAACCATGGGGCAAATTGAAGA
* * * *
248170 CATCCAATCTTTTACCCTAA-CAAGAGGGCAGATTGAATACA
1 CATCCAATCTTTTACCCCAACCATG-GGGCAAATTG-A-AGA
* * *
248211 CTATCCAATCTTTTACCCCAACCATTGGACAAATTGAAGC
1 C-ATCCAATCTTTTACCCCAACCATGGGGCAAATTGAAGA
*
248251 CATCTAATCTTTTACCC
1 CATCCAATCTTTTACCC
248268 TAACAAGAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
38 3 0.04
39 42 0.53
40 3 0.04
41 3 0.04
42 26 0.33
43 2 0.03
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (39 bp):
CATCCAATCTTTTACCCCAACCATGGGGCAAATTGAAGA
Found at i:248217 original size:145 final size:144
Alignment explanation
Indices: 247950--248235 Score: 392
Period size: 145 Copynumber: 2.0 Consensus size: 144
247940 GAAGCCATCA
* * * * *
247950 AATCTTTTACTCTAATAAGAGGGCAAATTGAAGACATCATCTAATCTCTTACCCAACCATGAGGC
1 AATCTTTTACCCTAACAAGAGGACAAATTGAAGACACCATCCAATCTCTTACCCAACCATGAGGC
* * * *
248015 AGATTGAAATCATACAATCTTTTACCCTGACAAGAGGACAGATTGAAGATACCATCCAATCTTTT
66 AAATTGAAAGCATACAATCTTTTACCCTAACAAGAGGACAGATTGAAGACACCATCCAATCTTTT
* *
248080 ATCCTAACCATGAG
131 ACCCCAACCATGAG
* * *
248094 AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATGGGG
1 AATCTTTTACCCTAACAAGAGGACAAATTGAAGACACCATCCAATCTCTTA-CCCAACCATGAGG
* * * * *
248159 CAAATTGAAGGCATCCAATCTTTTACCCTAACAAGAGGGCAGATTGAATACACTATCCAATCTTT
65 CAAATTGAAAGCATACAATCTTTTACCCTAACAAGAGGACAGATTGAAGACACCATCCAATCTTT
248224 TACCCCAACCAT
130 TACCCCAACCAT
248236 TGGACAAATT
Statistics
Matches: 122, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
144 44 0.36
145 78 0.64
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (144 bp):
AATCTTTTACCCTAACAAGAGGACAAATTGAAGACACCATCCAATCTCTTACCCAACCATGAGGC
AAATTGAAAGCATACAATCTTTTACCCTAACAAGAGGACAGATTGAAGACACCATCCAATCTTTT
ACCCCAACCATGAG
Found at i:248229 original size:81 final size:81
Alignment explanation
Indices: 248094--248553 Score: 427
Period size: 81 Copynumber: 5.4 Consensus size: 81
248084 TAACCATGAG
* * * *
248094 AATCTTTTACCCTAACAAGAGGACAGATTGAAGATACCATCCAATCTCTTACCCCAACCATGGGG
1 AATCTTTTACCCTAACAAGAGGGCAGATTGAAGACACCATCCAATCTTTTACCCCAACCAAGGGG
*
248159 CAAATTGAAGGCATCC
66 CAAATTGAAGCCATCC
* * ** *
248175 AATCTTTTACCCTAACAAGAGGGCAGATTGAATACACTATCCAATCTTTTACCCCAACCATTGGA
1 AATCTTTTACCCTAACAAGAGGGCAGATTGAAGACACCATCCAATCTTTTACCCCAACCAAGGGG
*
248240 CAAATTGAAGCCATCT
66 CAAATTGAAGCCATCC
* * **
248256 AATCTTTTACCCTAACAAGAGGGTAGATTGAAGACACCAGCCATCCAATCTTTTACCCTAATAAA
1 AATCTTTTACCCTAACAAGAGGGCAGATTGAAG--A-CA-CCATCCAATCTTTTACCCCAACCAA
*
248321 AGGGCAAATTGAAGTCACCATCC
62 GGGGCAAATTGAAG---CCATCC
* * * * * *
248344 AATCTTTTACCCTAATCCAGACGGCAGATTAAAGCCACCATCCAATCTTTTACCCTAATTC-AGA
1 AATCTTTTACCCTAA-CAAGAGGGCAGATTGAAGACACCATCCAATCTTTTACCCCAA-CCAAG-
248408 GGGCAAATTGAAGCCACTACCC
63 GGGCAAATTGAAGCCA-T--CC
* ** * *
248430 AATCTTTTACCCTAATCTAGAGGAAAGATTAAAGTCACCATCCAATCTTTTACCCCTAATCCAAA
1 AATCTTTTACCCTAA-CAAGAGGGCAGATTGAAGACACCATCCAATCTTTTACCCC-AA-CC-AA
*
248495 GGGGCAGATTGAAGCCACCTTCC
62 GGGGCAAATTGAAGCCA---TCC
** *
248518 CGTCTTTTACCGCTAATCTAGAAGGGCAGATTGAAG
1 AATCTTTTACC-CTAA-CAAG-AGGGCAGATTGAAG
248554 TCACAACACC
Statistics
Matches: 319, Mismatches: 40, Indels: 31
0.82 0.10 0.08
Matches are distributed among these distances:
81 103 0.32
83 4 0.01
84 3 0.01
85 54 0.17
86 68 0.21
87 4 0.01
88 46 0.14
89 25 0.08
90 12 0.04
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (81 bp):
AATCTTTTACCCTAACAAGAGGGCAGATTGAAGACACCATCCAATCTTTTACCCCAACCAAGGGG
CAAATTGAAGCCATCC
Found at i:248384 original size:43 final size:43
Alignment explanation
Indices: 248094--248553 Score: 388
Period size: 43 Copynumber: 10.8 Consensus size: 43
248084 TAACCATGAG
* * **
248094 AATCTTTTACCCTAA-CAAGAGGACAGATTGAAGATACCATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* * * *
248136 AATCTCTTACCCCAA-CCATG-GGGCAAATTGAAG---GCATCC
1 AATCTTTTACCCTAATCCA-GAGGGCAGATTGAAGCCACCATCC
* ** *
248175 AATCTTTTACCCTAA-CAAGAGGGCAGATTGAATACACTATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* ** * * *
248217 AATCTTTTACCCCAA-CCATTGGACAAATTGAAG---CCATCT
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* *
248256 AATCTTTTACCCTAA-CAAGAGGGTAGATTGAAGACACCAGCCATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAG---CCA-CCATCC
* * * *
248302 AATCTTTTACCCTAAT-AAAAGGGCAAATTGAAGTCACCATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* *
