Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 88 of 106
Found at i:17886867 original size:5 final size:6
Alignment explanation
Indices: 17886855--17886881 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17886845 TACTTAATTT
17886855 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
17886882 TATATTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:17887017 original size:22 final size:22
Alignment explanation
Indices: 17886983--17887042 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
17886973 CAAATATCTT
** *
17886983 ATAAATATTTTTTATATATTTA
1 ATAAATAAATTTTATATATTAA
*
17887005 ATAAATAAATTTT-TTTATTAA
1 ATAAATAAATTTTATATATTAA
17887026 ATAATATAAATTATTAT
1 ATAA-ATAAATT-TTAT
17887043 TTTAGATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.32
22 18 0.58
23 2 0.06
24 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAATAAATTTTATATATTAA
Found at i:17887030 original size:24 final size:26
Alignment explanation
Indices: 17886983--17887100 Score: 68
Period size: 26 Copynumber: 4.6 Consensus size: 26
17886973 CAAATATCTT
**
17886983 ATAAATATTTTTTATATATTTAATAA
1 ATAAATATTTTTTATATAAATAATAA
17887009 ATAAAT-TTTTTTAT-TAAATAAT--
1 ATAAATATTTTTTATATAAATAATAA
* * *
17887031 ATAAATTATTATTTTAGATTAATTA-AA
1 ATAAA-TATT-TTTTATATAAATAATAA
* * *
17887058 ATTAATATATTTTTAT-TAAAAAATAT
1 ATAAATAT-TTTTTATATAAATAATAA
* *
17887084 ATTAATATATATTTATA
1 ATAAATAT-TTTTTATA
17887101 AAAAATTACC
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
22 5 0.07
23 1 0.01
24 8 0.11
25 17 0.24
26 35 0.49
27 5 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (26 bp):
ATAAATATTTTTTATATAAATAATAA
Found at i:17887045 original size:27 final size:27
Alignment explanation
Indices: 17887005--17887091 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 27
17886995 TATATATTTA
*
17887005 ATAAATAAAT-TTTTTTATTAAATAAT
1 ATAAATTAATATTTTTTATTAAATAAT
* **
17887031 ATAAATTATTATTTTAGATT-AAT--T
1 ATAAATTAATATTTTTTATTAAATAAT
17887055 A-AAATTAATATATTTTTATTAAA-AA-
1 ATAAATTAATAT-TTTTTATTAAATAAT
*
17887080 ATATATTAATAT
1 ATAAATTAATAT
17887092 ATATTTATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
23 9 0.19
24 8 0.17
25 3 0.06
26 20 0.43
27 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
ATAAATTAATATTTTTTATTAAATAAT
Found at i:17887087 original size:26 final size:25
Alignment explanation
Indices: 17887058--17887106 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
17887048 ATTAATTAAA
*
17887058 ATTAATATATTTTTATTAAAAAATAT
1 ATTAATATATATTTA-TAAAAAATAT
17887084 ATTAATATATATTTATAAAAAAT
1 ATTAATATATATTTATAAAAAAT
17887107 TACCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTAATATATATTTATAAAAAATAT
Found at i:17892330 original size:17 final size:17
Alignment explanation
Indices: 17892308--17892342 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17892298 AATGAAATGT
17892308 TTGGACCAACATTTTAA
1 TTGGACCAACATTTTAA
* *
17892325 TTGGACGAACTTTTTAA
1 TTGGACCAACATTTTAA
17892342 T
1 T
17892343 ACAAATTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (17 bp):
TTGGACCAACATTTTAA
Found at i:17892892 original size:37 final size:36
Alignment explanation
Indices: 17892851--17892946 Score: 97
Period size: 37 Copynumber: 2.6 Consensus size: 36
17892841 AAATTTATGT
17892851 ATTTATATTATATTTTATATAAAAATTATATATTATA
1 ATTTATATTATATTTTATATAAAAA-TATATATTATA
* * * *
17892888 ATTTATATT-TATATAAAAGTATAAAATATATATTTTA
1 ATTTATATTATATTTTATA-TA-AAAATATATATTATA
*
17892925 ATTT-TATTAAATTTATATATAA
1 ATTTATATTATATTT-TATATAA
17892947 TTATTATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
36 11 0.23
37 30 0.64
38 6 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (36 bp):
ATTTATATTATATTTTATATAAAAATATATATTATA
Found at i:17892982 original size:11 final size:11
Alignment explanation
Indices: 17892966--17893005 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17892956 AAAATTTAAA
17892966 TTATATTATTT
1 TTATATTATTT
*
17892977 TTATATTTTATT
1 TTATATTAT-TT
*
17892989 TTATATTATAT
1 TTATATTATTT
17893000 TTATAT
1 TTATAT
17893006 CGGTATAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTATTT
Found at i:17900603 original size:34 final size:34
Alignment explanation
Indices: 17900555--17900620 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
17900545 ATAAGAACTT
17900555 TAATCTACTAAGCATATGCCTAGGGTTTCAGACA
1 TAATCTACTAAGCATATGCCTAGGGTTTCAGACA
* *
17900589 TAATGTACTAAGCATATTCCTAGGGTTTCAGA
1 TAATCTACTAAGCATATGCCTAGGGTTTCAGA
17900621 AATGAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (34 bp):
TAATCTACTAAGCATATGCCTAGGGTTTCAGACA
Found at i:17910346 original size:15 final size:17
Alignment explanation
Indices: 17910315--17910348 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
17910305 ATAGCATAAT
17910315 TTATTTATTTGTTAAAA
1 TTATTTATTTGTTAAAA
17910332 TTATTT-TTT-TTAAAA
1 TTATTTATTTGTTAAAA
17910347 TT
1 TT
17910349 TATACAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 3 0.18
17 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTTATTTGTTAAAA
Found at i:17912527 original size:23 final size:23
Alignment explanation
Indices: 17912501--17912544 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17912491 AATGTTTGAA
17912501 TCGATTTAGATCCATTTTTTTGT
1 TCGATTTAGATCCATTTTTTTGT
**
17912524 TCGATTTAGATTGATTTTTTT
1 TCGATTTAGATCCATTTTTTT
17912545 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.14, T:0.59
Consensus pattern (23 bp):
TCGATTTAGATCCATTTTTTTGT
Found at i:17912697 original size:17 final size:18
Alignment explanation
Indices: 17912677--17912722 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
17912667 AAATAAAAAT
17912677 AATTATTATATATA-TAA
1 AATTATTATATATATTAA
*
17912694 AATTATTTAAATATATTAA
1 AATTA-TTATATATATTAA
17912713 AATT-TTATAT
1 AATTATTATAT
17912723 TAAGATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 10 0.40
18 8 0.32
19 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATTATATATATTAA
Found at i:17912709 original size:18 final size:18
Alignment explanation
Indices: 17912677--17912716 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17912667 AAATAAAAAT
*
17912677 AATTATTATATATA-TAA
1 AATTATTAAATATATTAA
17912694 AATTATTTAAATATATTAA
1 AATTA-TTAAATATATTAA
17912713 AATT
1 AATT
17912717 TTATATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 8 0.40
19 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTATTAAATATATTAA
Found at i:17920621 original size:11 final size:11
Alignment explanation
Indices: 17920599--17920644 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
17920589 ATTTTAAATC
*
17920599 ATATTATTTTT
1 ATATTATATTT
*
17920610 ATATTTTATTT
1 ATATTATATTT
17920621 ATATTATATCATT
1 ATATTATAT--TT
17920634 ATATTATATTT
1 ATATTATATTT
17920645 TAAATTATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 19 0.63
13 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (11 bp):
ATATTATATTT
Found at i:17931881 original size:6 final size:6
Alignment explanation
Indices: 17931870--17931972 Score: 118
Period size: 6 Copynumber: 17.2 Consensus size: 6
17931860 CCGAACCAGA
* *
17931870 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAGG AAGTAG
1 AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
* * ** * *
17931918 AAGAAG AA-ATAG AAGTAG AAGAGG AAGTTG AAGAAG AAGAGG AAGAGG
1 AAGAAG AAGA-AG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG AAGAAG
17931966 AAGAAG A
1 AAGAAG A
17931973 GGACAACGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
5 1 0.01
6 81 0.99
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (6 bp):
AAGAAG
Found at i:17931983 original size:15 final size:15
Alignment explanation
Indices: 17931872--17932001 Score: 77
Period size: 15 Copynumber: 8.5 Consensus size: 15
17931862 GAACCAGAAA
* *
17931872 GAAGAAGAAGAAGAA
1 GAAGAAGAGGAAGAC
* *
17931887 GAAGAAGAAGAAGAA
1 GAAGAAGAGGAAGAC
17931902 GAAGAAGAGGAAGTA-
1 GAAGAAGAGGAAG-AC
* *
17931917 GAAGAAGA-AATAGAA
1 GAAGAAGAGGA-AGAC
* *
17931932 GTAGAAGAGGAAGTTGAA
1 GAAGAAGAGGAA---GAC
*
17931950 GAAGAAGAGGAAGAG
1 GAAGAAGAGGAAGAC
