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 89 of 106
Found at i:18219221 original size:18 final size:18
Alignment explanation
Indices: 18219200--18219250 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
18219190 AAATATTATT
*
18219200 TTAAATATAAATATAAAA
1 TTAAATATAAATAAAAAA
*
18219218 TTAAATATATATAAAAAA
1 TTAAATATAAATAAAAAA
18219236 TATAAA-ATTAAATAA
1 T-TAAATA-TAAATAA
18219251 TTAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TTAAATATAAATAAAAAA
Found at i:18219265 original size:25 final size:25
Alignment explanation
Indices: 18219212--18219265 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
18219202 AAATATAAAT
*
18219212 ATAAAATTAAATATATATAAAAAAT
1 ATAAAATTAAATATATATAAAAAAA
18219237 ATAAAATTAAATA-AT-TAATTAAAAA
1 ATAAAATTAAATATATATAA--AAAAA
18219262 ATAA
1 ATAA
18219266 TTTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 2 0.08
25 21 0.81
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAAAATTAAATATATATAAAAAAA
Found at i:18223167 original size:9 final size:10
Alignment explanation
Indices: 18223142--18223171 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18223132 ATATTTTATT
18223142 TTATTTTTAA
1 TTATTTTTAA
18223152 TTATTTTTAA
1 TTATTTTTAA
18223162 TT-TTTTTAA
1 TTATTTTTAA
18223171 T
1 T
18223172 ATATCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:18225092 original size:2 final size:2
Alignment explanation
Indices: 18225082--18225116 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18225072 TTTTTATCCG
*
18225082 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
18225117 CATCCGCACC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:18228035 original size:19 final size:22
Alignment explanation
Indices: 18228013--18228056 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18228003 TTTCAATAAA
18228013 TTAATT-TAATT-TAA-AATTT
1 TTAATTATAATTATAATAATTT
18228032 TTAATTATAATTATAATAATTT
1 TTAATTATAATTATAATAATTT
18228054 TTA
1 TTA
18228057 TTTTTTAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 5 0.23
21 3 0.14
22 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTATAATTATAATAATTT
Found at i:18228051 original size:29 final size:29
Alignment explanation
Indices: 18228019--18228082 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
18228009 TAAATTAATT
*
18228019 TAATTTAAAATTTTTAATTATAATTATAA
1 TAATTTAAAATTTTTAATCATAATTATAA
** *
18228048 TAATTTTTATTTTTTAATCATAATTATAA
1 TAATTTAAAATTTTTAATCATAATTATAA
18228077 TAATTT
1 TAATTT
18228083 TTATTATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATTTAAAATTTTTAATCATAATTATAA
Found at i:18228065 original size:23 final size:22
Alignment explanation
Indices: 18228013--18228071 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
18228003 TTTCAATAAA
18228013 TTAA-TTTAATT-TAA-AATTT
1 TTAATTTTAATTATAATAATTT
*
18228032 TTAATTATAATTATAATAATTT
1 TTAATTTTAATTATAATAATTT
* *
18228054 TTATTTTTTAATCATAAT
1 TTA-ATTTTAATTATAAT
18228072 TATAATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 6 0.19
21 3 0.09
22 8 0.25
23 11 0.34
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTAATTTTAATTATAATAATTT
Found at i:18228083 original size:29 final size:29
Alignment explanation
Indices: 18228029--18228087 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18228019 TAATTTAAAA
*
18228029 TTTTTAATTATAATTATAATAATTTTTAT
1 TTTTTAATCATAATTATAATAATTTTTAT
18228058 TTTTTAATCATAATTATAATAATTTTTAT
1 TTTTTAATCATAATTATAATAATTTTTAT
18228087 T
1 T
18228088 ATTATTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTTAATCATAATTATAATAATTTTTAT
Found at i:18234534 original size:24 final size:23
Alignment explanation
Indices: 18234506--18234550 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
18234496 AACACCAACG
*
18234506 CAAGCATCCCTAATCAAAGCTCCC
1 CAAGCAT-CCAAATCAAAGCTCCC
*
18234530 CAAGCCTCCAAATCAAAGCTC
1 CAAGCATCCAAATCAAAGCTC
18234551 ATTTTTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.36, C:0.40, G:0.09, T:0.16
Consensus pattern (23 bp):
CAAGCATCCAAATCAAAGCTCCC
Found at i:18252294 original size:16 final size:17
Alignment explanation
Indices: 18252273--18252305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18252263 CCTAATCAAA
18252273 TTTTTA-TATTTAAATT
1 TTTTTATTATTTAAATT
*
18252289 TTTTTATTATTTTAATT
1 TTTTTATTATTTAAATT
18252306 AATAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATTATTTAAATT
Found at i:18259642 original size:9 final size:9
Alignment explanation
Indices: 18259628--18259657 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
18259618 GATATTTTAG
18259628 TAATTAAAA
1 TAATTAAAA
18259637 TAATTAAAA
1 TAATTAAAA
18259646 TATATTAAAA
1 TA-ATTAAAA
18259656 TA
1 TA
18259658 TAAAAGCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:18259654 original size:10 final size:10
Alignment explanation
Indices: 18259630--18259659 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18259620 TATTTTAGTA
18259630 ATTAAAATA-
1 ATTAAAATAT
18259639 ATTAAAATAT
1 ATTAAAATAT
18259649 ATTAAAATAT
1 ATTAAAATAT
18259659 A
1 A
18259660 AAAGCTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:18260769 original size:4 final size:4
Alignment explanation
Indices: 18260760--18260790 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
18260750 TTTAGTTCAT
18260760 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
18260791 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:18260928 original size:2 final size:2
Alignment explanation
Indices: 18260921--18260949 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18260911 ATTTTACATG
18260921 TA 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 TA T
18260950 GAAAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18261532 original size:2 final size:2
Alignment explanation
Indices: 18261525--18261556 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18261515 AACTTTCTTA
18261525 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
18261557 TAAATCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18270475 original size:24 final size:24
Alignment explanation
Indices: 18270429--18270475 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18270419 AACAGTGTAT
*
18270429 AACATTTATATATTGAAATTATAC
1 AACATTTATATATTGAAAATATAC
18270453 AACATTTATATATT-AACAATATA
1 AACATTTATATATTGAA-AATATA
18270476 TTAAATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (24 bp):
AACATTTATATATTGAAAATATAC
Found at i:18271147 original size:60 final size:61
Alignment explanation
Indices: 18271050--18271177 Score: 197
Period size: 60 Copynumber: 2.1 Consensus size: 61
18271040 GAAGGTCCAC
* *
18271050 ATAAGTATAATGCATGAGAGTGAATTAGAGAAGATTAAAAAAGTCTACATAGGTATGATGA
1 ATAAGTATAATGCATGAGAGTGAATTAGAGAAAATTAAAAAAGTCCACATAGGTATGATGA
* *
18271111 A-AAGTATAATGCATGAGAGT-AGATTAGAGAAAATTAAAAAGGTCCATATAGGTATGATGA
1 ATAAGTATAATGCATGAGAGTGA-ATTAGAGAAAATTAAAAAAGTCCACATAGGTATGATGA
18271171 ATAAGTA
1 ATAAGTA