248344 AATCTTTTACCCTAATCCAGACGGCAGATTAAAGCCACCATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* * * *
248387 AATCTTTTACCCTAATTCAGAGGGCAAATTGAAGCCACTACCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* ** * *
248430 AATCTTTTACCCTAATCTAGAGGAAAGATTAAAGTCACCATCC
1 AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
* *
248473 AATCTTTTACCCCTAATCCAAAGGGGCAGATTGAAGCCACCTTCC
1 AATCTTTTA-CCCTAATCCAGA-GGGCAGATTGAAGCCACCATCC
** *
248518 CGTCTTTTACCGCTAATCTAGAAGGGCAGATTGAAG
1 AATCTTTTACC-CTAATCCAG-AGGGCAGATTGAAG
248554 TCACAACACC
Statistics
Matches: 334, Mismatches: 66, Indels: 33
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.00
39 61 0.18
42 78 0.23
43 103 0.31
44 12 0.04
45 44 0.13
46 35 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (43 bp):
AATCTTTTACCCTAATCCAGAGGGCAGATTGAAGCCACCATCC
Found at i:249469 original size:4 final size:4
Alignment explanation
Indices: 249419--249458 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
249409 TTATTTTCGC
*
249419 ATTT AATTT ATTG A-TT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
249459 GTCATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
3 2 0.06
4 26 0.81
5 4 0.12
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:249579 original size:106 final size:106
Alignment explanation
Indices: 249383--249582 Score: 257
Period size: 105 Copynumber: 1.9 Consensus size: 106
249373 TCGTCTTCTT
* * *
249383 TTTTATTATTATTTATATTTAGTTGTTTATTTTCGCATTTAATTTATTGATTATTTATTTATTTA
1 TTTTATTATTATTTAAATTTAGTTGTTTATTTTAGCATTTAACTTATTGATTATTTATTTATTTA
249448 TTTATTTATTTGTCATTTATTTTCATGCCCAATCTTAGTTA
66 TTTATTTATTTGTCATTTATTTTCATGCCCAATCTTAGTTA
* *
249489 TTTT-TTATTGTTTAAATTT-GTTTGTTTATTTTAGCATTTAACTT-TT-ATT-TTTATTTTTTT
1 TTTTATTATTATTTAAATTTAG-TTGTTTATTTTAGCATTTAACTTATTGATTATTTATTTATTT
* *
249549 GTTTATTTATCTTGTTATTATTTATTTTCATGCC
65 ATTTATTTAT-TTG---TCATTTATTTTCATGCC
249583 ATTTATTATT
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
102 19 0.23
103 6 0.07
104 3 0.04
105 34 0.41
106 20 0.24
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.65
Consensus pattern (106 bp):
TTTTATTATTATTTAAATTTAGTTGTTTATTTTAGCATTTAACTTATTGATTATTTATTTATTTA
TTTATTTATTTGTCATTTATTTTCATGCCCAATCTTAGTTA
Found at i:253605 original size:39 final size:39
Alignment explanation
Indices: 253551--253626 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
253541 AACACCCAAT
* * *
253551 CTTGCTTTACAAACTCAGTAAGGCCTTTACATTTAAAGC
1 CTTGCATTACAAACTCAGTAAAGCATTTACATTTAAAGC
*
253590 CTTGCATTACAAACTCTGTAAAGCATTTACATTTAAA
1 CTTGCATTACAAACTCAGTAAAGCATTTACATTTAAA
253627 AGAATAATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (39 bp):
CTTGCATTACAAACTCAGTAAAGCATTTACATTTAAAGC
Found at i:256905 original size:39 final size:39
Alignment explanation
Indices: 256767--257123 Score: 318
Period size: 39 Copynumber: 9.2 Consensus size: 39
256757 CACTACTTAC
* * * * *
256767 TCAGTATAGTATTACGGTGTTTACAGTGTCACCATCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* * ** * * *
256806 TCAATATTATGCTACACTGTTTACAGTGTCACTATCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* * ** * * *
256845 TCAATATTATGCTACACTGTTTACAGTGTCACTATCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* ** * * * *
256884 TCAATACAGTAATGTAGTGTTTACAGTGTTACTGCCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* ** * * * *
256923 TTAGTATTGTATTGTGGTATTTACAATGTCACTGCCAAT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* *
256962 TCAGTATTCTATTGCAGTGTTTACAGTGTCACTGCCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* *
257001 TCAGTATTGTATTGCAATGTTTATAGTGTCACTACCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
* * ***
257040 TCAGTATTGTATTGCAGTGCTTACAATGTCACCGTCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
*
257079 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTGCCAGT
1 TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
*
257118 TTAGTA
1 TCAGTA
257124 ATTTGATAAC
Statistics
Matches: 266, Mismatches: 52, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 266 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (39 bp):
TCAGTATTGTATTGCAGTGTTTACAGTGTCACTACCAGT
Found at i:257586 original size:123 final size:124
Alignment explanation
Indices: 257367--257597 Score: 340
Period size: 123 Copynumber: 1.9 Consensus size: 124