17931965 GAAGAAGAGGACA-AC
1 GAAGAAGAGGA-AGAC
* * *
17931980 GAAGACGACGATGAC
1 GAAGAAGAGGAAGAC
17931995 GAAGAAG
1 GAAGAAG
17932002 CTGAAAACCA
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
14 2 0.02
15 76 0.80
16 3 0.03
18 14 0.15
ACGTcount: A:0.55, C:0.04, G:0.36, T:0.05
Consensus pattern (15 bp):
GAAGAAGAGGAAGAC
Found at i:17932958 original size:27 final size:27
Alignment explanation
Indices: 17932918--17932982 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
17932908 CATCTGGGCC
17932918 TGCTGCTG-TGGGGTTCAACCCCGGAGT
1 TGCTGCTGCT-GGGTTCAACCCCGGAGT
* * *
17932945 TGCTGCTGCTGGGTTTAACCCTGGGGT
1 TGCTGCTGCTGGGTTCAACCCCGGAGT
*
17932972 GGCTGCTGCTG
1 TGCTGCTGCTG
17932983 CACCGGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.08, C:0.25, G:0.38, T:0.29
Consensus pattern (27 bp):
TGCTGCTGCTGGGTTCAACCCCGGAGT
Found at i:17935731 original size:11 final size:11
Alignment explanation
Indices: 17935715--17935751 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
17935705 CACCTTATTA
17935715 TATAAAAATAT
1 TATAAAAATAT
*
17935726 TATAAAAATAG
1 TATAAAAATAT
*
17935737 CATAAAAATAT
1 TATAAAAATAT
17935748 TATA
1 TATA
17935752 GTTTAAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (11 bp):
TATAAAAATAT
Found at i:17954725 original size:15 final size:17
Alignment explanation
Indices: 17954696--17954730 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
17954686 ATCACTTTAG
17954696 TAAATTTTATTTAAT-A
1 TAAATTTTATTTAATCA
17954712 TAAATTTT-TTTAATCA
1 TAAATTTTATTTAATCA
17954728 TAA
1 TAA
17954731 TTATAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TAAATTTTATTTAATCA
Found at i:17967638 original size:6 final size:6
Alignment explanation
Indices: 17967623--17967676 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
17967613 GAGTACAATA
* * *
17967623 CCTATT CCTATA CCTATA CCTATT TCTATT CCTATT CCTATT CCTATT
1 CCTATT CCTATT CCTATT CCTATT CCTATT CCTATT CCTATT CCTATT
17967671 CCTATT
1 CCTATT
17967677 GCATCTTTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.20, C:0.31, G:0.00, T:0.48
Consensus pattern (6 bp):
CCTATT
Found at i:17971130 original size:2 final size:2
Alignment explanation
Indices: 17971123--17971155 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17971113 TTTCTCCCAA
17971123 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17971156 TTCTTCCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17982402 original size:16 final size:17
Alignment explanation
Indices: 17982381--17982417 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
17982371 TTTAAATTAT
17982381 ATAATTTTGAGTAA-AA
1 ATAATTTTGAGTAATAA
*
17982397 ATAATTTTGATTAATAA
1 ATAATTTTGAGTAATAA
17982414 ATAA
1 ATAA
17982418 ATTATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (17 bp):
ATAATTTTGAGTAATAA
Found at i:17982498 original size:26 final size:26
Alignment explanation
Indices: 17982461--17982517 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17982451 ATAAGATAAA
* *
17982461 ATAATATTATTTAAT-TTATTTTATTT
1 ATAATATCATTTAATCATATTTTA-TT
*
17982487 ATAATATCATTTTATCATATTTTATT
1 ATAATATCATTTAATCATATTTTATT
17982513 ATAAT
1 ATAAT
17982518 TTTATATATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATAATATCATTTAATCATATTTTATT
Found at i:17982537 original size:2 final size:2
Alignment explanation
Indices: 17982532--17982558 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17982522 TATATCAAAC
17982532 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
17982559 ACAAAAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17992433 original size:2 final size:2
Alignment explanation
Indices: 17992426--17992465 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
17992416 GAAACATGAA
* *
17992426 AT AT AT AT AT AT AT AT AC AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17992466 CCAAATTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17998536 original size:23 final size:22
Alignment explanation
Indices: 17998502--17998544 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
17998492 ATTTTGATTC
17998502 AAAATCATTTTAATTTTCTTTCA
1 AAAATCATTTTAA-TTTCTTTCA
17998525 AAAAT-ATATTTAATTTCTTT
1 AAAATCAT-TTTAATTTCTTT
17998545 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (22 bp):
AAAATCATTTTAATTTCTTTCA
Found at i:17999375 original size:21 final size:21
Alignment explanation
Indices: 17999338--17999377 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17999328 CTTAATTGAC
*
17999338 TTCATACTTTCTCTCTAAATA
1 TTCATACTTTCTATCTAAATA
17999359 TTCATACTCTT-TATCTAAA
1 TTCATACT-TTCTATCTAAA
17999378 AACTGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (21 bp):
TTCATACTTTCTATCTAAATA
Found at i:18000045 original size:9 final size:8
Alignment explanation
Indices: 18000022--18000050 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18000012 AACGAAGGAG
18000022 AAAT-AAA
1 AAATAAAA
18000029 AAATAAAA
1 AAATAAAA
18000037 AAATAAAA
1 AAATAAAA
18000045 AAATAA
1 AAATAA
18000051 TGATTTTGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:18012240 original size:8 final size:8
Alignment explanation
Indices: 18012227--18012257 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18012217 ACATATAAGA
18012227 AAAGAGAG
1 AAAGAGAG
18012235 AAAGAGAG
1 AAAGAGAG
18012243 AAAGAGAG
1 AAAGAGAG
*
18012251 AGAGAGA
1 AAAGAGA
18012258 AACCTGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (8 bp):
AAAGAGAG
Found at i:18013114 original size:41 final size:42
Alignment explanation
Indices: 18013057--18013136 Score: 144
Period size: 41 Copynumber: 1.9 Consensus size: 42
18013047 TTTATTATTC
18013057 ATAATTTTCATTGTTAATAACATAA-AACAATAGAGACGGCT
1 ATAATTTTCATTGTTAATAACATAACAACAATAGAGACGGCT
*
18013098 ATAATTTTCATTGTTAATAACATAACGACAATAGAGACG
1 ATAATTTTCATTGTTAATAACATAACAACAATAGAGACG
18013137 ATTATAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 25 0.68
42 12 0.32
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (42 bp):
ATAATTTTCATTGTTAATAACATAACAACAATAGAGACGGCT
Found at i:18013156 original size:41 final size:41
Alignment explanation
Indices: 18013057--18013156 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
18013047 TTTATTATTC
* *
18013057 ATAATTTTCATTGTTAATAACATAAAACAATAGAGACGGCT
1 ATAATTTTCATTATTAATAACATAAAACAATAGAGACGACT
* * *
18013098 ATAATTTTCATTGTTAATAACATAACGACAATAGAGACGATT
1 ATAATTTTCATTATTAATAACATAA-AACAATAGAGACGACT
18013140 ATAGA-TTT-ATTATTAAT
1 ATA-ATTTTCATTATTAAT
18013157 TGCATGTTCA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
41 33 0.62
42 19 0.36
43 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (41 bp):
ATAATTTTCATTATTAATAACATAAAACAATAGAGACGACT
Found at i:18013464 original size:2 final size:2
Alignment explanation
Indices: 18013457--18013490 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18013447 TTTCATTCAA
18013457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18013491 TGTCTCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18016448 original size:2 final size:2
Alignment explanation
Indices: 18016443--18016474 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18016433 ACTGTGTGTG
18016443 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18016475 GAATTCCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18021203 original size:2 final size:2
Alignment explanation
Indices: 18021181--18021220 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
18021171 ACCAGGCAAC
*
18021181 AG AG GG AG AG -G AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18021221 TTTACGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18023063 original size:31 final size:31
Alignment explanation
Indices: 18023025--18023087 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
18023015 TTAGTAGAAA
18023025 GAAATATCTCTAACTATATCTTAAATAAACT
1 GAAATATCTCTAACTATATCTTAAATAAACT
* *
18023056 GAAATATCTTTAACTATATCTTTAATAAACT
1 GAAATATCTCTAACTATATCTTAAATAAACT
18023087 G
1 G
18023088 TTTTGTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (31 bp):
GAAATATCTCTAACTATATCTTAAATAAACT