18271178 CATATGAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
59 1 0.02
60 54 0.89
61 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.26
Consensus pattern (61 bp):
ATAAGTATAATGCATGAGAGTGAATTAGAGAAAATTAAAAAAGTCCACATAGGTATGATGA
Found at i:18274043 original size:34 final size:33
Alignment explanation
Indices: 18273984--18274047 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
18273974 TGATGCATGA
* *
18273984 GTGTATATGAGTATGTGTTTATTTGTATTGAAAG
1 GTGTATATGAGGATGCGTTTATTTGT-TTGAAAG
* *
18274018 GTGTATATGGGGATGCGTTTGTTTGTTTGA
1 GTGTATATGAGGATGCGTTTATTTGTTTGA
18274048 GTTGAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 4 0.15
34 22 0.85
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (33 bp):
GTGTATATGAGGATGCGTTTATTTGTTTGAAAG
Found at i:18274356 original size:47 final size:47
Alignment explanation
Indices: 18274287--18274380 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
18274277 TCACACATCC
18274287 TTGCCTAGCTTGGTTTAGTGTGGAAATAACTATATATTGTTCTCGAT
1 TTGCCTAGCTTGGTTTAGTGTGGAAATAACTATATATTGTTCTCGAT
18274334 TTGCCTAGCTTGGTTTAGTGTGGAAATAACTATATATTGTTCTCGAT
1 TTGCCTAGCTTGGTTTAGTGTGGAAATAACTATATATTGTTCTCGAT
18274381 AGTTGAAGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.23, C:0.13, G:0.21, T:0.43
Consensus pattern (47 bp):
TTGCCTAGCTTGGTTTAGTGTGGAAATAACTATATATTGTTCTCGAT
Found at i:18274584 original size:2 final size:2
Alignment explanation
Indices: 18274577--18274631 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
18274567 AGCAGGATAT
18274577 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
18274619 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
18274632 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:18279468 original size:14 final size:15
Alignment explanation
Indices: 18279451--18279482 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18279441 ATCATAAATA
18279451 TATATTC-ATTTATT
1 TATATTCAATTTATT
18279465 TATATTCAATTTATT
1 TATATTCAATTTATT
18279480 TAT
1 TAT
18279483 TACCTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTCAATTTATT
Found at i:18280083 original size:4 final size:4
Alignment explanation
Indices: 18280074--18280099 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
18280064 GGATATAACA
18280074 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
18280100 TTGGGTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:18284924 original size:26 final size:26
Alignment explanation
Indices: 18284872--18284924 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
18284862 TATATTTTAT
*
18284872 ATTTTTAATATAAATTATTATATATA
1 ATTTTTAATATAAATTAATATATATA
18284898 ATTTTT-ATATGAAATATAATATA-ATA
1 ATTTTTAATAT-AAAT-TAATATATATA
18284924 A
1 A
18284925 AATATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 4 0.17
26 14 0.58
27 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTTTTAATATAAATTAATATATATA
Found at i:18285425 original size:23 final size:23
Alignment explanation
Indices: 18285386--18285430 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
18285376 AAATTTTTAT
* *
18285386 ATTTAATACATTATTTTCAATAA
1 ATTTAATAAATTATTTTAAATAA
18285409 ATTTAATAAAATT-TTTTAAATA
1 ATTTAAT-AAATTATTTTAAATA
18285431 TCACCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTAATAAATTATTTTAAATAA
Found at i:18290200 original size:23 final size:24
Alignment explanation
Indices: 18290157--18290201 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
18290147 TAAACTTATT
*
18290157 TATTTGATTTTTTAATATATTACA
1 TATTTGATTTTTAAATATATTACA
18290181 TATTT-ATTTTATAAAT-TATTA
1 TATTTGATTTT-TAAATATATTA
18290202 ACAATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (24 bp):
TATTTGATTTTTAAATATATTACA
Found at i:18291102 original size:13 final size:13
Alignment explanation
Indices: 18291084--18291113 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
18291074 CAGAATTAAT
18291084 TTAATTTGTTCGA
1 TTAATTTGTTCGA
*
18291097 TTAATTTTTTCGA
1 TTAATTTGTTCGA
18291110 TTAA
1 TTAA
18291114 GCGAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (13 bp):
TTAATTTGTTCGA
Found at i:18292302 original size:20 final size:20
Alignment explanation
Indices: 18292264--18292303 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
18292254 TTTTTTAATA
* *
18292264 TAAATATATAAATATAAAAT
1 TAAATAAATAAATAAAAAAT
*
18292284 TAAATAAATAATTAAAAAAT
1 TAAATAAATAAATAAAAAAT
18292304 AATATTTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAATAAATAAAAAAT
Found at i:18292862 original size:15 final size:16
Alignment explanation
Indices: 18292826--18292866 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
18292816 ATATATTAAA
18292826 TTTTT-AATATCAAAT
1 TTTTTAAATATCAAAT
* *
18292841 TTATTAAATAT-AATT
1 TTTTTAAATATCAAAT
18292856 TTTTTAAATAT
1 TTTTTAAATAT
18292867 TACACAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTAAATATCAAAT
Found at i:18293555 original size:19 final size:20
Alignment explanation
Indices: 18293531--18293568 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18293521 CTCTTTGTCA
18293531 TATGG-TTTATGATAAATGT
1 TATGGTTTTATGATAAATGT
*
18293550 TATGGTTTTATGATTAATG
1 TATGGTTTTATGATAAATG
18293569 GGTTTTGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TATGGTTTTATGATAAATGT
Found at i:18300695 original size:26 final size:24
Alignment explanation
Indices: 18300615--18300727 Score: 93
Period size: 26 Copynumber: 4.5 Consensus size: 24
18300605 AAATTTGATG
* * *
18300615 TATTATTAATATACAAATTTTATA
1 TATTATTAATAAATAAATTTTTTA
* * *
18300639 TATTATTAATGAATCATATGATTTTA
1 TATTATTAATAAAT-AAAT-TTTTTA
*
18300665 TTTTATTAATAAATAAATTTTTATA
1 TATTATTAATAAATAAATTTTT-TA
*
18300690 TATTTATTAATAAAATAATATTATTTA
1 TA-TTATTAAT-AAATAA-ATTTTTTA
18300717 -ATTATTAATAA
1 TATTATTAATAA
18300728 TATATAAAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
24 16 0.23
25 17 0.24
26 25 0.35
27 8 0.11
28 5 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATTATTAATAAATAAATTTTTTA
Found at i:18300722 original size:51 final size:50
Alignment explanation
Indices: 18300615--18300727 Score: 131
Period size: 51 Copynumber: 2.2 Consensus size: 50
18300605 AAATTTGATG
* * *
18300615 TATTATTAATATACAAATTTTATATATTATTAATGAATCATATGATTTTA
1 TATTATTAATAAACAAATTTTATATATTATTAATAAATAATATGATTTTA
* * *
18300665 TTTTATTAATAAATAAATTTTTATATATTTATTAATAAAATAATATTA-TTTA
1 TATTATTAATAAACAAA-TTTTATATA-TTATTAAT-AAATAATATGATTTTA
18300717 -ATTATTAATAA
1 TATTATTAATAA
18300728 TATATAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 14 0.26
51 19 0.36
52 12 0.23
53 8 0.15
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (50 bp):
TATTATTAATAAACAAATTTTATATATTATTAATAAATAATATGATTTTA
Found at i:18300732 original size:22 final size:20
Alignment explanation
Indices: 18300686--18300732 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 20
18300676 AATAAATTTT
18300686 TATA-TATTTATTAATAAAA
1 TATATTATTTATTAATAAAA
*
18300705 TAATATTATTTAATTATTAATAA
1 T-ATATTATTT-ATTAATAA-AA