257357 CCACATGGTT
* * * *
257367 TGGCACACGCCCGTGTGTCTAGGCCGTGTAACTCATTATTTCTAAACTTTCAAAATAGTATGGGC
1 TGGCACACGCCCGTGTATCCAGCCCGTGTAACTCACTATTTCTAAACTTTCAAAATAGTATGGGC
* * *
257432 ACACGGTCTGACACACGCTCGTGAGCGTAGCCCGTGTG-TCTCATGTAGCCTATTTATG
66 ACACAGTCTGACACACGCCCGTGACCGTAGCCCGTGTGCTCTCATGTAGCCTATTTATG
* * *
257490 TGGCACACGGCTGTGTATCCAGCCCGTGTAACTCACTGTTTCTGAAA-TTTCAAAATAGTATGGG
1 TGGCACACGCCCGTGTATCCAGCCCGTGTAACTCACTATTTCT-AAACTTTCAAAATAGTATGGG
*
257554 CACACAGTTTGACACACGCCCGTGACCGTAGCCCGTGTGCTCTC
65 CACACAGTCTGACACACGCCCGTGACCGTAGCCCGTGTGCTCTC
257598 GAATAGAGGC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
123 88 0.93
124 7 0.07
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (124 bp):
TGGCACACGCCCGTGTATCCAGCCCGTGTAACTCACTATTTCTAAACTTTCAAAATAGTATGGGC
ACACAGTCTGACACACGCCCGTGACCGTAGCCCGTGTGCTCTCATGTAGCCTATTTATG
Found at i:259227 original size:95 final size:95
Alignment explanation
Indices: 259112--259294 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 95
259102 TCCAGGTTTT
* *
259112 TAATATTCAATTTATTTTTATTTAATATCTCATATTAAAATAGAAA-TATTTCTTTAGATAAATA
1 TAATATTCAATTTATTTTTATTTAATATCTCATATTAAAAT-GAAATTATTCCTTTAGAGAAATA
** *
259176 TATGGAATATTTATTAAAACATTATATCCTC
65 TATAAAAGATTTATTAAAACATTATATCCTC
* * *
259207 TAATATTTAATTTCTTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGCAATAT
1 TAATATTCAATTTATTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATAT
259272 ATAAAAGATTTATTAAAACATTA
66 ATAAAAGATTTATTAAAACATTA
259295 CATCTTTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 4 0.05
95 75 0.95
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (95 bp):
TAATATTCAATTTATTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATAT
ATAAAAGATTTATTAAAACATTATATCCTC
Found at i:259342 original size:21 final size:22
Alignment explanation
Indices: 259310--259356 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
259300 TTTTCAAAAG
259310 ATATTAACTTTCATGTT-TTTA
1 ATATTAACTTTCATGTTATTTA
* *
259331 ATATTCAA-TTTCCTTTTATTTA
1 ATATT-AACTTTCATGTTATTTA
259353 ATAT
1 ATAT
259357 CTTATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
ATATTAACTTTCATGTTATTTA
Found at i:259348 original size:122 final size:121
Alignment explanation
Indices: 259207--259456 Score: 371
Period size: 122 Copynumber: 2.1 Consensus size: 121
259197 TTATATCCTC
* * *
259207 TAATATTTAATTTCTTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGCAATAT
1 TAATATTCAATTTCCTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATAT
* *
259272 AT-AAAAGATTTATTAAAACATTACATCTTTTTCAAAA-GATATTAACT-TTCATGTTTT
66 ATGAAAAG--TTATTAAAACATTACATCCTTTTCAAAAGGATATTAA-TATCCATG-TTT
*
259329 TAATATTCAATTTCCTTTTATTTAATATCTTATATTAAAATGAAATTATTCCTTTAGAGAAATAT
1 TAATATTCAATTTCCTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATAT
* *
259394 ATGTAAAGTTATTAAAACATTATATCCTTTTCAAAAGGATATTAATATCCATGTTT
66 ATGAAAAGTTATTAAAACATTACATCCTTTTCAAAAGGATATTAATATCCATGTTT
259450 TAATATT
1 TAATATT
259457 TAACGAAGTC
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
121 37 0.32
122 76 0.65
123 4 0.03
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.46
Consensus pattern (121 bp):
TAATATTCAATTTCCTTTTATTTAATATCTCATATTAAAATGAAATTATTCCTTTAGAGAAATAT
ATGAAAAGTTATTAAAACATTACATCCTTTTCAAAAGGATATTAATATCCATGTTT
Found at i:271787 original size:213 final size:212
Alignment explanation
Indices: 271225--271853 Score: 949
Period size: 202 Copynumber: 3.0 Consensus size: 212
271215 TTAAGAGGGA
* * *
271225 ACACTCCAATGAAAGTATTAGAAAAATGAATCTGGCCAAAGGCTGTCGCTGCATGAGTGTGTGTC
1 ACACTCCAATGCAAGTGTTAGAAAAATGAATCTGGCCAAAGGTTGTCGCTGCATGAGTGTGTGTC
** * * *
271290 GATGCAATTACGTACTCCCTAGGGTTTGTTGCACTCCATAGTTGCTTCTCAGGAACAAGAGTACA
66 GGCGCAATTACGTACTCCCTGGGGTTTGTTGCACTCCATCGTTACTTCTCAGGAACAAGAGTACA
*
271355 GTACTGCAACGATATCCCTTAT---------AAA-AAAAG-AAAAAAAAAGTATATATATATATA
131 GTAATGCAACGATATCCCTTATAAAAAAAGAAAAGAAAAGAAAAAAAAAAG-ATATATATATATA
271409 TTTACAATTTTCCTAAAT
195 TTTACAATTTTCCTAAAT
*
271427 ACACTCCAATGCAAGTGTTAGAAAAATGAATCTGGCCAAAGGTTGTCGCTGCGTGAGTGTGTGTC
1 ACACTCCAATGCAAGTGTTAGAAAAATGAATCTGGCCAAAGGTTGTCGCTGCATGAGTGTGTGTC
* *
271492 GGCGCAATTACGTACTCCCTGGGGTTTGTTACACTCCATCGTTACTTCTTAGGAACAAGAGTACA
66 GGCGCAATTACGTACTCCCTGGGGTTTGTTGCACTCCATCGTTACTTCTCAGGAACAAGAGTACA