Found at i:18028157 original size:20 final size:21
Alignment explanation
Indices: 18028120--18028159 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18028110 AAAATTTTTT
*
18028120 AAATTTATATTTGAAATAATAA
1 AAATTTAAATTT-AAATAATAA
18028142 AAATTTAAATTT-AATAAT
1 AAATTTAAATTTAAATAAT
18028160 TGAAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATTTAAATTTAAATAATAA
Found at i:18031629 original size:137 final size:136
Alignment explanation
Indices: 18031378--18031662 Score: 475
Period size: 137 Copynumber: 2.1 Consensus size: 136
18031368 GCAATCCAGA
* *
18031378 TTGTCTATATTTGCATGAGATTGGTTCTCAAGAGGATAGTTTCACAAAAGATGAGATTATATCAG
1 TTGTTTATATTTGCATGAGATTGGTTCTCAAGAGGATAGGTTCACAAAAGATGAGATTATATCAG
18031443 CATACACAAGGTATATTCATTTTAAGTTTGCTACACTAGTATAGCTGTCATCTCTATTTCTTCTT
66 CATACACAAGGTATATTCATTTTAAGTTTGCTACACTAGTATAGCTGTCATCTCTATTTCTT-TT
18031508 -TTTTATT
130 CTTTT-TT
18031515 TTGTTTATATTTGCATGAGATTGGTTCTCAAGAGGATAGGTTCACAAAAGATGAGATTATATCAG
1 TTGTTTATATTTGCATGAGATTGGTTCTCAAGAGGATAGGTTCACAAAAGATGAGATTATATCAG
* * * *
18031580 TATACACAAGGTGTATTTATTTTAAGTTTGCTACTCTAGTATAGCTGTCATCTCTATTTCTTTTC
66 CATACACAAGGTATATTCATTTTAAGTTTGCTACACTAGTATAGCTGTCATCTCTATTTCTTTTC
18031645 TTTTTT
131 TTTTTT
18031651 TT-TTTAATATTT
1 TTGTTT-ATATTT
18031663 TAGTTCATTT
Statistics
Matches: 140, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
135 3 0.02
136 12 0.09
137 125 0.89
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (136 bp):
TTGTTTATATTTGCATGAGATTGGTTCTCAAGAGGATAGGTTCACAAAAGATGAGATTATATCAG
CATACACAAGGTATATTCATTTTAAGTTTGCTACACTAGTATAGCTGTCATCTCTATTTCTTTTC
TTTTTT
Found at i:18037813 original size:59 final size:59
Alignment explanation
Indices: 18037740--18037855 Score: 160
Period size: 59 Copynumber: 2.0 Consensus size: 59
18037730 TTTATCAATG
*** * *
18037740 AATTATTAATTTAATGGTTTTGAAATCGATTTTAAAATTAAAAGTATTGAATTCAAATC
1 AATTATTAATTTAATGACGTTGAAATCGATTCTAAAATTAAAAATATTGAATTCAAATC
* * *
18037799 AATTGTTAATTTAATGACGTTGAAATTGATTCTAAAGTTAAAAATATTGAATTCAAA
1 AATTATTAATTTAATGACGTTGAAATCGATTCTAAAATTAAAAATATTGAATTCAAA
18037856 CTTCAATTCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (59 bp):
AATTATTAATTTAATGACGTTGAAATCGATTCTAAAATTAAAAATATTGAATTCAAATC
Found at i:18039592 original size:22 final size:24
Alignment explanation
Indices: 18039566--18039625 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
18039556 TTTTGTCAAT
*
18039566 TTTATATTTA-ATAAT-TTAATAA
1 TTTATATTTATAAAATATTAATAA
18039588 TTTATATTATATAAAATATTAATAA
1 TTTATATT-TATAAAATATTAATAA
18039613 TTATATATTTATA
1 TT-TATATTTATA
18039626 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
22 8 0.24
23 2 0.06
24 4 0.12
25 13 0.39
26 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTATATTTATAAAATATTAATAA
Found at i:18039698 original size:17 final size:18
Alignment explanation
Indices: 18039676--18039745 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 18
18039666 TATAAAAATA
18039676 TAAAAAA-TTATTATT-AT
1 TAAAAAATTTA-TATTAAT
18039693 TAAAAAATTTATATTAAT
1 TAAAAAATTTATATTAAT
*
18039711 TAAAAATAAATATTATATCAAT
1 T--AAA-AAAT-TTATATTAAT
*
18039733 TAATAAATTTATA
1 TAAAAAATTTATA
18039746 AAATTCATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 11 0.24
18 11 0.24
19 4 0.09
20 5 0.11
21 4 0.09
22 10 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAAAAATTTATATTAAT
Found at i:18039733 original size:22 final size:22
Alignment explanation
Indices: 18039688--18039740 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
18039678 AAAAATTATT
* *
18039688 ATTATTAAA-AAATTTATATTA
1 ATTAATAAATAAATTTATATCA
18039709 ATTAA-AAATAAATATTATATCA
1 ATTAATAAATAAAT-TTATATCA
18039731 ATTAATAAAT
1 ATTAATAAAT
18039741 TTATAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 8 0.30
22 12 0.44
23 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTAATAAATAAATTTATATCA
Found at i:18046663 original size:29 final size:29
Alignment explanation
Indices: 18046612--18046682 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
18046602 TAAATACTAT
18046612 TAAATTATAATAAAATATTTAATATAATATC
1 TAAATTAT-A-AAAATATTTAATATAATATC
* *
18046643 TAAATTTTAAAAAT-TTATAATGTAATATC
1 TAAATTATAAAAATATT-TAATATAATATC
*
18046672 TTAATTATAAA
1 TAAATTATAAA
18046683 TCTGTAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.06
29 25 0.71
30 1 0.03
31 7 0.20
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (29 bp):
TAAATTATAAAAATATTTAATATAATATC
Found at i:18046712 original size:16 final size:17
Alignment explanation
Indices: 18046690--18046730 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
18046680 AAATCTGTAA
*
18046690 TTAAATAAT-ATTTATT
1 TTAAATAATAATTAATT
*
18046706 TTTAAT-ATAATTAATT
1 TTAAATAATAATTAATT
18046722 TTAAATAAT
1 TTAAATAAT
18046731 GATATGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAATAATAATTAATT
Found at i:18048655 original size:24 final size:25
Alignment explanation
Indices: 18048618--18048683 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
18048608 TATATTTGAT
18048618 AATTTAAAATTAT-ATATATAAAATA
1 AATTTAAAATTATAAT-TATAAAATA
* *
18048643 AATTTAAAA-TATAATTATTAATTA
1 AATTTAAAATTATAATTATAAAATA
* *
18048667 AATTTAAATTTAAAATT
1 AATTTAAAATTATAATT
18048684 TTTTCATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATTTAAAATTATAATTATAAAATA
Found at i:18051594 original size:19 final size:18
Alignment explanation
Indices: 18051569--18051622 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
18051559 CTTATTTTTA
18051569 AAAATAATATTTTATATT
1 AAAATAATATTTTATATT
**
18051587 ATAAATAATATTAAATATT
1 A-AAATAATATTTTATATT
18051606 AAAATTTAATATTTTAT
1 AAAA--TAATATTTTAT
18051623 TAATTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 16 0.55
20 9 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AAAATAATATTTTATATT
Found at i:18056873 original size:18 final size:18
Alignment explanation
Indices: 18056850--18056884 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18056840 TAAATAAACA
*
18056850 AATATTTTAATGAATTTG
1 AATATTTAAATGAATTTG
18056868 AATATTTAAATGAATTT
1 AATATTTAAATGAATTT
18056885 AGACTTGTAT
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:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (18 bp):
AATATTTAAATGAATTTG
Found at i:18058130 original size:5 final size:5
Alignment explanation
Indices: 18058120--18058146 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18058110 TAAGCTACTT
18058120 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
18058147 GTCTATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:18061928 original size:13 final size:14
Alignment explanation
Indices: 18061912--18061945 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18061902 ATAAATTATA
18061912 ATAAATAAT-TTTT
1 ATAAATAATATTTT
*
18061925 ATAAAAAATATTTT
1 ATAAATAATATTTT
18061939 ATAAATA
1 ATAAATA
18061946 TATAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAAATAATATTTT
Found at i:18062604 original size:13 final size:13
Alignment explanation
Indices: 18062588--18062646 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 13
18062578 AAATAAATTA
18062588 AATAAAATTATTT
1 AATAAAATTATTT
18062601 AATAAAA-TATTT
1 AATAAAATTATTT
*
18062613 AAATATAAAAGTATTAT
1 --A-ATAAAATTATT-T
*
18062630 ATTAAAATT-TTT
1 AATAAAATTATTT
18062642 AATAA
1 AATAA
18062647 TTTATGAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
12 10 0.26
13 9 0.24
14 7 0.18
15 7 0.18
16 4 0.11
17 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
AATAAAATTATTT
Found at i:18062642 original size:29 final size:28
Alignment explanation
Indices: 18062589--18062643 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
18062579 AATAAATTAA
*
18062589 ATAAAATTATTTAATAAAATATTTAAAT
1 ATAAAAGTATTTAATAAAATATTTAAAT
* *
18062617 ATAAAAGTATTATATTAAAATTTTTAA
1 ATAAAAGTATT-TAATAAAATATTTAA
18062644 TAATTTATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
ATAAAAGTATTTAATAAAATATTTAAAT
Found at i:18062645 original size:28 final size:28
Alignment explanation
Indices: 18062585--18062645 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