18300728 TATAT
1 TATAT
18300733 AAAATTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 3 0.13
21 5 0.22
22 11 0.48
23 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATTATTTATTAATAAAA
Found at i:18300743 original size:51 final size:51
Alignment explanation
Indices: 18300615--18300744 Score: 154
Period size: 53 Copynumber: 2.5 Consensus size: 51
18300605 AAATTTGATG
* * * *
18300615 TATTATTAATATACAAATTTTATATATTATTAATGAATCATATGATTTTAT
1 TATTATTAATATATAAATTTTATATATTATTAATAAATAATATGATTTAAT
* *
18300666 T-TTATTAATAAATAAATTTTTATATATTTATTAATAAAATAATATTATTTAAT
1 TATTATTAATATATAAA-TTTTATATA-TTATTAAT-AAATAATATGATTTAAT
* *
18300719 TATTAATAATATATAAAATTTATATA
1 TATTATTAATATATAAATTTTATATA
18300745 CTAATAATTC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
50 13 0.20
51 10 0.15
52 8 0.12
53 22 0.33
54 13 0.20
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (51 bp):
TATTATTAATATATAAATTTTATATATTATTAATAAATAATATGATTTAAT
Found at i:18302202 original size:11 final size:10
Alignment explanation
Indices: 18302176--18302201 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18302166 TTCTGGCTGT
18302176 AAAAAATAAA
1 AAAAAATAAA
18302186 AAAAAATAAA
1 AAAAAATAAA
18302196 AAAAAA
1 AAAAAA
18302202 ACAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:18310257 original size:38 final size:38
Alignment explanation
Indices: 18310185--18310260 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 38
18310175 AAAAATATTC
* *
18310185 AAATTCGATTCGATCAATAAAAATAATTACTTAAATTT
1 AAATTCGACTCGATCAATAAAAATAATAACTTAAATTT
*
18310223 AAATTCGACTCGAT-AATAATAAA-ATATAATTTAAATTT
1 AAATTCGACTCGATCAATAA-AAATA-ATAACTTAAATTT
18310261 TATATAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 6 0.18
38 27 0.82
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (38 bp):
AAATTCGACTCGATCAATAAAAATAATAACTTAAATTT
Found at i:18310267 original size:16 final size:16
Alignment explanation
Indices: 18310246--18310286 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
18310236 TAATAATAAA
*
18310246 ATATAATTTAAATTTT
1 ATATAATTTAAACTTT
*
18310262 ATATAAATTAAACTTT
1 ATATAATTTAAACTTT
18310278 A-ATAATTTA
1 ATATAATTTA
18310287 TTAATACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAATTTAAACTTT
Found at i:18310669 original size:48 final size:50
Alignment explanation
Indices: 18310601--18310712 Score: 165
Period size: 48 Copynumber: 2.3 Consensus size: 50
18310591 ATAAAATACT
* * *
18310601 TATAATTGACATATTCGCATAGTATTTTATATATAAA-T-TATATTTAAA
1 TATAATTGATATATTCGCATAATATTTTATATAAAAATTATATATTTAAA
18310649 TATAATTGATATATTCGCATAATATTTTATATAAAAATTATATATTTAAA
1 TATAATTGATATATTCGCATAATATTTTATATAAAAATTATATATTTAAA
*
18310699 TTTATATTGATATA
1 TATA-ATTGATATA
18310713 AAATATCTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
48 34 0.60
49 1 0.02
50 13 0.23
51 9 0.16
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (50 bp):
TATAATTGATATATTCGCATAATATTTTATATAAAAATTATATATTTAAA
Found at i:18315882 original size:160 final size:160
Alignment explanation
Indices: 18315640--18315973 Score: 668
Period size: 160 Copynumber: 2.1 Consensus size: 160
18315630 ATGTAGTTAG
18315640 GGTTTTTTTTTTTTTTTAATTTTATGCATTTTAGGTATGTATTTGAAGATGGATCTACTCGATCC
1 GGTTTTTTTTTTTTTTTAATTTTATGCATTTTAGGTATGTATTTGAAGATGGATCTACTCGATCC
18315705 TAATGTGACTATGTTAGAATTGAATGCAATTAAATATAATTTCGCATAATTTCTGGGCATATGTT
66 TAATGTGACTATGTTAGAATTGAATGCAATTAAATATAATTTCGCATAATTTCTGGGCATATGTT
18315770 TCTTTAAAATTTATTTAATTCTGGAATAAT
131 TCTTTAAAATTTATTTAATTCTGGAATAAT
18315800 GGTTTTTTTTTTTTTTTAATTTTATGCATTTTAGGTATGTATTTGAAGATGGATCTACTCGATCC
1 GGTTTTTTTTTTTTTTTAATTTTATGCATTTTAGGTATGTATTTGAAGATGGATCTACTCGATCC
18315865 TAATGTGACTATGTTAGAATTGAATGCAATTAAATATAATTTCGCATAATTTCTGGGCATATGTT
66 TAATGTGACTATGTTAGAATTGAATGCAATTAAATATAATTTCGCATAATTTCTGGGCATATGTT
18315930 TCTTTAAAATTTATTTAATTCTGGAATAAT
131 TCTTTAAAATTTATTTAATTCTGGAATAAT
18315960 GGTTTTTTTTTTTT
1 GGTTTTTTTTTTTT
18315974 CATTTTCACG
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 174 1.00
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (160 bp):
GGTTTTTTTTTTTTTTTAATTTTATGCATTTTAGGTATGTATTTGAAGATGGATCTACTCGATCC
TAATGTGACTATGTTAGAATTGAATGCAATTAAATATAATTTCGCATAATTTCTGGGCATATGTT
TCTTTAAAATTTATTTAATTCTGGAATAAT
Found at i:18318456 original size:16 final size:15
Alignment explanation
Indices: 18318433--18318472 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
18318423 ATGATTACAA
18318433 AATATTAAA-TTAGTT
1 AATATTAAATTTA-TT
18318448 AATTATTAAATTTATT
1 AA-TATTAAATTTATT
18318464 AATATTAAA
1 AATATTAAA
18318473 AAATTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 11 0.48
17 3 0.13
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
AATATTAAATTTATT
Found at i:18330767 original size:23 final size:24
Alignment explanation
Indices: 18330726--18330779 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
18330716 TTTTCATTAA
*
18330726 ATTTTTTTTAATTACAATTACAAT
1 ATTTTTTTTAATCACAATTACAAT
*
18330750 ATTTTTTTTAATCA-AATTATAAT
1 ATTTTTTTTAATCACAATTACAAT
*
18330773 AATTTTT
1 ATTTTTT
18330780 ATTACTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTTTTTTTAATCACAATTACAAT
Found at i:18331784 original size:16 final size:16
Alignment explanation
Indices: 18331765--18331799 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18331755 ACCAAATTTT
*
18331765 AAATAATTTAAATTCA
1 AAATAATCTAAATTCA
*
18331781 AAATTATCTAAATTCA
1 AAATAATCTAAATTCA
18331797 AAA
1 AAA
18331800 ATTAACTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATAATCTAAATTCA
Found at i:18332384 original size:19 final size:18
Alignment explanation
Indices: 18332327--18332400 Score: 66
Period size: 18 Copynumber: 4.2 Consensus size: 18
18332317 ATTAAATTTA
18332327 TTAATATTAAAATAAT-T
1 TTAATATTAAAATAATAT
* *
18332344 AT-ATTTTAATAATAATAT
1 TTAATATTAA-AATAATAT
*
18332362 TTAATATTAAAATATTAT
1 TTAATATTAAAATAATAT
*
18332380 GTTAATA-TAAAA-AATAC
1 -TTAATATTAAAATAATAT
18332397 TTAA
1 TTAA
18332401 ACTAAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.22
17 10 0.22
18 14 0.30
19 12 0.26
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TTAATATTAAAATAATAT
Found at i:18332441 original size:15 final size:15
Alignment explanation
Indices: 18332423--18332461 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
18332413 TATTATTCTT
18332423 TATATTATTTATTAA
1 TATATTATTTATTAA
*
18332438 TATATTATGTATTAA
1 TATATTATTTATTAA
18332453 TATATTATT
1 TATATTATT
18332462 ATGATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:18332539 original size:18 final size:17
Alignment explanation
Indices: 18332423--18332543 Score: 63
Period size: 18 Copynumber: 6.7 Consensus size: 17
18332413 TATTATTCTT
18332423 TATATTATTTATT-A-A
1 TATATTATTTATTAATA
*
18332438 TATATTATGTATTAATA
1 TATATTATTTATTAATA
*
18332455 TATTATTATGATATT--TA
1 TA-TATTAT-TTATTAATA
* *
18332472 T-TAGTTAAATTAATAATA
1 TATA-TT-ATTTATTAATA
18332490 TATATTATTTTATTAATATA