* *
271557 ATAATGCAACAATATCCCTTATAAAAAAAGAAAAGAAAAGAAAAAAAAAAGATATATATATATAT
131 GTAATGCAACGATATCCCTTATAAAAAAAGAAAAGAAAAGAAAAAAAAAAGATATATATATATAT
271622 TTACAATTTTCCTAAAT
196 TTACAATTTTCCTAAAT
* * *
271639 ACACTCCAATGCAAGTGTTAGAAAAATGAATATGGCCAAAGGTTGTAGCTGCATGAGTGTGTGTT
1 ACACTCCAATGCAAGTGTTAGAAAAATGAATCTGGCCAAAGGTTGTCGCTGCATGAGTGTGTGTC
* *
271704 GGCGCAATTACGTACTCCTTGGGGGTTTGTTGCACTCCATCGTTACTTCTCAGGAACAAGAGTAT
66 GGCGCAATTACGTACTCCCT-GGGGTTTGTTGCACTCCATCGTTACTTCTCAGGAACAAGAGTAC
* * *
271769 AGTAATGCAACGATATCCCTTATAAAAAAAGAAAAGAAAA-AAAAAGATATACATATATATATAT
130 AGTAATGCAACGATATCCCTTATAAAAAAAGAAAAGAAAAGAAAAA-AAAAAGATATATATATAT
271833 ATTTACAATTTTCCTAAAT
194 ATTTACAATTTTCCTAAAT
271852 AC
1 AC
271854 TTAGTAGTGT
Statistics
Matches: 387, Mismatches: 27, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
202 138 0.36
211 3 0.01
212 121 0.31
213 125 0.32
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (212 bp):
ACACTCCAATGCAAGTGTTAGAAAAATGAATCTGGCCAAAGGTTGTCGCTGCATGAGTGTGTGTC
GGCGCAATTACGTACTCCCTGGGGTTTGTTGCACTCCATCGTTACTTCTCAGGAACAAGAGTACA
GTAATGCAACGATATCCCTTATAAAAAAAGAAAAGAAAAGAAAAAAAAAAGATATATATATATAT
TTACAATTTTCCTAAAT
Found at i:275912 original size:18 final size:19
Alignment explanation
Indices: 275882--275926 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
275872 AAAAGTGATC
*
275882 AAAAAAGTA-GAGAAAAA-
1 AAAAAAATATGAGAAAAAT
*
275899 AGAAAAATATGAGAAAAAT
1 AAAAAAATATGAGAAAAAT
275918 AAAAAAATA
1 AAAAAAATA
275927 AAAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 7 0.30
18 8 0.35
19 8 0.35
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (19 bp):
AAAAAAATATGAGAAAAAT
Found at i:277555 original size:24 final size:24
Alignment explanation
Indices: 277523--277577 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
277513 GGAGAGTTTT
*
277523 AAGAGGAAAAAGAAAATGAAAAAC
1 AAGAAGAAAAAGAAAATGAAAAAC
*
277547 AAGAAGAAAATGAAAATGAAAAAC
1 AAGAAGAAAAAGAAAATGAAAAAC
277571 AAGAAGA
1 AAGAAGA
277578 TACCCATACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.05
Consensus pattern (24 bp):
AAGAAGAAAAAGAAAATGAAAAAC
Found at i:280251 original size:63 final size:63
Alignment explanation
Indices: 280184--280343 Score: 214
Period size: 63 Copynumber: 2.5 Consensus size: 63
280174 AAAAGATTGT
** *
280184 GTGTGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGACTTTA-TTAGTGCAAGGAATGATTAC
1 GTGTGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGAC-TTAGTTAGAACAAGGAATGAATAC
* * **
280247 GTGTGTTGTGGTGCTTGTGTAAAATAAATTGATGATGACTTAGTTGGAACAAGGAATGAATGT
1 GTGTGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGACTTAGTTAGAACAAGGAATGAATAC
* * *
280310 GCGTGTTGTGGTGCTGGTGTAAAATAAACTGGTG
1 GTGTGTTGTGGTGCTTGTGTAAAATAAATTGGTG
280344 TGTGTTGTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 3 0.04
63 82 0.96
ACGTcount: A:0.27, C:0.06, G:0.31, T:0.36
Consensus pattern (63 bp):
GTGTGTTGTGGTGCTTGTGTAAAATAAATTGGTGATGACTTAGTTAGAACAAGGAATGAATAC
Found at i:281180 original size:25 final size:24
Alignment explanation
Indices: 281134--281180 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
281124 AAACAACTTC
*
281134 TAAAAAAAACTCAAGAGCAATTCT
1 TAAAAAAAACTAAAGAGCAATTCT
281158 TAAAGAAAAACTAAAAGAG-AATT
1 TAAA-AAAAACT-AAAGAGCAATT
281181 ATTATTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 11 0.55
26 5 0.25
ACGTcount: A:0.60, C:0.11, G:0.11, T:0.19
Consensus pattern (24 bp):
TAAAAAAAACTAAAGAGCAATTCT
Found at i:283664 original size:52 final size:52
Alignment explanation
Indices: 283602--283706 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
283592 TATTAATTTA
* **
283602 AACAACATAATAAATAAC-TATTTAA-AATTAAATAATTTGATAATATTTTCTT
1 AACAACATAATAAATAACGGA-TTAATAA-TAAATAATTAAATAATATTTTCTT
* *
283654 AACATCATAATAATTAACGGATTAATAATAAATAATTAAATAATATTTTCTT
1 AACAACATAATAAATAACGGATTAATAATAAATAATTAAATAATATTTTCTT
283706 A
1 A
283707 CCATTTGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 43 0.93
53 3 0.07
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (52 bp):
AACAACATAATAAATAACGGATTAATAATAAATAATTAAATAATATTTTCTT
Found at i:289732 original size:2 final size:2
Alignment explanation
Indices: 289725--289749 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
289715 TTAGTTTTTA
289725 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