18062575 TTTAAATAAA
*
18062585 TTAA-ATAAAATTATTTAATAAAATATT
1 TTAATATAAAAGTATTTAATAAAATATT
* *
18062612 TAAATATAAAAGTATTATATTAAAAT-TT
1 TTAATATAAAAGTATT-TAATAAAATATT
18062640 TTAATA
1 TTAATA
18062646 ATTTATGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.11
28 17 0.61
29 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
TTAATATAAAAGTATTTAATAAAATATT
Found at i:18063195 original size:163 final size:164
Alignment explanation
Indices: 18062872--18063182 Score: 516
Period size: 163 Copynumber: 1.9 Consensus size: 164
18062862 TTAGATTTTA
* * *
18062872 TAAAAAAAATACAATTTGATAAATCGTTTCATAGTGAAAACAGTTTAATAACAATACAATGATTA
1 TAAAAAAAATACAATTTCACAAATCGTTTCATAGTGAAAAAAGTTTAATAACAATACAATGATTA
* *
18062937 TTTAAATCATTCAATTAAATTCAATTAACATATAAAAATAAATTTAATTCTTATATTTAATAAAA
66 CTTAAATAATTCAATTAAATTCAATTAACATATAAAAATAAATTTAATTCTTATATTTAATAAAA
* *
18063002 TCTCTATTATTTTTACTTCAACTAAAATTTAGAT
131 TCTCGATTATTTATACTTCAACTAAAATTTAGAT
18063036 TAAAAAAAATACAATTTCACAAATCGTTTCATAGT-AAAAAAGTTTAATAACAATACAATGATTA
1 TAAAAAAAATACAATTTCACAAATCGTTTCATAGTGAAAAAAGTTTAATAACAATACAATGATTA
* * * *
18063100 CTTAAATAATTCAATTAAGTTTAATTAACATATAAAAATAAATTTGATTCTTATATTTAATAAGA
66 CTTAAATAATTCAATTAAATTCAATTAACATATAAAAATAAATTTAATTCTTATATTTAATAAAA
18063165 TCTCGATTATTTATACTT
131 TCTCGATTATTTATACTT
18063183 TAATTCAAAT
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
163 103 0.76
164 33 0.24
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.39
Consensus pattern (164 bp):
TAAAAAAAATACAATTTCACAAATCGTTTCATAGTGAAAAAAGTTTAATAACAATACAATGATTA
CTTAAATAATTCAATTAAATTCAATTAACATATAAAAATAAATTTAATTCTTATATTTAATAAAA
TCTCGATTATTTATACTTCAACTAAAATTTAGAT
Found at i:18066128 original size:7 final size:7
Alignment explanation
Indices: 18066118--18066145 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
18066108 TCCTCAGGTT
18066118 CCATGGA
1 CCATGGA
18066125 CCATGGA
1 CCATGGA
18066132 CCATGGA
1 CCATGGA
18066139 CCATGGA
1 CCATGGA
18066146 AGTTCACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (7 bp):
CCATGGA
Found at i:18070531 original size:17 final size:16
Alignment explanation
Indices: 18070499--18070543 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
18070489 GATCAAAATT
*
18070499 AATAAAATATTATTTTTT
1 AATAAAA-A-TATTTTTA
18070517 AATATAAAATATTTTTA
1 AATA-AAAATATTTTTA
18070534 AATAAAAATA
1 AATAAAAATA
18070544 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 11 0.44
18 5 0.20
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAAAATATTTTTA
Found at i:18071006 original size:21 final size:21
Alignment explanation
Indices: 18070982--18071044 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
18070972 TCAATACCGT
18070982 TTTTATCTTTGTCATACTAAA
1 TTTTATCTTTGTCATACTAAA
* * *
18071003 TTTTATTTTTGTCAAACTGAA
1 TTTTATCTTTGTCATACTAAA
* *
18071024 CTTTATCTTCGTCATACTAAA
1 TTTTATCTTTGTCATACTAAA
18071045 ATAAATCATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (21 bp):
TTTTATCTTTGTCATACTAAA
Found at i:18071086 original size:20 final size:20
Alignment explanation
Indices: 18071061--18071101 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18071051 CATAATTAAT
*
18071061 ACCATCTTTATCTTTGTCAA
1 ACCATCTTTATCTTTATCAA
*
18071081 ACCATCTTTATTTTTATCAA
1 ACCATCTTTATCTTTATCAA
18071101 A
1 A
18071102 TTAAACTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.46
Consensus pattern (20 bp):
ACCATCTTTATCTTTATCAA
Found at i:18071109 original size:83 final size:83
Alignment explanation
Indices: 18071004--18071165 Score: 225
Period size: 83 Copynumber: 2.0 Consensus size: 83
18070994 CATACTAAAT
* * *
18071004 TTTATTTTTGTCAAACTGAACTTTATCTTCGTCATACTAAAATAAATCATAATTAATACCATCTT
1 TTTATTTTTATCAAACTAAACTTTATCTTCGTCATACTAAAATAAATCAAAATTAATACCATCTT
18071069 TATCTTTGTCAAACCATC
66 TATCTTTGTCAAACCATC
* * * ** * *
18071087 TTTATTTTTATCAAATTAAACTTTATCTTCGTCATATTGAAATGGATCAAAATTAATATCATTTT
1 TTTATTTTTATCAAACTAAACTTTATCTTCGTCATACTAAAATAAATCAAAATTAATACCATCTT
*
18071152 TTTCTTTGTCAAAC
66 TATCTTTGTCAAAC
18071166 TAAAATTGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (83 bp):
TTTATTTTTATCAAACTAAACTTTATCTTCGTCATACTAAAATAAATCAAAATTAATACCATCTT
TATCTTTGTCAAACCATC
Found at i:18072566 original size:2 final size:2
Alignment explanation
Indices: 18072544--18072603 Score: 54
Period size: 2 Copynumber: 31.5 Consensus size: 2
18072534 ATCTATATTT
* * * *
18072544 TA TA GA TA T- TA TA TC TA TA TA TA TA TA TC TA TA TA T- TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
18072584 TA TA TA TA TT TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
18072604 TTATGAGATT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
1 3 0.07
2 42 0.93
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:18072574 original size:36 final size:34
Alignment explanation
Indices: 18072533--18072603 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 34
18072523 TTTGATTTTC
*
18072533 TATCTATATTTTATAGATATTATATCTATATATATA
1 TATCTATATATTATAGATA-TATATCTA-ATATATA
** *
18072569 TATCTATATATTATTTATATATATTTAATATATA
1 TATCTATATATTATAGATATATATCTAATATATA
18072603 T
1 T
18072604 TTATGAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 8 0.26
35 7 0.23
36 16 0.52
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (34 bp):
TATCTATATATTATAGATATATATCTAATATATA
Found at i:18072589 original size:11 final size:12
Alignment explanation
Indices: 18072561--18072607 Score: 57
Period size: 11 Copynumber: 4.2 Consensus size: 12
18072551 ATTATATCTA
*
18072561 TATATATATATC
1 TATATATATATT
18072573 TATATAT-TA-T
1 TATATATATATT
18072583 T-TATATATATT
1 TATATATATATT
18072594 TA-ATATATATT
1 TATATATATATT
18072605 TAT
1 TAT
18072608 GAGATTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 15 0.50
12 7 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATATATT
Found at i:18072853 original size:21 final size:20
Alignment explanation
Indices: 18072823--18072863 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
18072813 TTTCATTTCA
18072823 TTTTTATTAAATTAATAAAT
1 TTTTTATTAAATTAATAAAT
*
18072843 TTTTGTATTAATTTAATAAAT
1 TTTT-TATTAAATTAATAAAT
18072864 ATTTCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTATTAAATTAATAAAT
Found at i:18074582 original size:10 final size:9
Alignment explanation
Indices: 18074566--18074592 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18074556 TAATATATGA
18074566 TTTAAAAAT
1 TTTAAAAAT
18074575 TTTAAAAAT
1 TTTAAAAAT
18074584 TTTAAAAAT
1 TTTAAAAAT
18074593 AAGATAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:18075955 original size:3 final size:3
Alignment explanation
Indices: 18075947--18075975 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18075937 GGAATAGAAT
18075947 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
18075976 TCAGGTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:18094345 original size:7 final size:7
Alignment explanation
Indices: 18094316--18094365 Score: 64
Period size: 7 Copynumber: 6.6 Consensus size: 7
18094306 CAGAAAAGAA
18094316 AAAACTTC
1 AAAA-TTC
18094324 AAAACTTC
1 AAAA-TTC
18094332 AAAAATTC
1 -AAAATTC
18094340 AAAATTC
1 AAAATTC
18094347 AAAATTC
1 AAAATTC
18094354 AAAATTCC
1 AAAATT-C
18094362 AAAA
1 AAAA
18094366 CACTATCCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 20 0.50
8 16 0.40
9 4 0.10
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:18104067 original size:92 final size:94
Alignment explanation
Indices: 18103941--18104118 Score: 279
Period size: 92 Copynumber: 1.9 Consensus size: 94
18103931 CATTTACCGC
* * * *
18103941 TCTTATTTGCAGGGCCCTTAAAAACCCATAAAGGAAAAGTAAATTAGAACTTTAAATACT-AAAA
1 TCTTATTTGCAGGGCCCTTAAAAACCCATAAAGGAAAAGCAAACTAGAACTTAAAAAACTAAAAA
18104005 TTAC-AAAAAAAAAGAATATATTTATCAA
66 TTACGAAAAAAAAAGAATATATTTATCAA
*
18104033 TCTTATTTGCAGGGCCCTTAAAAACCCATTAAGGAAAAGCAAACTAGAACTTAAAAAACTAAAAA
1 TCTTATTTGCAGGGCCCTTAAAAACCCATAAAGGAAAAGCAAACTAGAACTTAAAAAACTAAAAA
* *
18104098 TTACGCAAAAAAATGAATATA
66 TTACGAAAAAAAAAGAATATA
18104119 AACATAATGG
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 55 0.71