1 TATATTA-TTTATT-A-ATA
18332510 TTATAAGTTTATTTATTAATA
1 -TAT-A--TTATTTATTAATA
18332531 TAGTATTATTTAT
1 TA-TATTATTTAT
18332544 AAGTAAATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
15 14 0.17
16 6 0.07
17 8 0.10
18 23 0.28
19 7 0.09
20 6 0.07
21 7 0.09
22 2 0.02
23 6 0.07
24 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:18332762 original size:16 final size:14
Alignment explanation
Indices: 18332729--18332755 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18332719 TTAAAAATAC
18332729 GAAAATTATTTTTT
1 GAAAATTATTTTTT
18332743 GAAAATTATTTTT
1 GAAAATTATTTTT
18332756 CTTGAAATAA
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:0.00, G:0.07, T:0.56
Consensus pattern (14 bp):
GAAAATTATTTTTT
Found at i:18333423 original size:38 final size:38
Alignment explanation
Indices: 18333374--18333446 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
18333364 TTTTATCTAT
18333374 TGCTAACATTTTAATTGATA-GAGTAATAATGGTTTATC
1 TGCTAACATTTTAATTGATAGGA-TAATAATGGTTTATC
18333412 TGCTAACATTTTAATTGATAGGATAATAATGGTTT
1 TGCTAACATTTTAATTGATAGGATAATAATGGTTT
18333447 GAATTAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
38 32 0.94
39 2 0.06
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.42
Consensus pattern (38 bp):
TGCTAACATTTTAATTGATAGGATAATAATGGTTTATC
Found at i:18333748 original size:13 final size:13
Alignment explanation
Indices: 18333729--18333762 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
18333719 AAATTGATAT
18333729 AATTTAATATTTA
1 AATTTAATATTTA
*
18333742 TATTTAATATTTA
1 AATTTAATATTTA
18333755 AATTTAAT
1 AATTTAAT
18333763 GCAAACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATATTTA
Found at i:18333751 original size:7 final size:7
Alignment explanation
Indices: 18333730--18333762 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
18333720 AATTGATATA
18333730 ATTTAAT
1 ATTTAAT
18333737 ATTT-AT
1 ATTTAAT
18333743 ATTTAAT
1 ATTTAAT
18333750 ATTTAA-
1 ATTTAAT
18333756 ATTTAAT
1 ATTTAAT
18333763 GCAAACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:18334253 original size:15 final size:15
Alignment explanation
Indices: 18334212--18334253 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
18334202 TGGCCCCAAA
*
18334212 AGCCGAGAAAAAGCC
1 AGCCGAGAAGAAGCC
18334227 AGCCGAGAAGAAGCC
1 AGCCGAGAAGAAGCC
*
18334242 AGCCGAGGAGAA
1 AGCCGAGAAGAA
18334254 AAAGACCACC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (15 bp):
AGCCGAGAAGAAGCC
Found at i:18339525 original size:12 final size:12
Alignment explanation
Indices: 18339503--18339536 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
18339493 TCGATTATTA
18339503 TCGAG-TCGAGC
1 TCGAGTTCGAGC
18339514 TCGAGTTCGAGC
1 TCGAGTTCGAGC
18339526 TCGAGTTCGAG
1 TCGAGTTCGAG
18339537 TAGTTTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.18, C:0.24, G:0.35, T:0.24
Consensus pattern (12 bp):
TCGAGTTCGAGC
Found at i:18339535 original size:18 final size:17
Alignment explanation
Indices: 18339503--18339537 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18339493 TCGATTATTA
18339503 TCGAGTCGAGCTCGAGT
1 TCGAGTCGAGCTCGAGT
*
18339520 TCGAGCTCGAGTTCGAGT
1 TCGAG-TCGAGCTCGAGT
18339538 AGTTTGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (17 bp):
TCGAGTCGAGCTCGAGT
Found at i:18340195 original size:22 final size:20
Alignment explanation
Indices: 18340167--18340211 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
18340157 TTTGATATAA
18340167 AAATATAAAATATAATTTTATT
1 AAATAT-AAATATAATTTT-TT
**
18340189 AAATATATTTATAATTTTTT
1 AAATATAAATATAATTTTTT
18340209 AAA
1 AAA
18340212 AATTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 10 0.48
22 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATAAATATAATTTTTT
Found at i:18340203 original size:21 final size:20
Alignment explanation
Indices: 18340177--18340228 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
18340167 AAATATAAAA
*
18340177 TATAATTTTATTAAATATATT
1 TATAATTTTATTAAAAAT-TT
18340198 TATAATTTT-TTAAAAATTT
1 TATAATTTTATTAAAAATTT
*
18340217 TA-AATTATATTA
1 TATAATTTTATTA
18340229 TTTTTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 7 0.25
20 7 0.25
21 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATAATTTTATTAAAAATTT
Found at i:18355539 original size:26 final size:26
Alignment explanation
Indices: 18355505--18355565 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
18355495 TTTAGAATAA
* *
18355505 ATAATAATTATCCAATGATGAAATATTT
1 ATAA-AATTATCAAATAAT-AAATATTT
* *
18355533 -TAAAATTTTCAAATAATAAATTTTT
1 ATAAAATTATCAAATAATAAATATTT
18355558 ATAAAATT
1 ATAAAATT
18355566 TTTATGTGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 7 0.25
26 18 0.64
27 3 0.11
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (26 bp):
ATAAAATTATCAAATAATAAATATTT
Found at i:18356633 original size:25 final size:25
Alignment explanation
Indices: 18356584--18356635 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
18356574 ATAATAATTA
*
18356584 TTCAATGATGAAATGTTTTAGAAAT
1 TTCAATGATGAAATGTTTTAAAAAT
18356609 TTCACATGAT-AAAT-TTTTATAAAAT
1 TTCA-ATGATGAAATGTTTTA-AAAAT
18356634 TT
1 TT
18356636 TTAGGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 5 0.21
25 14 0.58
26 5 0.21
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (25 bp):
TTCAATGATGAAATGTTTTAAAAAT
Found at i:18356755 original size:532 final size:531
Alignment explanation
Indices: 18354753--18356867 Score: 2580
Period size: 521 Copynumber: 4.0 Consensus size: 531
18354743 AAATATGAAA
* * * * *
18354753 AATTTCTAAATTTCGACGAATTTTTTTAGTTTTTGTCTCAAGCCGAGCCAAGTGAAGCCACTTTC
1 AATTT-TAGATTTCGACGACTTTTTTCAGTCTTTGTCTCAAGCCGAGCCAAGCGAAGCCACTTTC
* * * * * *
18354818 TAAGTCATTCTAGCTTTACCTCCTGCAATCGAGATATGTTGTAGCCATTAAAGCCGAGCCACCTC
65 TAAGCCATTCCAGCTTTACTTCCTGCAGTCGAGACACGTTGTAGCCATTAAAGCCGAGCCACCTC
** * **
18354883 CTGTTTTAAGTATTTTTTTCACTTTATTTATTTTTTTTTAGCATTTTTACATGATTAAATTTTAA
130 CTGTTTTGGGTTTTTTTTTCACTTTATTTA--TTTTTTTAATATTTTTACATGATTAAATTTTAA
*
18354948 AAAAATAAAAATAAAAAGTAAAAAATAAATAAAATAT-TTTTTTGAGAATAAATAATAATTATCC
193 AAAAATAAAAATAAAAAGTAAAAAATAAATAAAATATATTTTTT-AGAATAAATAATAATTATCA
* *
18355012 A--AT--AA-----TAAAA--TCAAATGATAAATTTTTATAAAATTTTTAGGTGAGAAATTTTGT
257 ATGATGAAATGTTTTAAAATTTCAAATAATAAATTTTTATAAAATTTTTAGGTGAAAAATTTTGT
* *
18355066 CTAAATTTGTCTCAAATTGTGAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTATT
322 CTAAATTTGTCTCAAATGGTAAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTATT
* * * * *
18355131 TTTAAAATAAAC-AAAAAATAAAAAATTTTAGTTGAAGATATTTGACAATTATCTAAGGACGAAA
387 TTCAAAACAAACAAAAAAATAAAAAATTTTAGTTGAAAATATTTGACAATTATCCAAGGACGAGA
* * * * * *
18355195 TTCTTATAAATTTTAAATGGTAAATTCTTAATAAGTATCTAGGTG-GAAAATTTCTTTAAATTTA
452 TTCTTAAAAATTTCAAATGGTAAATTCTTAAAAAATCTCTAGGTGAG-AAATTTCTTTAAATTTG
*
18355259 TC-CTAAATGGTGAAAG
516 TCTC-AAATGGTGGAAG
* * * *
18355275 AATTCTTAGATTTCGACGATTTTTTTCAATCTTTGTCTCAAGCCGAGCCAAGTGAAACCACTTTC