289750 AAAGATTTGC
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:297177 original size:2 final size:2
Alignment explanation
Indices: 297170--297196 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
297160 ACCACTATGC
297170 TA 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 TA T
297197 CTTAAGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:297611 original size:11 final size:11
Alignment explanation
Indices: 297595--297632 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
297585 CATTTTTATT
297595 AAATTCAAATG
1 AAATTCAAATG
*
297606 AAATTCAACTG
1 AAATTCAAATG
*
297617 AAA-TGAAATG
1 AAATTCAAATG
297627 AAATTC
1 AAATTC
297633 CAAAGACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (11 bp):
AAATTCAAATG
Found at i:299460 original size:18 final size:18
Alignment explanation
Indices: 299437--299479 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
299427 GAATAGGTTT
299437 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
299455 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
299473 TTAATTA
1 TTAATTA
299480 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:299986 original size:37 final size:37
Alignment explanation
Indices: 299931--300104 Score: 197
Period size: 37 Copynumber: 4.7 Consensus size: 37
299921 TTACATTTAA
*
299931 GTATTCGGGCTATGTGCCTAGCAGACTTCGTGCC-GAT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCTG-T
* * * * * *
299968 GTATTCGGGTTATTTGCCTAGCAGGGTTTGTGTCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCTGT
*
300005 GTATTCGGACTATGTGCCTAGCAGGCTTCGTGCCTGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCTGT
* * * *
300042 GTATTCGGGCTCTATGCCTAGTAGGCTTCATGCCTGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCTGT
* * *
300079 GTATTCGGACTTTGTGCCAAGCAGGC
1 GTATTCGGGCTATGTGCCTAGCAGGC
300105 CATTGTGCCG
Statistics
Matches: 113, Mismatches: 23, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
37 112 0.99
38 1 0.01
ACGTcount: A:0.14, C:0.22, G:0.30, T:0.33
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCTGT
Found at i:300941 original size:11 final size:12
Alignment explanation
Indices: 300925--300957 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
300915 ATAGTCGCTA
300925 CCACATCAGT-G
1 CCACATCAGTCG
300936 CCACATCA-TCG
1 CCACATCAGTCG
300947 CCACATCAGTC
1 CCACATCAGTC
300958 ATGTGACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 17 0.85
12 2 0.10
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.18
Consensus pattern (12 bp):
CCACATCAGTCG
Found at i:317236 original size:17 final size:17
Alignment explanation
Indices: 317214--317252 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
317204 CCAAGCCCAA
317214 CAAGCTAAGTGTATATC
1 CAAGCTAAGTGTATATC
317231 CAAGCTAAGTGTATATC
1 CAAGCTAAGTGTATATC
317248 CAAGC
1 CAAGC
317253 AAGGGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.26
Consensus pattern (17 bp):
CAAGCTAAGTGTATATC
Found at i:320332 original size:146 final size:146
Alignment explanation
Indices: 320068--320348 Score: 508
Period size: 146 Copynumber: 1.9 Consensus size: 146
320058 GATTTCTTAA
* * *
320068 TTTTCTTGAAAATAAGAAAGTGAATCTTGATTTTCTTTTTCGGCCGTGTGCACATCTAGGGCCTT
1 TTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTATTTCAGCCGTGTGCACATCTAGGGCCTT
* *
320133 AGTAACGAAGTCTTGGATGGTCCTGTTCAATCTTGCTCGAATTTGCTTGGCCTTCGACCTCATTA
66 AGTAACGAAGTCTTGGACGGTCCCGTTCAATCTTGCTCGAATTTGCTTGGCCTTCGACCTCATTA
320198 TTGGGCCTTGGGTTAC
131 TTGGGCCTTGGGTTAC
320214 TTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTATTTCAGCCGTGTGCACATCTAGGGCCTT
1 TTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTATTTCAGCCGTGTGCACATCTAGGGCCTT
*
320279 GGTAACGAAGTCTTGGACGGTCCCGTTCAATCTTGCTCGAATTTGCTTGGCCTTCGACCTCATTA
66 AGTAACGAAGTCTTGGACGGTCCCGTTCAATCTTGCTCGAATTTGCTTGGCCTTCGACCTCATTA
320344 TTGGG
131 TTGGG
320349 TGTTGAGAAA
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 129 1.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (146 bp):
TTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTATTTCAGCCGTGTGCACATCTAGGGCCTT
AGTAACGAAGTCTTGGACGGTCCCGTTCAATCTTGCTCGAATTTGCTTGGCCTTCGACCTCATTA
TTGGGCCTTGGGTTAC
Found at i:322275 original size:19 final size:19
Alignment explanation
Indices: 322251--322287 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