93 8 0.10
94 14 0.18
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.25
Consensus pattern (94 bp):
TCTTATTTGCAGGGCCCTTAAAAACCCATAAAGGAAAAGCAAACTAGAACTTAAAAAACTAAAAA
TTACGAAAAAAAAAGAATATATTTATCAA
Found at i:18113214 original size:23 final size:23
Alignment explanation
Indices: 18113165--18113221 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
18113155 AAATGATAAT
18113165 AAAAATTATTGTAATTACGATTAA
1 AAAAATTATTGTAATTAC-ATTAA
18113189 AAAAATTATTGTAACTGTA-ATTAA
1 AAAAATTATTGTAA-T-TACATTAA
*
18113213 AAAATTTAT
1 AAAAATTAT
18113222 AAAAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 27 0.90
25 1 0.03
26 2 0.07
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (23 bp):
AAAAATTATTGTAATTACATTAA
Found at i:18113864 original size:14 final size:14
Alignment explanation
Indices: 18113845--18113886 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18113835 GTTATATTTG
18113845 ATAATTTAAAATAA
1 ATAATTTAAAATAA
* *
18113859 ATAATTATAAATTAT
1 ATAATT-TAAAATAA
18113874 AT-ATTTAAAATAA
1 ATAATTTAAAATAA
18113887 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 9 0.39
15 8 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATTTAAAATAA
Found at i:18116709 original size:18 final size:18
Alignment explanation
Indices: 18116663--18116715 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
18116653 TTTTATATTG
*
18116663 ATATAAATTATAAAATGTA
1 ATATAAA-TATAAAATATA
* **
18116682 ATTTTTATATAAAATATA
1 ATATAAATATAAAATATA
18116700 ATATAAATATATAAAT
1 ATATAAATATA-AAAT
18116716 TTTAATATTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
ATATAAATATAAAATATA
Found at i:18118310 original size:18 final size:19
Alignment explanation
Indices: 18118282--18118320 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
18118272 CCAAACAAAA
18118282 TTAATAAAATAATATATAT
1 TTAATAAAATAATATATAT
18118301 TTAA-AAAATAATATATAT
1 TTAATAAAATAATATATAT
18118319 TT
1 TT
18118321 TTTGTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAATAAAATAATATATAT
Found at i:18118517 original size:24 final size:24
Alignment explanation
Indices: 18118485--18118539 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
18118475 TAAAATTTAT
*
18118485 ATTTAATATATTATTAATATATAA
1 ATTTAATATATTATTAATAAATAA
*
18118509 ATTTTATATATTATTAATAAATAA
1 ATTTAATATATTATTAATAAATAA
18118533 ATATTAA
1 AT-TTAA
18118540 CCCTTAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTAATATATTATTAATAAATAA
Found at i:18119461 original size:38 final size:38
Alignment explanation
Indices: 18119382--18119461 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
18119372 GTATAAAAAT
**
18119382 ATTTAAATTTGATTCAATCAATAAATCAAATTATTTGA
1 ATTTAAATTTGATTCAATCAATAAATCAAATTATTAAA
* * * *
18119420 ATTTAAATTTGATTCGAT-AATAATTTAATTTAATTAAA
1 ATTTAAATTTGATTCAATCAATAAATCAAATT-ATTAAA
18119458 ATTT
1 ATTT
18119462 TATTTAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 10 0.29
38 25 0.71
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (38 bp):
ATTTAAATTTGATTCAATCAATAAATCAAATTATTAAA
Found at i:18119470 original size:11 final size:11
Alignment explanation
Indices: 18119440--18119481 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18119430 GATTCGATAA
18119440 TAATTT-AATT
1 TAATTTAAATT
*
18119450 TAATTAAAATT
1 TAATTTAAATT
*
18119461 TTATTTAAATT
1 TAATTTAAATT
*
18119472 AAATTTAAAT
1 TAATTTAAAT
18119482 AATTTATAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATTTAAATT
Found at i:18119471 original size:17 final size:16
Alignment explanation
Indices: 18119441--18119479 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
18119431 ATTCGATAAT
18119441 AATTTAATTTAATTAA
1 AATTTAATTTAATTAA
*
18119457 AATTTTATTTAAATT-A
1 AATTTAATTT-AATTAA
18119473 AATTTAA
1 AATTTAA
18119480 ATAATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAATTTAATTAA
Found at i:18124141 original size:2 final size:2
Alignment explanation
Indices: 18124134--18124172 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
18124124 TTACACTTAG
* *
18124134 AT AT AT AT AT AT GT AT AT GT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18124173 GTTGACGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18125753 original size:58 final size:57
Alignment explanation
Indices: 18125564--18125958 Score: 341
Period size: 58 Copynumber: 6.6 Consensus size: 57
18125554 TTTGTACAAG
* * *
18125564 GAAAAATTGATACTTTCAACTTTTC-CTCAAAATATTTTTTTGAAAACTTTAATCTTGA
1 GAAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAAA-TTT-ATTTTAA
* *
18125622 GAAAAATTGATACTTTCAACTTTTC-CTAAAAAAAAAAACCCTTTTTGTTTTGAAATTTTATCTT
1 GAAAAATTGATACTTTCAACTTTTCTCT------AAAAA---TATTT-TTTTGAAAATTTAT-TT
18125686 TAA
55 TAA
* * *
18125689 GGAAAATTGATACTTTCAACTTTACTCTAAAAATA-TTTTTTGAAAATTTTAATTTCAA
1 GAAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAAA-TTT-ATTTTAA
* * * *
18125747 AAAAAATTGATACTTTCAATTTTTTCTCAAAAAAAACTTTTTTTGAAAATTTATTCTTAA
1 GAAAAATTGATACTTTCAA-CTTTTCTCTAAAAATA-TTTTTTTGAAAATTTATT-TTAA
* * *
18125807 -AGAAAATTAATACTTTCAA-TTTTTTCTTAAAAATATATTTTTTTTGAAAATTTAATTTTGA
1 GA-AAAATTGATACTTTCAACTTTTCTC-T-AAAA-ATA-TTTTTTTGAAAATTT-ATTTTAA
* * *
18125868 GAAAAATTGATATTTTCAACTTTTTCTCAAAAAATTTTTTTTTGAAAATTTATTCTTAA
1 GAAAAATTGATACTTTCAAC-TTTTCTCTAAAAATATTTTTTTGAAAATTTATT-TTAA
* *
18125927 GGAAAATTGATACTTTCAACTTTTCTTTAAAA
1 GAAAAATTGATACTTTCAACTTTTCTCTAAAA
18125959 TGAAATAAAT
Statistics
Matches: 277, Mismatches: 33, Indels: 54
0.76 0.09 0.15
Matches are distributed among these distances:
57 8 0.03
58 72 0.26
59 55 0.20
60 28 0.10
61 50 0.18
62 9 0.03
63 6 0.02
64 4 0.01
66 2 0.01
67 33 0.12
68 10 0.04
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTTGAAAATTTATTTTAA
Found at i:18125777 original size:30 final size:29
Alignment explanation
Indices: 18125743--18125839 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 29
18125733 AATTTTAATT
18125743 TCAAAAAAAATTGATACTTTCAATTTTTTC
1 TCAAAAAAAATT-ATACTTTCAATTTTTTC
* * *
18125773 TCAAAAAAAACTT-T-TTTTGAAAATTTATTC
1 TCAAAAAAAA-TTATACTTT--CAATTTTTTC
* *
18125803 TTAAAGAAAATTAATACTTTCAATTTTTTC
1 TCAAAAAAAATT-ATACTTTCAATTTTTTC
*
18125833 TTAAAAA
1 TCAAAAA
18125840 TATATTTTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
28 3 0.06
29 3 0.06
30 40 0.77
31 3 0.06
32 3 0.06
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (29 bp):
TCAAAAAAAATTATACTTTCAATTTTTTC
Found at i:18125820 original size:60 final size:59
Alignment explanation
Indices: 18125566--18125950 Score: 338
Period size: 61 Copynumber: 6.4 Consensus size: 59
18125556 TGTACAAGGA
* * * *
18125566 AAAATTGATACTTTCAACTTTTCCTC--AAAATATTTTTTTGAAAACTTTAATCTT-GAG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAATTTTTTTGAAAA-TTTATTCTTAAAG
* * *
18125623 AAAAATTGATACTTTCAACTTTTCCTAAAAAAAAAAACCCTTTTTGTTTTGAAATTTTA-TCTTT
1 -AAAATTGATACTTTCAACTTTTTCT--CAAAAAAAA-----TTT-TTTTGAAAATTTATTC-TT
*
18125687 AAGG
56 AAAG
* * * * *
18125691 AAAATTGATACTTTCAAC-TTTACTCTAAAAATA-TTTTTTGAAAATTTTAATT-TCAAAA
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAATTTTTTTGAAAA-TTT-ATTCTTAAAG
*
18125749 AAAATTGATACTTTCAATTTTTTCTCAAAAAAAACTTTTTTTGAAAATTTATTCTTAAAG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAA-TTTTTTTGAAAATTTATTCTTAAAG
* * * * *
18125809 AAAATTAATACTTTCAATTTTTTCTTAAAAATATATTTTTTTTGAAAATTTAATT-TT-GAG
1 AAAATTGATACTTTCAACTTTTTCTCAAAAA-A-AATTTTTTTGAAAATTT-ATTCTTAAAG
* ** *
18125869 AAAAATTGATATTTTCAACTTTTTCTCAAAAAATTTTTTTTTGAAAATTTATTCTTAAGG
1 -AAAATTGATACTTTCAACTTTTTCTCAAAAAAAATTTTTTTGAAAATTTATTCTTAAAG
18125929 AAAATTGATACTTTCAACTTTT
1 AAAATTGATACTTTCAACTTTT
18125951 CTTTAAAATG
Statistics
Matches: 271, Mismatches: 31, Indels: 49
0.77 0.09 0.14
Matches are distributed among these distances:
57 8 0.03
58 53 0.20
59 55 0.20
60 41 0.15
61 56 0.21
62 9 0.03
64 6 0.02
66 7 0.03
67 27 0.10
68 9 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.45
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCTCAAAAAAAATTTTTTTGAAAATTTATTCTTAAAG
Found at i:18125864 original size:18 final size:19
Alignment explanation