1 AATT-TTAGATTTCGACGACTTTTTTCAGTCTTTGTCTCAAGCCGAGCCAAGCGAAGCCACTTTC
* * ** * ** *
18355340 TAAGCCATTCCAGCTTTACTTCATGTAG-CGGAGACACGTTGTAGTTATTAGAGTTGAG--A-CG
65 TAAGCCATTCCAGCTTTACTTCCTGCAGTC-GAGACACGTTGTAGCCATTAAAGCCGAGCCACCT
* ** * * *
18355401 CC-----T---CTCATTTTT---TTT-TTT-TTTTTTGAATATTTTTGCATGATTAAATTTTGAA
129 CCTGTTTTGGGTTTTTTTTTCACTTTATTTATTTTTTTAATATTTTTACATGATTAAATTTTAAA
*
18355453 AAAATAAAAATAAAAAGTAAAAAATAAATAAAATGTATAATTTTTAGAATAAATAATAATTATCC
194 AAAATAAAAATAAAAAGTAAAAAATAAATAAAA--TATATTTTTTAGAATAAATAATAATTAT-C
* * *
18355518 AATGATGAAATATTTTAAAATTTTCAAATAATAAATTTTTATAAAATTTTTATGTGAGAAATTTT
256 AATGATGAAATGTTTTAAAA-TTTCAAATAATAAATTTTTATAAAATTTTTAGGTGAAAAATTTT
* * *
18355583 ATCTAAATTTGTCTCAAATTGAAAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTA
320 GTCTAAATTTGTCTCAAATGGTAAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTA
* ** *
18355648 TTTTCAAAACAAACAAAAAAAATAAAAAATTTTAGTTAAAAATATTTGACTGTTATCCAAGGACA
385 TTTTCAAAACAAAC-AAAAAAATAAAAAATTTTAGTTGAAAATATTTGACAATTATCCAAGGACG
* * * * *
18355713 AGATTCATAGAAATTTCAAATGGTAAATTCTTAAGAAATCTTTAGGTGATAAATTTCTTTAAATT
449 AGATTCTTAAAAATTTCAAATGGTAAATTCTTAAAAAATCTCTAGGTGAGAAATTTCTTTAAATT
18355778 TGTCTCAAATGGTGGAAG
514 TGTCTCAAATGGTGGAAG
* ** * * * * *
18355796 AATTTTCAAATTTTAACGACTTTTTTTAGTCTTTCTCTCAAACTGAGCCAAACGAAGCCACTTTC
1 AATTTT-AGATTTCGACGACTTTTTTCAGTCTTTGTCTCAAGCCGAGCCAAGCGAAGCCACTTTC
* * * * * * *
18355861 TAACCCATTCCAACTTTTCTTCTTGCAGTTGAGACACGTTATAGCCATTAAAGCCGAGCTACCTC
65 TAAGCCATTCCAGCTTTACTTCCTGCAGTCGAGACACGTTGTAGCCATTAAAGCCGAGCCACCTC
* * * *
18355926 TTGTTTTTGGTATTTTTTTTTCACTTTATTTATTTTTTTAAGTATTTTTACATAATTAAATTTTT
130 CTG-TTTTGG-GTTTTTTTTTCACTTTATTTATTTTTTTAA-TATTTTTACATGATTAAATTTTA
18355991 AAAAAATAAAAATAAAAAGTAAAAAATAAATAAAATATATATTTTTAGAATAAATAATAATTATC
192 AAAAAATAAAAATAAAAAGTAAAAAATAAATAAAATATAT-TTTTTAGAATAAATAATAATTATC
* * * *
18356056 AAATGATGAAATGTTTTAAAAAATTCAAATAATAAATTTCTATAAATTTTTTAGATGAAAAA--T
256 -AATGATGAAATGTTTT-AAAATTTCAAATAATAAATTTTTATAAAATTTTTAGGTGAAAAATTT
*
18356119 TGTCTAAATTTGTCAT-AAATGGTGAAAA-AATTTAGATAAAATTTTAATAACAATAATTAATAT
319 TGTCTAAATTTGTC-TCAAATGGT-AAAATAATTTAAATAAAATTTTAATAACAATAATTAATAT
* * * * *
18356182 TTATTTTCAAAATAAA-TAAAAAATAAAAAATTTAAGTTGAAAATATTTTACAATTATCCAATGA
382 TTATTTTCAAAACAAACAAAAAAATAAAAAATTTTAGTTGAAAATATTTGACAATTATCCAAGGA
* * * * *
18356246 CGAGATTCTTAAAAATTTCAAATAGTAAATTTTTAAAAAATCTCTAAGTGAGAATTTTCTTGAAA
447 CGAGATTCTTAAAAATTTCAAATGGTAAATTCTTAAAAAATCTCTAGGTGAGAAATTTCTTTAAA
* * *
18356311 TTTGTTTTAAATGGTGGAAT
512 TTTGTCTCAAATGGTGGAAG
* * * * *
18356331 AATTTTAGATTCCGACTACTTTTTTCAGTTTTTGTCTTAAGCTGAGCCAAGCGAAGCCACTTTCT
1 AATTTTAGATTTCGACGACTTTTTTCAGTCTTTGTCTCAAGCCGAGCCAAGCGAAGCCACTTTCT
* * * * *
18356396 AAGTCATTCCAGCTTTACTTCCTGTAGTCGAGACACGTTGTAGCCATTAGAGTCGAGCCGCCTCC
66 AAGCCATTCCAGCTTTACTTCCTGCAGTCGAGACACGTTGTAGCCATTAAAGCCGAGCCACCTCC
* *
18356461 TGTTTTGGGTTTTTTTTTCACTTTATTCATTTTTTTAATATTTTTTCATGATTAAATTTTAAAAA
131 TGTTTTGGGTTTTTTTTTCACTTTATTTATTTTTTTAATATTTTTACATGATTAAATTTTAAAAA
18356526 AATAAAAATAAAAAGTAAAAAATAAATAAAATAT-TTTTTTGAGAATAAATAATAATTATTCAAT
196 AATAAAAATAAAAAGTAAAAAATAAATAAAATATATTTTTT-AGAATAAATAATAATTA-TCAAT
* *
18356590 GATGAAATGTTTTAGAAATTTCACATGATAAATTTTTATAAAATTTTTAGGTGAAAAATTTTGTC
259 GATGAAATGTTTTA-AAATTTCAAATAATAAATTTTTATAAAATTTTTAGGTGAAAAATTTTGTC
* *
18356655 TAAATTTGTCTCAAATGGTAAAATAATTTAGATAAAATTTTAATAATAATAA-TAATATTTATTT
323 TAAATTTGTCTCAAATGGTAAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTATTT
* *
18356719 TCAAAACAAACAAAAAAATAAAAAATTTTGGTTGAAAATATTTAACAATTATCCAAGGACGAGAT
388 TCAAAACAAACAAAAAAATAAAAAATTTTAGTTGAAAATATTTGACAATTATCCAAGGACGAGAT
* * * *
18356784 TCTTAAAAATTTTAAATGATAAATTATTAAAAAATCTCTAGGTGAGAAATTTCTTTAAATTTGTT
453 TCTTAAAAATTTCAAATGGTAAATTCTTAAAAAATCTCTAGGTGAGAAATTTCTTTAAATTTGTC
* *
18356849 TCAAATGATAGAAG
518 TCAAATGGTGGAAG
18356863 AATTT
1 AATTT
18356868 AAATGAAATT
Statistics
Matches: 1362, Mismatches: 175, Indels: 102
0.83 0.11 0.06
Matches are distributed among these distances:
504 62 0.05
506 21 0.02
507 10 0.01
508 3 0.00
509 2 0.00
511 7 0.01
514 1 0.00
516 5 0.00
519 117 0.09
520 3 0.00
521 208 0.15
522 101 0.07
523 2 0.00
524 2 0.00
529 6 0.00
530 72 0.05
531 86 0.06
532 199 0.15
533 6 0.00
534 108 0.08
535 118 0.09
537 71 0.05
538 13 0.01
539 80 0.06
540 59 0.04
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.39
Consensus pattern (531 bp):
AATTTTAGATTTCGACGACTTTTTTCAGTCTTTGTCTCAAGCCGAGCCAAGCGAAGCCACTTTCT
AAGCCATTCCAGCTTTACTTCCTGCAGTCGAGACACGTTGTAGCCATTAAAGCCGAGCCACCTCC
TGTTTTGGGTTTTTTTTTCACTTTATTTATTTTTTTAATATTTTTACATGATTAAATTTTAAAAA
AATAAAAATAAAAAGTAAAAAATAAATAAAATATATTTTTTAGAATAAATAATAATTATCAATGA
TGAAATGTTTTAAAATTTCAAATAATAAATTTTTATAAAATTTTTAGGTGAAAAATTTTGTCTAA
ATTTGTCTCAAATGGTAAAATAATTTAAATAAAATTTTAATAACAATAATTAATATTTATTTTCA
AAACAAACAAAAAAATAAAAAATTTTAGTTGAAAATATTTGACAATTATCCAAGGACGAGATTCT
TAAAAATTTCAAATGGTAAATTCTTAAAAAATCTCTAGGTGAGAAATTTCTTTAAATTTGTCTCA
AATGGTGGAAG
Found at i:18362060 original size:27 final size:28
Alignment explanation
Indices: 18362019--18362076 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
18362009 TTTTTATTTT
*
18362019 TTATATCTGTATTTAATATT-ATATAAAA
1 TTATATCTATATTTAAT-TTAATATAAAA
*
18362047 TTATAT-TATATTTAATTTAATTTAAAA
1 TTATATCTATATTTAATTTAATATAAAA
18362074 TTA
1 TTA
18362077 ATAAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 19 0.70
28 6 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (28 bp):
TTATATCTATATTTAATTTAATATAAAA
Found at i:18362127 original size:4 final size:4
Alignment explanation
Indices: 18362120--18362146 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
18362110 TAAATAAATA
18362120 TAAT TAAT TAAT TAAT TAAT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA
18362147 AAAATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:18373425 original size:15 final size:15
Alignment explanation
Indices: 18373405--18373439 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18373395 TTCAAATCGT
*
18373405 TATTTAATATTCTAA
1 TATTTAAAATTCTAA
*
18373420 TATTTAAAATTTTAA
1 TATTTAAAATTCTAA
18373435 TATTT
1 TATTT
18373440 TTCAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTAAAATTCTAA
Found at i:18383033 original size:122 final size:123
Alignment explanation
Indices: 18382905--18383151 Score: 356
Period size: 122 Copynumber: 2.0 Consensus size: 123
18382895 AAACAAATAA
* *
18382905 TACATTTATTAACAGATTTATAATTTAAATCTCACATTAAAAAATTTATAAAATTTAAATATTAT
1 TACATTTATTAACAGATTTATAATTTAAATATCACATT-AAAAATTTATAAAATTTAAATATCAT
*
18382970 TTTAAAT-TTTTATT-ATAATTTAAAAATGATTGATAATATTAA-TTTTTTTAAACTAAG
65 ATTAAATATTTT-TTAATAATTTAAAAATGATTGATAATATTAATTTTTTTTAAACTAAG
* * * * *
18383027 TACATTTATTAATAGATTTATGATTTAAGTATCATATTAAAAATTTTTAAAATTTAAATATCATA
1 TACATTTATTAACAGATTTATAATTTAAATATCACATTAAAAATTTATAAAATTTAAATATCATA
* * *
18383092 TTAAATATTTTTTAATAATTTAAAAATTATTTATGATATTAATTTTTTTTAAACTAAG