322241 GAATATTTTT
322251 TATTTTT-TTATTTTTCTCA
1 TATTTTTCTT-TTTTTCTCA
322270 TATTTTTCTTTTTTTCTC
1 TATTTTTCTTTTTTTCTC
322288 GACTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTCTTTTTTTCTCA
Found at i:327050 original size:15 final size:15
Alignment explanation
Indices: 327030--327061 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
327020 TTGGAAGATA
*
327030 TGAGCACTGATGTTG
1 TGAGCACTCATGTTG
327045 TGAGCACTCATGTTG
1 TGAGCACTCATGTTG
327060 TG
1 TG
327062 GACACACACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (15 bp):
TGAGCACTCATGTTG
Found at i:331432 original size:183 final size:182
Alignment explanation
Indices: 331219--331585 Score: 707
Period size: 183 Copynumber: 2.0 Consensus size: 182
331209 ATTTATTATT
331219 ATTTTTTTTTTTGAATTTTCTTTCTTTTTTTAATTTTTTTGAATGCTAATCTCGGGAGAGATAAG
1 ATTTTTTTTTTTGAATTTTCTTTCTTTTTTTAATTTTTTTGAATGCTAATCTCGGGAGAGATAAG
*
331284 AACGTCGAATACTTACTTAATTTAACTAGCTTTGATACCAAATGATGCGAGCTTATCCTTGAGGG
66 AACGTCGAATACTTACTTAATTTAACTAGATTTGATACCAAATGATGCGAGCTTATCCTTGAGGG
331349 ATGATTACGAGTCGCGTGAGTTCTCGATCAAAATTAAAAAGTATCATTCGTA
131 ATGATTACGAGTCGCGTGAGTTCTCGATCAAAATTAAAAAGTATCATTCGTA
*
331401 ATTTCTTTTTTTTGAATTTTCTTTTTTTTTTTAATTTTTTTGAATGCTAATCTCGGGAGAGATAA
1 ATTT-TTTTTTTTGAATTTTCTTTCTTTTTTTAATTTTTTTGAATGCTAATCTCGGGAGAGATAA
331466 GAACGTCGAATACTTACTTAATTTAACTAGATTTGATACCAAATGATGCGAGCTTATCCTTGAGG
65 GAACGTCGAATACTTACTTAATTTAACTAGATTTGATACCAAATGATGCGAGCTTATCCTTGAGG
331531 GATGATTACGAGTCGCGTGAGTTCTCGATCAAAATTAAAAAGTATCATTCGTA
130 GATGATTACGAGTCGCGTGAGTTCTCGATCAAAATTAAAAAGTATCATTCGTA
331584 AT
1 AT
331586 GGCTTTGTGA
Statistics
Matches: 182, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
182 4 0.02
183 178 0.98
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (182 bp):
ATTTTTTTTTTTGAATTTTCTTTCTTTTTTTAATTTTTTTGAATGCTAATCTCGGGAGAGATAAG
AACGTCGAATACTTACTTAATTTAACTAGATTTGATACCAAATGATGCGAGCTTATCCTTGAGGG
ATGATTACGAGTCGCGTGAGTTCTCGATCAAAATTAAAAAGTATCATTCGTA
Found at i:333698 original size:216 final size:215
Alignment explanation
Indices: 332929--335719 Score: 3173
Period size: 215 Copynumber: 13.1 Consensus size: 215
332919 TGCTCGCACC
* *
332929 ATAAAAGAACTCTAAAAGTTTA-ACATAG-TCGAGAGATCGTCCAAGAACCAAGAGAGAAACAAT
1 ATAAAAGAACTCTAAAAG-TTAGACA-AGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAAT
* * * * *
332992 TCTCACGTAAATAAGTTTTTAATTAAAAGAACAAAAGTTGTTTTCAAAATGACAAATTATTTAGA
64 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
* * *
333057 CCAAATGATGCT-ATGTT-CCGAGCATGGAATGTTCAGAAAATTGCTCTAA-TGAATGGATCATT
129 CCAAATGATG-TGAT-TTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTC
333119 TTGAATACTTTAAGGAACCGAAGTT
191 TTGAATACTTTAAGGAACCGAAGTT
* * *
333144 AAAAAAGAAGTC-------TA-A-AAGTTTGAGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
1 ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
333200 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
66 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
** * *
333265 AAATGATGTGATTTCTAGAGAATGGAATGTTCGAAAAATTGCTCTAA-TAAATGGATCGTCTTGA
131 AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTCTTGA
*
333329 ATACTTTAAGGAATCGAAGTT
195 ATACTTTAAGGAACCGAAGTT
* * * * * *
333350 ATAAAATAACTGTAAAAGTGAGACAGGTTTGGGAGAACGTCCAAGAACAAAGAGAGAAACAATTC
1 ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
** * *
333415 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAGGTTGTTGACAAAATAACAAACTATTTAGACC
66 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * * *
333480 AAATGATGTGGTTTCCCTAGCATGAAATGTTCAAAAAATTGCTCAAAGTAATGGATTGTCTTAAA
131 AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTTGAA
*
333545 TACTTTAAGGAATCGAAGTT
196 TACTTTAAGGAACCGAAGTT
* *
333565 ATAAAAGAACTCATAAACA-TTAGACAAGTTTGGCAGTTCGTCCAAGAACCAAGAGAGAAACAAT
1 ATAAAAGAACTC-TAAA-AGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAAT
* *
333629 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAATTGACAAACTATTTAGA
64 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
* * * * *
333694 CCAAATGATGTGATTTCCCAAGCATGGAATGTTCGAAAAATTACT-TGAAGAAATGGATTGTCTT
129 CCAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCT-AAGTAATGGATCGTCTT
*
333758 GAATACTTTAAGGAACCAAAGTT
193 GAATACTTTAAGGAACCGAAGTT
* * * * * ** * * *