Indices: 18125824--18125865 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18125814 TAATACTTTC
18125824 AATTTTTTCTTAAAAATAT
1 AATTTTTTCTTAAAAATAT
* *
18125843 -ATTTTTT-TTGAAAATTT
1 AATTTTTTCTTAAAAATAT
18125860 AATTTT
1 AATTTT
18125866 GAGAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
AATTTTTTCTTAAAAATAT
Found at i:18125973 original size:9 final size:9
Alignment explanation
Indices: 18125956--18126057 Score: 61
Period size: 9 Copynumber: 10.9 Consensus size: 9
18125946 CTTTTCTTTA
*
18125956 AAATGAAAT
1 AAATAAAAT
18125965 AAATAAAAT
1 AAATAAAAT
18125974 AAATAAAAAT
1 AAAT-AAAAT
18125984 AAA-AATCAAT
1 AAATAA--AAT
18125994 AAA-AAAAT
1 AAATAAAAT
*
18126002 AAAAAAAAT
1 AAATAAAAT
18126011 AAATTAACAACCCT
1 AAA-TAA-AA---T
*
18126025 -AATATAAT
1 AAATAAAAT
18126033 -AATAATAAT
1 AAATAA-AAT
18126042 AAAT-AAAT
1 AAATAAAAT
18126050 AAATAAAA
1 AAATAAAA
18126058 ATAATAATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
8 20 0.26
9 27 0.35
10 21 0.27
11 4 0.05
12 2 0.03
13 2 0.03
14 1 0.01
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:18125994 original size:16 final size:15
Alignment explanation
Indices: 18125965--18126013 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
18125955 AAAATGAAAT
18125965 AAATAAAATAAATAA
1 AAATAAAATAAATAA
*
18125980 AAATAAAAATCAATAAAA
1 AAAT-AAAAT-AA-ATAA
*
18125998 AAATAAAAAAAATAA
1 AAATAAAATAAATAA
18126013 A
1 A
18126014 TTAACAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 6 0.21
18 7 0.25
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAATAAATAA
Found at i:18126007 original size:20 final size:20
Alignment explanation
Indices: 18125971--18126010 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18125961 AAATAAATAA
*
18125971 AATAAATAAAAATAAAAATC
1 AATAAATAAAAAAAAAAATC
*
18125991 AATAAAAAAATAAAAAAAAT
1 AATAAATAAA-AAAAAAAAT
18126011 AAATTAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (20 bp):
AATAAATAAAAAAAAAAATC
Found at i:18126081 original size:24 final size:24
Alignment explanation
Indices: 18126033--18126082 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
18126023 CTAATATAAT
* *
18126033 AATAATAATAAATAAATAAATAAA
1 AATAATAATAAATAAAGAAAAAAA
18126057 AATAATAATAAA-AAACGAAAAAAA
1 AATAATAATAAATAAA-GAAAAAAA
18126081 AA
1 AA
18126083 AACCTGGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (24 bp):
AATAATAATAAATAAAGAAAAAAA
Found at i:18126084 original size:27 final size:27
Alignment explanation
Indices: 18126030--18126084 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
18126020 ACCCTAATAT
* * *
18126030 AATAATAATAATAAATAAATAAATAAA
1 AATAATAATAAAAAAGAAATAAAAAAA
18126057 AATAATAATAAAAAACGAAA-AAAAAAA
1 AATAATAATAAAAAA-GAAATAAAAAAA
18126084 A
1 A
18126085 CCTGGAGCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (27 bp):
AATAATAATAAAAAAGAAATAAAAAAA
Found at i:18126990 original size:22 final size:21
Alignment explanation
Indices: 18126933--18126994 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
18126923 AATATTAATG
*
18126933 AAAATAAATCAGATAAA-TAAA
1 AAAATTAA-CAGATAAATTAAA
*
18126954 AAAATTAACAAATAAATTAAA
1 AAAATTAACAGATAAATTAAA
18126975 ATTAAA-TAACAGATAAATTA
1 A--AAATTAACAGATAAATTA
18126995 TAACATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 7 0.20
21 12 0.34
22 13 0.37
23 3 0.09
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (21 bp):
AAAATTAACAGATAAATTAAA
Found at i:18127087 original size:5 final size:5
Alignment explanation
Indices: 18127079--18127138 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
18127069 ACATAAGATA
* * *
18127079 AAAAT AAAAG AAAAA AAAAT AAAA- AAACA- ATAAT AATAAT AAAAT AAAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AA-AAT AAAAT -AAAAT
18127130 AAAAT AAAA
1 AAAAT AAAA
18127139 ATGTAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
4 4 0.09
5 32 0.70
6 10 0.22
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:18127127 original size:25 final size:23
Alignment explanation
Indices: 18127094--18127166 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 23
18127084 AAAAGAAAAA
*
18127094 AAAATAAAAAAACAATAATAATAAT
1 AAAATAAAAAAA-AATAAAAAT-AT
*
18127119 AAAATAAAAATAAAATAAAAATGT
1 AAAATAAAAA-AAAATAAAAATAT
*
18127143 AAAATACAAAAAAAAAAGAAAATA
1 AAAATA-AAAAAAAATA-AAAATA
18127167 GACTTACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.29
25 27 0.66
26 2 0.05
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (23 bp):
AAAATAAAAAAAAATAAAAATAT
Found at i:18127153 original size:7 final size:6
Alignment explanation
Indices: 18127076--18127164 Score: 53
Period size: 6 Copynumber: 15.0 Consensus size: 6
18127066 AATACATAAG
* * *
18127076 ATAAAA AT-AAA A-GAAA A-AAAA ATAAAA A-AACA ATAATA ATAATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA AT-A-AAA
* * *
18127122 ATAAAA AT-AAA ATAAAA ATGTAAA ATACAAA AAAAAA AGAAAA
1 ATAAAA ATAAAA ATAAAA AT-AAAA ATA-AAA ATAAAA ATAAAA
18127165 TAGACTTACC
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
5 21 0.31
6 30 0.45
7 12 0.18
8 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:18127157 original size:11 final size:11
Alignment explanation
Indices: 18127071--18127140 Score: 72
Period size: 11 Copynumber: 6.2 Consensus size: 11
18127061 TAATAAATAC
*
18127071 ATAAGATAAAA
1 ATAAAATAAAA
*
18127082 ATAAAAGAAAA
1 ATAAAATAAAA
18127093 A-AAAATAAAA
1 ATAAAATAAAA
18127103 A-AACAATAATAATA
1 ATAA-AAT-A-AA-A
18127117 ATAAAATAAAA
1 ATAAAATAAAA
18127128 ATAAAATAAAA
1 ATAAAATAAAA
18127139 AT
1 AT
18127141 GTAAAATACA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
10 11 0.22
11 27 0.53
12 3 0.06
13 3 0.06
14 5 0.10
15 2 0.04
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:18127159 original size:31 final size:31
Alignment explanation
Indices: 18127081--18127166 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
18127071 ATAAGATAAA
*
18127081 AATAA-AAGAAAAAAAAATAAAA-AAACAAT
1 AATAATAATAAAAAAAAATAAAATAAACAAT
18127110 AATAATAATAAAATAAAAATAAAATAAA-AATGT
1 AATAATAATAAAA-AAAAATAAAATAAACAA--T
*
18127143 AA-AATACA-AAAAAAAAAGAAAATA
1 AATAATA-ATAAAAAAAAATAAAATA
18127167 GACTTACCTA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
29 5 0.10
30 6 0.12
31 23 0.47
32 11 0.22
33 4 0.08
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.15
Consensus pattern (31 bp):
AATAATAATAAAAAAAAATAAAATAAACAAT
Found at i:18127422 original size:41 final size:42
Alignment explanation
Indices: 18127329--18127501 Score: 233
Period size: 42 Copynumber: 4.1 Consensus size: 42
18127319 TTTATCAAAA
* * * * *
18127329 CTCCTCTAAGCAGAGGCTCAACGAC-TTTGAAAAAAATAAATGG
1 CTCCTCTAAACAGAGGCACCACGACTTTTG--AAAAGTAAATTG
* *
18127372 CTCCTCTAAACAGAGGCACTATGAC-TTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
*
18127413 CTTCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
*
18127455 CTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
18127497 CTCCT
1 CTCCT
18127502 TGACAATCAT
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
41 32 0.27
42 61 0.52
43 25 0.21
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (42 bp):
CTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTG
Found at i:18128530 original size:15 final size:15
Alignment explanation
Indices: 18128497--18128542 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
18128487 TGAGTCCTCC
**
18128497 TTTTTCATTCATTTT
1 TTTTTCATTTTTTTT
18128512 TTTTTCATTTTTTTAT
1 TTTTTCATTTTTTT-T
*
18128528 TTTTTTATTTTTTTT
1 TTTTTCATTTTTTTT
18128543 CAAGCATAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTCATTTTTTTT
Found at i:18128542 original size:9 final size:8
Alignment explanation
Indices: 18128510--18128541 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
18128500 TTCATTCATT
18128510 TTTTTTTCA
1 TTTTTTT-A
18128519 TTTTTTTA
1 TTTTTTTA
18128527 TTTTTTTA
1 TTTTTTTA
18128535 TTTTTTT
1 TTTTTTT
18128542 TCAAGCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.09, C:0.03, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:18139138 original size:67 final size:67
Alignment explanation