66 TTAAATATTTTTTAATAATTTAAAAATGATTGATAATATTAATTTTTTTTAAACTAAG
18383150 TA
1 TA
18383152 ACTATTAATT
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
121 32 0.29
122 62 0.56
123 17 0.15
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (123 bp):
TACATTTATTAACAGATTTATAATTTAAATATCACATTAAAAATTTATAAAATTTAAATATCATA
TTAAATATTTTTTAATAATTTAAAAATGATTGATAATATTAATTTTTTTTAAACTAAG
Found at i:18383075 original size:29 final size:29
Alignment explanation
Indices: 18383049--18383115 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 29
18383039 TAGATTTATG
*
18383049 ATTTAAGTATCATATTAAAAATTTTTAAA
1 ATTTAAATATCATATTAAAAATTTTTAAA
*
18383078 ATTTAAATATCATATTAAATATTTTTTAATA
1 ATTTAAATATCATATTAAA-AATTTTTAA-A
18383109 ATTTAAA
1 ATTTAAA
18383116 AATTATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 18 0.53
30 8 0.24
31 8 0.24
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (29 bp):
ATTTAAATATCATATTAAAAATTTTTAAA
Found at i:18383122 original size:29 final size:28
Alignment explanation
Indices: 18383060--18383122 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
18383050 TTTAAGTATC
*
18383060 ATATTAAAAATTTTTAAAATTTAAATAT
1 ATATTAAAAATTTTTAAAATTTAAAAAT
*
18383088 CATATTAAATATTTTTTAATAATTTAAAAAT
1 -ATATTAAA-AATTTTTAA-AATTTAAAAAT
18383119 -TATT
1 ATATT
18383123 TATGATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 12 0.40
30 8 0.27
31 10 0.33
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (28 bp):
ATATTAAAAATTTTTAAAATTTAAAAAT
Found at i:18390605 original size:82 final size:82
Alignment explanation
Indices: 18390468--18390632 Score: 321
Period size: 82 Copynumber: 2.0 Consensus size: 82
18390458 CCCGATTATT
18390468 GCCAAGATGTACCAGGGAGCTGGTGGTGGTATGGGTGCTGGAGCTATGGACGAGGATGGTCCGTC
1 GCCAAGATGTACCAGGGAGCTGGTGGTGGTATGGGTGCTGGAGCTATGGACGAGGATGGTCCGTC
*
18390533 TGTCGGTGGTGGAAGCG
66 TGTCGGTAGTGGAAGCG
18390550 GCCAAGATGTACCAGGGAGCTGGTGGTGGTATGGGTGCTGGAGCTATGGACGAGGATGGTCCGTC
1 GCCAAGATGTACCAGGGAGCTGGTGGTGGTATGGGTGCTGGAGCTATGGACGAGGATGGTCCGTC
18390615 TGTCGGTAGTGGAAGCG
66 TGTCGGTAGTGGAAGCG
18390632 G
1 G
18390633 TGCTGGGCCT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.22
Consensus pattern (82 bp):
GCCAAGATGTACCAGGGAGCTGGTGGTGGTATGGGTGCTGGAGCTATGGACGAGGATGGTCCGTC
TGTCGGTAGTGGAAGCG
Found at i:18391171 original size:19 final size:19
Alignment explanation
Indices: 18391122--18391171 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
18391112 GATAAAATAC
18391122 AATATAATTAATATAATTA
1 AATATAATTAATATAATTA
* *
18391141 TATATGAA-TAATATGATTA
1 AATAT-AATTAATATAATTA
*
18391160 AATATTATTAAT
1 AATATAATTAAT
18391172 TTATATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.88
20 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
AATATAATTAATATAATTA
Found at i:18391230 original size:19 final size:19
Alignment explanation
Indices: 18391208--18391245 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18391198 ATAAATGAAT
18391208 ATTTATTTAAACATTAAAA
1 ATTTATTTAAACATTAAAA
*
18391227 ATTTATTTAAATATTAAAA
1 ATTTATTTAAACATTAAAA
18391246 TAATACGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTATTTAAACATTAAAA
Found at i:18394607 original size:32 final size:32
Alignment explanation
Indices: 18394548--18394608 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
18394538 ATAATGTAAA
* *
18394548 ATATTAAAATTTATATGTTCGTATTATGTTTT
1 ATATAAAAATTTATATGTTAGTATTATGTTTT
*
18394580 ATATAAAAATTT-TATGTTATTATTTATGT
1 ATATAAAAATTTATATGTTAGTA-TTATGT
18394609 CGATACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (32 bp):
ATATAAAAATTTATATGTTAGTATTATGTTTT
Found at i:18400095 original size:10 final size:10
Alignment explanation
Indices: 18400080--18400107 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
18400070 CATTCCTTCA
18400080 TGTGCTCCAT
1 TGTGCTCCAT
18400090 TGTGCTCCAT
1 TGTGCTCCAT
18400100 TGTGCTCC
1 TGTGCTCC
18400108 CAGTCATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.07, C:0.32, G:0.21, T:0.39
Consensus pattern (10 bp):
TGTGCTCCAT
Found at i:18412646 original size:2 final size:2
Alignment explanation
Indices: 18412639--18412665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18412629 CAGGCCATGC
18412639 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
18412666 GCCATACGGG
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:18413825 original size:21 final size:23
Alignment explanation
Indices: 18413801--18413844 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
18413791 AGCGAATGTC
18413801 TGAAAAAA-AAAATTAAA-ACAA
1 TGAAAAAACAAAATTAAATACAA
*
18413822 TGAAAAAACAACATTAAATACAA
1 TGAAAAAACAAAATTAAATACAA
18413845 GCTTCAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (23 bp):
TGAAAAAACAAAATTAAATACAA
Found at i:18419873 original size:27 final size:26
Alignment explanation
Indices: 18419800--18419877 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
18419790 TCTTAAACGG
*
18419800 TTAAAATTATATACTTATAATTTTATA
1 TTAAAATT-TATAATTATAATTTTATA
* * *
18419827 TT-AATTTTATCATATAATAATTTTGTA
1 TTAAAATTTAT-A-ATTATAATTTTATA
18419854 TTAAAATTTATAATTGATAATTTT
1 TTAAAATTTATAATT-ATAATTTT
18419878 TTTTCATGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
25 3 0.07
26 7 0.17
27 24 0.59
28 7 0.17
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (26 bp):
TTAAAATTTATAATTATAATTTTATA
Found at i:18423523 original size:23 final size:24
Alignment explanation
Indices: 18423486--18423541 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
18423476 TCGACTTGAC
*
18423486 TTAAAATTAATAAAATATTATTTT
1 TTAAAAATAATAAAATATTATTTT
18423510 TTAAAAAT-ATAAAATATTA-TTT
1 TTAAAAATAATAAAATATTATTTT
*
18423532 TTAAATATAA
1 TTAAAAATAA
18423542 ATTTATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 10 0.34
23 12 0.41
24 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAAAATAATAAAATATTATTTT
Found at i:18423561 original size:15 final size:16
Alignment explanation
Indices: 18423531--18423566 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
18423521 AAATATTATT
18423531 TTTAAATATAAATTTA
1 TTTAAATATAAATTTA
18423547 TTTAAATAT-AATTTA
1 TTTAAATATAAATTTA
18423562 TTTAA
1 TTTAA
18423567 TTAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTAAATATAAATTTA
Found at i:18426832 original size:17 final size:17
Alignment explanation
Indices: 18426800--18426833 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18426790 TTATATTTGA
*
18426800 ATAAAAATAATTATAAT
1 ATAAAAATAATCATAAT
*
18426817 ATAAAAATTATCATAAT
1 ATAAAAATAATCATAAT
18426834 TATTTAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAAAATAATCATAAT
Found at i:18427066 original size:14 final size:14
Alignment explanation
Indices: 18427047--18427082 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
18427037 AAAATTAAAA
18427047 TTTTTTTATATTAT
1 TTTTTTTATATTAT
*
18427061 TTTTTTTATTTTAT
1 TTTTTTTATATTAT
18427075 TTATTTTT
1 TT-TTTTT