333781 ATTAAAGAACTCTAAGAGTTTGACGAGTTAGACAGATCATCCAAGAACCAAGAGGGAAATAATTC
1 ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
* * *
333846 TGACGTAAATAAGTTTTTAATTCAAAAACCGAAACTT-TTTACAAAATGACAAACTATTTAGACC
66 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * * * *
333910 AAATGATGTGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTCGAAGGAATGGATTGTCTTAAA
131 AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTTGAA
*
333975 TACTTTAAGGAACCAAAGTT
196 TACTTTAAGGAACCGAAGTT
* * * * * * * *
333995 ATAAATGGACTTATAAAAGTTTGA-AATGTTCGAGAGATCGTCCTAGAACCAAGAGAGAAAAAAT
1 ATAAAAGAAC-TCTAAAAGTTAGACAA-GTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAAT
* *
334059 TCTCACGTAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGACAAACTATTTAGA
64 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
* *** * *
334124 CCAAATGATGTGATTTCCCAAGCATGGAATGTTTGGAAAATTGCTCTGA-TCAATTGATCGTCTT
129 CCAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTCTT
* *
334188 GTATACTTTAAGGAACCAAAGTT
193 GAATACTTTAAGGAACCGAAGTT
* * * **
334211 GTAAAAGAACTCTAAAAGTTTGAAAAGTTCT-ACAGATCGTCCAAGAACCAA-AGAGAAACAATT
1 ATAAAAGAACTCTAAAAGTTAGACAAGTT-TGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
* * * *
334274 CTCACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTGTTTACAAAATGACAAATTGTTTAGAC
65 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* ** ** * *
334339 CAAATGATGTGATTTCCTGAGCATCAAATGTTCAAAAAATTGCGATAA-TGAATGTATCATCTTG
130 CAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTCTTG
*
334403 AATACTTTAAGGAA-TGAAAGTT
194 AATACTTTAAGGAACCG-AAGTT
* * *
334425 ATAAAAGGACTCTAAAAGTCT-GACAAGTTCGGGAGATCGTCCAAGAAACAAGAGAGAAACAATT
1 ATAAAAGAACTCTAAAAGT-TAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
*
334489 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGATAAACTATTTAGAC
65 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
** *** * * *** * * *
334554 CAAATGATACGATTTTTTGAGCATGCAATATTCGGGAAATTGCTCGAAGGAATGGATCGTCTTAA
130 CAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTTGA
334619 ATACTTTAAGGAACCGAAGTT
195 ATACTTTAAGGAACCGAAGTT
* * ** ** * *
334640 ATAAAAGAACTCATAAAAGTTAGACAGGTTCGAAACTTCGTCCAAGAACCAAGAGACAAACAACT
1 ATAAAAGAACTC-TAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
* * *
334705 CTCTCGTAAATAAGTTTTTAATCCAAAGACCAAAAAACTTATTTACAAAATGACAAACTATTTAG
65 CTCACGTAAATAAGTTTTTAATTCAAAGACC--AAAACTTGTTTACAAAATGACAAACTATTTAG
* * * * * *
334770 ACCAAATGATGTGAATT------C--GG---G------AAATTTCTCGAAGGAGTGGATCATCTT
128 ACCAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTT
* *
334818 GAATACATTAAGGAACTGAAGTT
193 GAATACTTTAAGGAACCGAAGTT
* * * **** * *
334841 ATAAAAGAACTCATAAAAGTTTGATATGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATT
1 ATAAAAGAACTC-TAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
334906 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
65 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* * * * * * * * *
334971 CAGATGAAGCGATTTCTCGAGCAAGGAATTTTCAAAAAATTGCTCTAA-TGAATGGACCATCAAT
130 CAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTC-TT
*
335035 -AATACTTTAAGTAACCGAAGTT
193 GAATACTTTAAGGAACCGAAGTT
* *
335057 ATAAAGGAACTCTAAAAGTCTA-ACAAGGTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
1 ATAAAAGAACTCTAAAAGT-TAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATT
*
335121 CTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
65 CTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* * * *
335186 CAAATGATGCGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCTAAAG-AATGAATCATCTTG
130 CAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCT-AAGTAATGGATCGTCTTG
335250 AATACTTTAAGG----GATAGTT
194 AATACTTTAAGGAACCGA-AGTT
* * * * * * * *
335269 ATAAAAGAATTGTAAAAGTGAGACAGGTTCGAGAGATCGTCCAAGAACAAAGTGAGAAACAATTC
1 ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
* * * *
335334 TCACATAAATAAATTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTTGAAC
66 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * * ** * * **
335399 AAATGATGCGATTTCTCGACCAAGGAATTTTTGAAAAGTTGCTCTAA-TGAATGGACCGTCAAGA
131 AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGT-AATGGATCGTCTTGA
* *
335463 ATACTTTAAGGAACCAAATTT
195 ATACTTTAAGGAACCGAAGTT
*
335484 ATAAAAGAACTCTAAAAGTTTGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