Indices: 18138998--18139138 Score: 162
Period size: 68 Copynumber: 2.1 Consensus size: 67
18138988 ATTTTTTTTA
* * * *
18138998 AAAATTTTAATCTTGAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAACCCTTTTTGT
1 AAAATTTTAATCTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAA--CTTATTCT
**
18139063 TTTG
64 TAGG
*
18139067 -AAATTTT-ATCTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAA-TTATTCTT
1 AAAATTTTAATC-TTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAACTTATTCTT
18139129 AAGG
65 -AGG
18139133 AAAATT
1 AAAATT
18139139 GATACTTTCA
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
65 6 0.10
66 1 0.02
67 8 0.13
68 47 0.76
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (67 bp):
AAAATTTTAATCTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAAAACTTATTCTTA
GG
Found at i:18139253 original size:81 final size:78
Alignment explanation
Indices: 18139133--18139287 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 78
18139123 ATTCTTAAGG
*
18139133 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTGAAAATTTTAATT-TCGAA-AA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAA-A-AATTTTTTTGAAAA-TTT-ATTCT-GAAGAA
18139196 AAATTGATACTTTCCTAA
61 AAATTGATACTTTCCTAA
** * *
18139214 AAAATTGATACTTTCAACTTTT-TGTCAAAAAAACTTTTTTTGAAAATTTATTCTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAAAAATTTTTTTGAAAATTTATTCTGAAGAAAAAT
18139278 TGATACTTTC
65 TGATACTTTC
18139288 AACTTTTCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
77 5 0.07
78 20 0.30
79 13 0.19
80 2 0.03
81 27 0.40
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (78 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAAAAATTTTTTTGAAAATTTATTCTGAAGAAAAATT
GATACTTTCCTAA
Found at i:18139354 original size:4 final size:4
Alignment explanation
Indices: 18139342--18139460 Score: 67
Period size: 4 Copynumber: 29.8 Consensus size: 4
18139332 TATTTAAAGA
18139342 AAAT GAAAT AAAT -AA- AAAT AAAAT AAA- AAAT AAA- AAAT AAAT AAAAT
1 AAAT -AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT
* * *
18139389 GAAAAT AAAT AAA- AAAT AAA- AAA- AATAT TAAC AACCCT AAAT -AAT
1 --AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AA--AT AAAT AAAT
18139434 -AAT AAAAT AAAT AAAT AAAT AAAT AAA
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAA
18139461 AATAGTAAAA
Statistics
Matches: 94, Mismatches: 6, Indels: 29
0.73 0.05 0.22
Matches are distributed among these distances:
3 24 0.26
4 47 0.50
5 16 0.17
6 7 0.07
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:18139367 original size:11 final size:11
Alignment explanation
Indices: 18139347--18139413 Score: 70
Period size: 11 Copynumber: 6.2 Consensus size: 11
18139337 AAAGAAAATG
18139347 AAAT-AAATAA
1 AAATAAAATAA
18139357 AAATAAAATAAA
1 AAATAAAAT-AA
18139369 AAATAAAA-AA
1 AAATAAAATAA
*
18139379 TAAATAAAATGA
1 -AAATAAAATAA
18139391 AAAT-AAATAAA
1 AAATAAAAT-AA
18139402 AAATAAAA-AA
1 AAATAAAATAA
18139412 AA
1 AA
18139414 TATTAACAAC
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
10 14 0.29
11 21 0.43
12 14 0.29
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:18139379 original size:29 final size:26
Alignment explanation
Indices: 18139347--18139464 Score: 95
Period size: 26 Copynumber: 4.6 Consensus size: 26
18139337 AAAGAAAATG
18139347 AAATAAATAAAAATAAAATAAAAAATAAA
1 AAATAAATAAAAATAAAAT---AAATAAA
18139376 AAATAAAT-AAAATGAAAATAAATAAA
1 AAATAAATAAAAAT-AAAATAAATAAA
* *
18139402 AAATAAA-AAAAAT---ATTAA-CAA
1 AAATAAATAAAAATAAAATAAATAAA
*** *
18139423 CCCTAAATAATAATAAAATAAATAAA
1 AAATAAATAAAAATAAAATAAATAAA
18139449 TAAATAAATAAAAATA
1 -AAATAAATAAAAATA
18139465 GTAAAAAGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
21 6 0.09
22 9 0.13
25 4 0.06
26 21 0.30
27 11 0.16
28 5 0.07
29 13 0.19
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.20
Consensus pattern (26 bp):
AAATAAATAAAAATAAAATAAATAAA
Found at i:18139408 original size:51 final size:53
Alignment explanation
Indices: 18139342--18139464 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 53
18139332 TATTTAAAGA
18139342 AAATGAAATAAATAAAAATAAA-A-TAA-AA-AATAAAAAATAAATAAAATGAAAAT
1 AAAT-AAATAAATAAAAATAAATATTAACAACAATAAAAAAT-AATAAAAT--AAAT
** *
18139395 AAATAAA-AAATAAAAA-AAATATTAACAACCCTAAATAATAATAAAATAAAT
1 AAATAAATAAATAAAAATAAATATTAACAACAATAAAAAATAATAAAATAAAT
18139446 AAATAAATAAATAAAAATA
1 AAATAAATAAATAAAAATA
18139465 GTAAAAAGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
50 3 0.05
51 21 0.34
52 15 0.25
53 15 0.25
54 7 0.11
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (53 bp):
AAATAAATAAATAAAAATAAATATTAACAACAATAAAAAATAATAAAATAAAT
Found at i:18139411 original size:33 final size:33
Alignment explanation
Indices: 18139341--18139410 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 33
18139331 TTATTTAAAG
18139341 AAAATGAAATAAATAAAAATAAAATAAAAAATAA
1 AAAATGAAATAAATAAAAATAAAATAAAAAAT-A
*
18139375 AAAAT-AAATAAAATGAAAAT-AAATAAAAAATA
1 AAAATGAAAT-AAATAAAAATAAAATAAAAAATA
18139407 AAAA
1 AAAA
18139411 AAATATTAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 5 0.15
33 15 0.44
34 14 0.41
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (33 bp):
AAAATGAAATAAATAAAAATAAAATAAAAAATA
Found at i:18139413 original size:43 final size:45
Alignment explanation
Indices: 18139336--18139464 Score: 133
Period size: 47 Copynumber: 2.8 Consensus size: 45
18139326 TAATTTTATT
*
18139336 TAAAGAAAATG-AAATAAAT-AAAAATAAAATAAAAAATAA-AA-AA
1 TAAATAAAATGAAAATAAATAAAAAAT-AAA-AAAAAATAACAACAA
**
18139379 TAAATAAAATGAAAATAAATAAAAAATAAAAAAAATATTAACAACCC
1 TAAATAAAATGAAAATAAATAAAAAATAAAAAAAA-A-TAACAACAA
*
18139426 TAAATAATAAT-AAAATAAATAAATAAATAAATAAAAATA
1 TAAATAA-AATGAAAATAAATAAA-AAATAAAAAAAAATA
18139465 GTAAAAAGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
43 15 0.20
44 12 0.16
45 9 0.12
46 4 0.05
47 20 0.27
48 14 0.19
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.20
Consensus pattern (45 bp):
TAAATAAAATGAAAATAAATAAAAAATAAAAAAAAATAACAACAA
Found at i:18139776 original size:16 final size:16
Alignment explanation
Indices: 18139750--18139793 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
18139740 GTAGATCGAG
*
18139750 CCTCCTCCCTCTCTCT
1 CCTCCTTCCTCTCTCT
*
18139766 CTTCCTTCCTCT-TCT
1 CCTCCTTCCTCTCTCT
18139781 CCTCCTT-CTCTCT
1 CCTCCTTCCTCTCT
18139794 AAACTTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 10 0.42
16 10 0.42
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
CCTCCTTCCTCTCTCT
Found at i:18156211 original size:3 final size:3
Alignment explanation
Indices: 18156203--18156231 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18156193 TTCCAGAGAG
18156203 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
18156232 CTGAGAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18158143 original size:24 final size:24
Alignment explanation
Indices: 18158096--18158143 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18158086 TGACATCATC
* * *
18158096 TTATTTATTGATAATATATGAAAT
1 TTATATATTGATAATAGATCAAAT
18158120 TTATATATTGATAATAGATCAAAT
1 TTATATATTGATAATAGATCAAAT
18158144 ATAAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (24 bp):
TTATATATTGATAATAGATCAAAT
Found at i:18177867 original size:37 final size:36
Alignment explanation
Indices: 18177823--18177926 Score: 97
Period size: 35 Copynumber: 2.9 Consensus size: 36
18177813 AAATTTTTAA
18177823 ATTTATA-TAATATTTTATATAAAAATTATTTATTATT
1 ATTTATATTAATATTTTATATAAAAATTATTT-TT-TT
* *** *
18177860 ATTTATATTGATATAAAAATATAAAAAATATTTTTTT
1 ATTTATATTAATAT-TTTATATAAAAATTATTTTTTT
*
18177897 ATTTA-ATTAA-ATTTATATATAATAATTATT
1 ATTTATATTAATATTT-TATATAAAAATTATT
18177927 AAAATTTTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
35 14 0.26
36 4 0.08
37 14 0.26
38 7 0.13
39 14 0.26
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (36 bp):
ATTTATATTAATATTTTATATAAAAATTATTTTTTT
Found at i:18177965 original size:15 final size:16
Alignment explanation
Indices: 18177929--18177965 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18177919 TAATTATTAA