18427083 TCTAACATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTATATTAT
Found at i:18428365 original size:19 final size:19
Alignment explanation
Indices: 18428343--18428386 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
18428333 AAATTATAAA
18428343 TAATATTATAAATAATTTT
1 TAATATTATAAATAATTTT
* *
18428362 TAATA-TATTATTAATTTT
1 TAATATTATAAATAATTTT
18428380 T-ATATTA
1 TAATATTA
18428387 AATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAATATTATAAATAATTTT
Found at i:18429834 original size:12 final size:12
Alignment explanation
Indices: 18429819--18429870 Score: 72
Period size: 12 Copynumber: 4.3 Consensus size: 12
18429809 TAAATTATTT
18429819 TTTAATTTTATA
1 TTTAATTTTATA
18429831 TTTAATTTTATA
1 TTTAATTTTATA
18429843 TTT--TTTAATATA
1 TTTAATTT--TATA
18429855 TTTAATTTTATA
1 TTTAATTTTATA
18429867 TTTA
1 TTTA
18429871 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
10 3 0.08
12 30 0.83
14 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:18432204 original size:2 final size:2
Alignment explanation
Indices: 18432187--18432223 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
18432177 AGCTTATCAT
* *
18432187 TA TA TG TA TG 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 TA TA TA TA TA T
18432224 TTCTTTTGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18435045 original size:18 final size:17
Alignment explanation
Indices: 18435019--18435054 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
18435009 TGAAATGAAA
*
18435019 ATTTTAAATTTGAATTTG
1 ATTTAAAATTT-AATTTG
18435037 ATTTAAAATTTAATTTG
1 ATTTAAAATTTAATTTG
18435054 A
1 A
18435055 GTTCAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (17 bp):
ATTTAAAATTTAATTTG
Found at i:18435288 original size:19 final size:20
Alignment explanation
Indices: 18435243--18435290 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
18435233 AGTAATTTTT
*
18435243 TAATTAAAATAATTAAAATA
1 TAATTAAAATAATAAAAATA
18435263 TATATTAAAAT-ATAAAAAT-
1 TA-ATTAAAATAATAAAAATA
18435282 TCAATTAAA
1 T-AATTAAA
18435291 TTGATGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 7 0.28
20 10 0.40
21 8 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAATTAAAATAATAAAAATA
Found at i:18441499 original size:32 final size:32
Alignment explanation
Indices: 18441462--18441535 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 32
18441452 ATAAAGTGAT
* *
18441462 TTTATGTATTTGTGTTATGTAAAATATTAAAA
1 TTTATGTATTTATATTATGTAAAATATTAAAA
18441494 TTTATGTATTTATATTATGTAAAATATTAAAA
1 TTTATGTATTTATATTATGTAAAATATTAAAA
*
18441526 TTTTTGTATT
1 TTTATGTATT
18441536 CATTTTGTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (32 bp):
TTTATGTATTTATATTATGTAAAATATTAAAA
Found at i:18442043 original size:20 final size:20
Alignment explanation
Indices: 18442018--18442055 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18442008 CCCCACCCCC
18442018 TTTGCTTCTTGTTTTCTTAA
1 TTTGCTTCTTGTTTTCTTAA
* *
18442038 TTTGCTTTTTTTTTTCTT
1 TTTGCTTCTTGTTTTCTT
18442056 TTTTTCCCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.05, C:0.13, G:0.08, T:0.74
Consensus pattern (20 bp):
TTTGCTTCTTGTTTTCTTAA
Found at i:18443422 original size:19 final size:19
Alignment explanation
Indices: 18443380--18443422 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
18443370 TCGAGTAAAA
* * *
18443380 AAATTTTAAATTATTTTTT
1 AAATATTAAAATATTTTAT
*
18443399 TAATATTAAAATATTTTAT
1 AAATATTAAAATATTTTAT
18443418 AAATA
1 AAATA
18443423 AAATTTTTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATATTAAAATATTTTAT
Found at i:18451286 original size:2 final size:2
Alignment explanation
Indices: 18451279--18451312 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18451269 TGTTATTTGA
18451279 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
18451313 CATCAGTGGT
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:18451404 original size:2 final size:2
Alignment explanation
Indices: 18451397--18451429 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
18451387 ATGGCTATGA
18451397 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
18451430 ATGAAAAGGG
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:18454582 original size:27 final size:27
Alignment explanation
Indices: 18454525--18454586 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
18454515 ATTATCAAGC
*
18454525 GGACCCGACATGAACCCTCTCTCAATT
1 GGACCCGACATGAACCCTCTCTCAATA
*
18454552 GGACCCGACATGAACCCTCTTTCTAA-A
1 GGACCCGACATGAACCCTCTCTC-AATA
18454579 GGACCCGA
1 GGACCCGA
18454587 ACCTGGAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.27, C:0.35, G:0.18, T:0.19
Consensus pattern (27 bp):
GGACCCGACATGAACCCTCTCTCAATA
Found at i:18455967 original size:24 final size:24
Alignment explanation
Indices: 18455940--18455994 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
18455930 TTTATTAAAT
18455940 TTTTTAAAAT-TATAATTATAATAA
1 TTTTTAAAATCT-TAATTATAATAA
**
18455964 TTTTTTTAATCTTAATTATAATAA
1 TTTTTAAAATCTTAATTATAATAA
*
18455988 ATTTTAA
1 TTTTTAA
18455995 TTTTATCATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTAAAATCTTAATTATAATAA
Found at i:18456006 original size:27 final size:24
Alignment explanation
Indices: 18455937--18456007 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
18455927 TTTTTTATTA
* *
18455937 AATTTTTTAAAATTATAATTATAAT
1 AATTTTTT-TAATCATAATTATAAT
*
18455962 AATTTTTTTAATCTTAATTATAAT
1 AATTTTTTTAATCATAATTATAAT
*
18455986 AAATTTTAATTTTATCATAATT
1 -AATTTT--TTTAATCATAATT
18456008 TATCTCATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 13 0.34
25 14 0.37
27 11 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
AATTTTTTTAATCATAATTATAAT
Found at i:18457423 original size:16 final size:17
Alignment explanation
Indices: 18457385--18457426 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
18457375 AAGACTCTTA
*
18457385 TTAAAATTTTTTTTGTT
1 TTAAAATTTTTATTGTT
18457402 TATAAAATTTTTATT-TT
1 T-TAAAATTTTTATTGTT
18457419 TTAAAATT
1 TTAAAATT
18457427 CATCTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 4 0.17
18 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTAAAATTTTTATTGTT
Found at i:18458842 original size:13 final size:12
Alignment explanation
Indices: 18458798--18458840 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
18458788 GCAAAAATAC
18458798 TAAAAAAATAAA
1 TAAAAAAATAAA
* *
18458810 TAAACAAAACACA
1 TAAA-AAAATAAA
18458823 TAAAATAAATAAA
1 TAAAA-AAATAAA
18458836 TAAAA
1 TAAAA
18458841 TATAAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 5 0.20
13 20 0.80
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:18458849 original size:22 final size:22
Alignment explanation
Indices: 18458791--18458849 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
18458781 AAATCATGCA
18458791 AAAATACTAAAAAAATAAATAAAC
1 AAAATA-T-AAAAAATAAATAAAC
* * * *
18458815 AAAACACATAAAATAAATAAAT
1 AAAATATAAAAAATAAATAAAC
18458837 AAAATATAAAAAA
1 AAAATATAAAAAA