1 ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
* * * *
335549 TCACGTAAATAAGATTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGATAAGCTATTTAGACC
66 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * * * *
335614 AAATGATGAGATTTCCCAAGCATGGAATGTTCGAGAAATTACTCAAAGGAATGGATCGTCTTGAA
131 AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTTGAA
335679 TACTTTAAGGAACCGAAGTT
196 TACTTTAAGGAACCGAAGTT
*
335699 ATTAAAGAACTCATAAAAGTT
1 ATAAAAGAACTC-TAAAAGTT
335720 CGACGATGCA
Statistics
Matches: 2203, Mismatches: 306, Indels: 133
0.83 0.12 0.05
Matches are distributed among these distances:
199 44 0.02
201 130 0.06
205 6 0.00
206 176 0.08
207 5 0.00
210 1 0.00
211 5 0.00
212 178 0.08
213 1 0.00
214 293 0.13
215 883 0.40
216 435 0.20
217 2 0.00
218 44 0.02
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (215 bp):
ATAAAAGAACTCTAAAAGTTAGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAATTC
TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
AAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCTAAGTAATGGATCGTCTTGAA
TACTTTAAGGAACCGAAGTT
Found at i:335373 original size:427 final size:427
Alignment explanation
Indices: 334791--335688 Score: 1296
Period size: 427 Copynumber: 2.1 Consensus size: 427
334781 TGAATTCGGG
* * * * * * **
334791 AAATTTCTCGAAGGAGTGGATCATCTTGAATACATTAAGGAACTGAAGTTATAAAAGAACTCATA
1 AAATTACTCAAAGGAATGAATCATCTTGAATACTTTAAGGGA-T--AGTTATAAAAGAA-TTGTA
** * * * * * * * * *
334856 AAAGTTTGATATGTTCAAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
62 AAAGTGAGACAGGTTCGAGAGATCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAAT
* *
334921 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAGATGAAGCGATTT
127 TTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAACAAATGAAGCGATTT
* * *
334986 CTCGAGCAAGGAATTTTCAAAAAATTGCTCTAATGAATGGACCATCAATAATACTTTAAGTAACC
192 CTCGACCAAGGAATTTTCAAAAAATTGCTCTAATGAATGGACCATCAAGAATACTTTAAGGAACC
* *
335051 GAAGTTATAAAGGAACTCTAAAAGTCTAACAAGGTTGGGAGATCGTCCAAGAACCAAGAGAGAAA
257 AAAGTTATAAAAGAACTCTAAAAGTCTAACAAGGTTGGGAGATCGTCCAAGAACCAAGAGAGAAA
*
335116 CAATTCTCACATAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATT
322 CAATTCTCACATAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATT
*
335181 TAGACCAAATGATGCGATTT-CCAGAGCATGGAATGTTCAAA
387 TAGACCAAATGATGAGATTTCCCA-AGCATGGAATGTTCAAA
*
335222 AAATTGCTCTAAA-GAATGAATCATCTTGAATACTTTAAGGGATAGTTATAAAAGAATTGTAAAA
1 AAATTACTC-AAAGGAATGAATCATCTTGAATACTTTAAGGGATAGTTATAAAAGAATTGTAAAA
*
335286 GTGAGACAGGTTCGAGAGATCGTCCAAGAACAAAGTGAGAAACAATTCTCACATAAATAAATTTT
65 GTGAGACAGGTTCGAGAGATCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAATTTT
* *
335351 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTTGAACAAATGATGCGATTTCTC
130 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAACAAATGAAGCGATTTCTC
** * *
335416 GACCAAGGAATTTTTGAAAAGTTGCTCTAATGAATGGACCGTCAAGAATACTTTAAGGAACCAAA
195 GACCAAGGAATTTTCAAAAAATTGCTCTAATGAATGGACCATCAAGAATACTTTAAGGAACCAAA
* * * *
335481 TTTATAAAAGAACTCTAAAAGTTTGACAAGTTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAA
260 GTTATAAAAGAACTCTAAAAGTCTAACAAGGTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAA
* * * *
335546 TTCTCACGTAAATAAGATTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGATAAGCTATTTAG
325 TTCTCACATAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* *
335611 ACCAAATGATGAGATTTCCCAAGCATGGAATGTTCGAG
390 ACCAAATGATGAGATTTCCCAAGCATGGAATGTTCAAA
* *
335649 AAATTACTCAAAGGAATGGATCGTCTTGAATACTTTAAGG
1 AAATTACTCAAAGGAATGAATCATCTTGAATACTTTAAGG
335689 AACCGAAGTT
Statistics
Matches: 416, Mismatches: 48, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
426 3 0.01
427 361 0.87
428 16 0.04
430 1 0.00
431 33 0.08
432 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (427 bp):
AAATTACTCAAAGGAATGAATCATCTTGAATACTTTAAGGGATAGTTATAAAAGAATTGTAAAAG
TGAGACAGGTTCGAGAGATCGTCCAAGAACAAAGAGAGAAACAATTCTCACATAAATAAATTTTT
AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAACAAATGAAGCGATTTCTCG
ACCAAGGAATTTTCAAAAAATTGCTCTAATGAATGGACCATCAAGAATACTTTAAGGAACCAAAG
TTATAAAAGAACTCTAAAAGTCTAACAAGGTTGGGAGATCGTCCAAGAACCAAGAGAGAAACAAT
TCTCACATAAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
CCAAATGATGAGATTTCCCAAGCATGGAATGTTCAAA
Done.