18177929 AATTTTAAATTTTATT
1 AATTTTAAATTTTATT
*
18177945 ATTTTTAAATTTT-TT
1 AATTTTAAATTTTATT
18177960 AATTTT
1 AATTTT
18177966 TTGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
AATTTTAAATTTTATT
Found at i:18190151 original size:32 final size:32
Alignment explanation
Indices: 18190086--18190152 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
18190076 AAATTTGATT
* * *
18190086 ATTTGTATATTTATATTATATAAAATATTAAA
1 ATTTATATATTCATATTATATAAAATATAAAA
***
18190118 ATTTATATATTCATATTATATTTTATATAAAA
1 ATTTATATATTCATATTATATAAAATATAAAA
18190150 ATT
1 ATT
18190153 ACATTTTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (32 bp):
ATTTATATATTCATATTATATAAAATATAAAA
Found at i:18190161 original size:38 final size:38
Alignment explanation
Indices: 18190092--18190192 Score: 107
Period size: 38 Copynumber: 2.6 Consensus size: 38
18190082 GATTATTTGT
18190092 ATATT-TATATTATATAAAATATTAAAATTTATATATTC
1 ATATTATATATTATATAAAATATTAAAATTTATA-ATTC
* * * *
18190130 ATATTATATTTTATATAAAA-ATTACATTTTATAATTT
1 ATATTATATATTATATAAAATATTAAAATTTATAATTC
**
18190167 ATATTTATATCAAAATATAAAATATT
1 ATA-TTATAT-ATTATATAAAATATT
18190193 TTTTTATTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 6 0.12
38 22 0.42
39 21 0.40
40 3 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (38 bp):
ATATTATATATTATATAAAATATTAAAATTTATAATTC
Found at i:18196876 original size:14 final size:14
Alignment explanation
Indices: 18196857--18196883 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18196847 ATCACGAATA
18196857 TGTCACAATTTAAG
1 TGTCACAATTTAAG
18196871 TGTCACAATTTAA
1 TGTCACAATTTAA
18196884 AGGTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (14 bp):
TGTCACAATTTAAG
Found at i:18197857 original size:14 final size:15
Alignment explanation
Indices: 18197838--18197875 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18197828 AAAATCGAAT
*
18197838 TTTTGTAAT-TTAAC
1 TTTTGTAATATTAAA
*
18197852 TTTTGTTATATTAAA
1 TTTTGTAATATTAAA
18197867 TTTTGTAAT
1 TTTTGTAAT
18197876 CCTATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (15 bp):
TTTTGTAATATTAAA
Found at i:18202735 original size:28 final size:28
Alignment explanation
Indices: 18202670--18202735 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
18202660 AAATTTTATT
*
18202670 TAAATTTTTATTATTTTATTATAATTAA
1 TAAATTTTTAATATTTTATTATAATTAA
*
18202698 TCAAAATTTTAAT-TTTTATT-TCAATTAAA
1 T-AAATTTTTAATATTTTATTAT-AATT-AA
18202727 TAAATTTTT
1 TAAATTTTT
18202736 TAGTTAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
27 1 0.03
28 19 0.59
29 12 0.38
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (28 bp):
TAAATTTTTAATATTTTATTATAATTAA
Found at i:18203894 original size:14 final size:14
Alignment explanation
Indices: 18203877--18203926 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
18203867 TAAAATTTTT
18203877 TATTTATATATATA
1 TATTTATATATATA
18203891 TATTTATATAATGATA
1 TATTTATAT-AT-ATA
* * *
18203907 TTTTTAAATATTTA
1 TATTTATATATATA
18203921 TATTTA
1 TATTTA
18203927 AAAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 16 0.53
15 4 0.13
16 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTTATATATATA
Found at i:18203925 original size:30 final size:30
Alignment explanation
Indices: 18203879--18203940 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
18203869 AAATTTTTTA
* * * *
18203879 TTTATATATATATATTTATATAATGATATT
1 TTTAAATATATATATTTAAAAAATAATATT
*
18203909 TTTAAATATTTATATTTAAAAAATAATATT
1 TTTAAATATATATATTTAAAAAATAATATT
18203939 TT
1 TT
18203941 ACATTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTAAATATATATATTTAAAAAATAATATT
Found at i:18203946 original size:21 final size:21
Alignment explanation
Indices: 18203913--18203962 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
18203903 GATATTTTTA
*
18203913 AATA-TTTATATTTAAAAAAT
1 AATATTTTACATTTAAAAAAT
18203933 AATATTTTACATTTAAAAAAT
1 AATATTTTACATTTAAAAAAT
18203954 AATATTTTA
1 AATATTTTA
18203963 TTAATTTCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTTTACATTTAAAAAAT
Found at i:18205775 original size:28 final size:29
Alignment explanation
Indices: 18205721--18205776 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
18205711 TTATTATTAT
* *
18205721 AATTATAATTTAAAAAATTTTAATAAAAA
1 AATTATAATTGAAAAAATCTTAATAAAAA
* *
18205750 AATTAT-ATTGAATAAATCTTACTAAAA
1 AATTATAATTGAAAAAATCTTAATAAAA
18205777 TTTCGATTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.38
Consensus pattern (29 bp):
AATTATAATTGAAAAAATCTTAATAAAAA
Found at i:18211608 original size:26 final size:27
Alignment explanation
Indices: 18211552--18211610 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
18211542 AAGATAATAA
*
18211552 TATTTAATTTAATCTTATTCATAATCT
1 TATTTTATTTAATCTTATTCATAATCT
*
18211579 TATTTTATTTTATCTTATT-ATAATCT
1 TATTTTATTTAATCTTATTCATAATCT
18211605 TATTTT
1 TATTTT
18211611 CTAAACAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (27 bp):
TATTTTATTTAATCTTATTCATAATCT
Found at i:18213641 original size:25 final size:24
Alignment explanation
Indices: 18213595--18213670 Score: 75
Period size: 25 Copynumber: 3.2 Consensus size: 24
18213585 TTCATCTATT
*
18213595 TATATTATATAA-AATAT-TAAAAA
1 TATA-TATATAATAATTTATAAAAA
*
18213618 TATATATATAATATTTTATAAAAAA
1 TATATATATAATAATTTAT-AAAAA
* * *
18213643 TTTATATATCATAATTTATATAAA
1 TATATATATAATAATTTATAAAAA
18213667 TATA
1 TATA
18213671 AAAATATAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
22 7 0.16
23 7 0.16
24 8 0.19
25 21 0.49
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
TATATATATAATAATTTATAAAAA
Found at i:18215951 original size:66 final size:68
Alignment explanation
Indices: 18215820--18215954 Score: 175
Period size: 69 Copynumber: 2.0 Consensus size: 68
18215810 GACTCGGAAA
* *
18215820 AGGTAGGATGAAGTGGCGAAGCAGGAGGAGTCATCCCTGTAGGAGACGGGGGCTTGTAGGAGTTG
1 AGGTAGGATGAACTGGCGAAGCAGGAGGAGTCATCCCTG-AGGAGACGGGGGCTTGTAGAAGTTG
18215885 GTCC
65 GTCC
* * * ** *
18215889 AGGTATGATGAACTGGGGAAGCAGGAGGAGTCATTCC-G-GTTGACGGGGGTTTGTAGAAGTTGG
1 AGGTAGGATGAACTGGCGAAGCAGGAGGAGTCATCCCTGAGGAGACGGGGGCTTGTAGAAGTTGG
18215952 TCC
66 TCC
18215955 TCATTATACA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
66 24 0.41
68 1 0.02
69 33 0.57
ACGTcount: A:0.23, C:0.13, G:0.42, T:0.21
Consensus pattern (68 bp):
AGGTAGGATGAACTGGCGAAGCAGGAGGAGTCATCCCTGAGGAGACGGGGGCTTGTAGAAGTTGG
TCC
Found at i:18216549 original size:12 final size:11
Alignment explanation
Indices: 18216511--18216552 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 11
18216501 TACATTATTA
18216511 ATTAATAAATT
1 ATTAATAAATT
18216522 -TT-ATAAATT
1 ATTAATAAATT
*
18216531 ATCAATAAATTT
1 ATTAATAAA-TT
18216543 ATTAATAAAT
1 ATTAATAAAT
18216553 CAAATGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 7 0.27
10 3 0.12
11 6 0.23
12 10 0.38
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTAATAAATT
Found at i:18216569 original size:26 final size:26
Alignment explanation
Indices: 18216538--18216613 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 26
18216528 ATTATCAATA
*
18216538 AATTTATTAATAAATCAAATGATAAT
1 AATTTATTAATAAATCAAATAATAAT
18216564 AATTTATTAATAAAGTAAATCAAATAATAAT
1 AATTTA-T--T-AA-TAAATCAAATAATAAT
*
18216595 ATTTTATTAATAAAT-AAAT
1 AATTTATTAATAAATCAAAT
18216614 TTTTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
25 4 0.09
26 11 0.26
27 3 0.07
28 1 0.02
29 1 0.02
30 3 0.07
31 20 0.47
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (26 bp):
AATTTATTAATAAATCAAATAATAAT
Found at i:18216584 original size:31 final size:30
Alignment explanation
Indices: 18216546--18216613 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
18216536 TAAATTTATT
*
18216546 AATAAATCAAATGATAATAATTTATTAATA
1 AATAAATCAAATAATAATAATTTATTAATA
*
18216576 AAGTAAATCAAATAATAATATTTTATTAATA
1 AA-TAAATCAAATAATAATAATTTATTAATA
18216607 AATAAAT
1 AATAAAT
18216614 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.20
31 28 0.80
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (30 bp):
AATAAATCAAATAATAATAATTTATTAATA
Done.