18458850 AACCAAAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 23 0.82
24 5 0.18
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (22 bp):
AAAATATAAAAAATAAATAAAC
Found at i:18460661 original size:23 final size:23
Alignment explanation
Indices: 18460635--18460683 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18460625 TAAATCATGC
18460635 AAAA-ATACTAAAAAAAATAAACA
1 AAAACATA-TAAAAAAAATAAACA
* *
18460658 AAAACATATAAAATAAATAAATA
1 AAAACATATAAAAAAAATAAACA
18460681 AAA
1 AAA
18460684 TATAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAACATATAAAAAAAATAAACA
Found at i:18460672 original size:19 final size:20
Alignment explanation
Indices: 18460648--18460690 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
18460638 AATACTAAAA
*
18460648 AAAATAAACAAA-AACATAT
1 AAAATAAACAAATAAAATAT
*
18460667 AAAATAAATAAATAAAATAT
1 AAAATAAACAAATAAAATAT
18460687 AAAA
1 AAAA
18460691 ATACTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATAAACAAATAAAATAT
Found at i:18461424 original size:27 final size:25
Alignment explanation
Indices: 18461387--18461444 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
18461377 ACCATTTTTC
* *
18461387 ATTTTTTTTATTTTTTTGTTT-TATT
1 ATTTTTTTTATTTATTTATTTAT-TT
18461412 ATTTTATTATTATTTATTTATTTATTT
1 ATTTT-TT-TTATTTATTTATTTATTT
18461439 ATTTTT
1 ATTTTT
18461445 AAAATTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 5 0.18
26 3 0.11
27 19 0.68
28 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (25 bp):
ATTTTTTTTATTTATTTATTTATTT
Found at i:18461697 original size:43 final size:43
Alignment explanation
Indices: 18461605--18461901 Score: 351
Period size: 41 Copynumber: 7.1 Consensus size: 43
18461595 AGTAAACAAA
* * * * *
18461605 GCTCTTCTAAACAGAGACTCAACGACTTTTG--AAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
*
18461646 GTTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
* * *
18461689 ACTCCTCTAAACAGAGGTACCATAAC-TTTG-AAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
* * *
18461730 GCTCTTCTAAATATAGGCACCACAAC-TTTG-AAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
* * * *
18461771 GCTCCTCTAAATAGAGGAATCATAACTTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
* *
18461814 G-TCTCTCTAAACATAGGCACCATAACTTTTGAAAAAATAAATT
1 GCTC-CTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
*
18461857 GCTCCTCTAAACAGAGGCACTACAAC-TTT-AAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
18461898 GCTC
1 GCTC
18461902 ATTGACAATC
Statistics
Matches: 222, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
41 108 0.49
42 13 0.06
43 99 0.45
44 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.28
Consensus pattern (43 bp):
GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAAATAAATT
Found at i:18462930 original size:16 final size:18
Alignment explanation
Indices: 18462909--18462948 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18462899 TGAGTCTTTA
18462909 TTTTTTA-TTTTTC-ATT
1 TTTTTTATTTTTTCTATT
18462925 TTTTTTATTTTTTCTATT
1 TTTTTTATTTTTTCTATT
18462943 TTTTTT
1 TTTTTT
18462949 CAAGCATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 9 0.41
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTATTTTTTCTATT
Found at i:18473562 original size:191 final size:190
Alignment explanation
Indices: 18473215--18473562 Score: 434
Period size: 191 Copynumber: 1.8 Consensus size: 190
18473205 ATCATATGAC
* * *
18473215 AATTATTTTTATTGAAACTTCATCTAAATTATTCTACTATTTGAGATAAATTTAGATAAAATTTT
1 AATTATTGTTATTAAAACTTCATCTAAATTATTCTACTATTTGAGATAAATTTAGATAAAATTTC
* * * * *
18473280 TCACTTATATTTTTTTAAAAATTTACCATTTGAAATTTCTAATAATCTCATCTTTGGATAATTAT
66 TCACTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAATAATCTCATCATTGGATAATTAT
** **
18473345 CAAATATTTTCAACCTGAATTTTTATTATTTTTATTATTTTTTTGTTTGAAAATAAATATT
131 CAAATATTCCCAA-CAAAATTTTTATTATTTTTATTATTTTTTTGTTTGAAAATAAATATT
* * *
18473406 AATTATTGTTATTAAAACTTTATCTAAATTATTTTA-TAATTTGGGATAAATTTAGATAAAATTT
1 AATTATTGTTATTAAAACTTCATCTAAATTATTCTACT-ATTTGAGATAAATTTAGATAAAATTT
* * *
18473470 CTCACCTAAAAATTTTATAGAAATTTACTATTTGAAATTTCT-ATAAATTTCATCATTGGATAAT
65 CTCA-CTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAT-AATCTCATCATTGGATAAT
**
18473534 TAAT-ATTTATTCCCAA-AAAATATTTTATT
128 T-ATCAAATATTCCCAACAAAAT-TTTTATT
18473563 TACAATTTAA
Statistics
Matches: 132, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
190 4 0.03
191 69 0.52
192 57 0.43
193 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (190 bp):
AATTATTGTTATTAAAACTTCATCTAAATTATTCTACTATTTGAGATAAATTTAGATAAAATTTC
TCACTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAATAATCTCATCATTGGATAATTAT
CAAATATTCCCAACAAAATTTTTATTATTTTTATTATTTTTTTGTTTGAAAATAAATATT
Found at i:18473565 original size:68 final size:67
Alignment explanation
Indices: 18473492--18473630 Score: 233
Period size: 68 Copynumber: 2.1 Consensus size: 67
18473482 TTTTATAGAA
* * *
18473492 ATTTACTATTTGAAATTTCTATAAATTTCATCATTGGATAATTAATATTTATTCCCAAAAAATAT
1 ATTTACAATTTAAAATTTCTATAAATTCCATCATTGGATAATTAATATTTATTCCCAAAAAATA-
18473557 TTT
65 TTT
*
18473560 ATTTACAATTTAAAATTTCTATAAATTCCATCATTGGATAATTAATATTTATTCCTAAAAAATAT
1 ATTTACAATTTAAAATTTCTATAAATTCCATCATTGGATAATTAATATTTATTCCCAAAAAATAT
18473625 TT
66 TT
18473627 ATTT
1 ATTT
18473631 CTAGGTGAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 7 0.10
68 60 0.90
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.47
Consensus pattern (67 bp):
ATTTACAATTTAAAATTTCTATAAATTCCATCATTGGATAATTAATATTTATTCCCAAAAAATAT
TT
Found at i:18475740 original size:2 final size:2
Alignment explanation
Indices: 18475728--18475761 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18475718 TCCCAATTGG
*
18475728 AT AT AT TT 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
18475762 TATTCAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:18475940 original size:22 final size:23
Alignment explanation
Indices: 18475915--18475964 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
18475905 TATGAAAATA
*
18475915 TAAAATATATTTTTAA-TTTTAT
1 TAAAATATATTTATAATTTTTAT
* *
18475937 T-AAATTTATTTATAATTTTTCT
1 TAAAATATATTTATAATTTTTAT
18475959 TAAAAT
1 TAAAAT
18475965 TTTAAGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.52
22 7 0.30
23 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
TAAAATATATTTATAATTTTTAT
Found at i:18492642 original size:207 final size:212
Alignment explanation
Indices: 18492286--18492683 Score: 490
Period size: 207 Copynumber: 1.9 Consensus size: 212
18492276 TCGTTAAATA
* *
18492286 TAAAATATTAAAAATTATATATTTATATTATATTTTTTATACAAATTATATATTAAAATTTTAAA
1 TAAAATATTAAAAATTATATATTTATATTATACTTTATATACAAATTATATATTAAAATTTTAAA
* * * *
18492351 TTATATTATTTTCATATTTTATATTCGTAACGTAACGTTTAATGTCGTGTCACAATAAATAATGA
66 TTATATTATTTTAATATTTTATATTCATAAC-TAAC--TTAATATCGTGTCACAACAAATAATGA
** * * * * *
18492416 TAATGCTCTCACGAAATTATTTCAAAAATTGAATTTTTTTTTAT-TTTGATTCTTTGTAAAATGT
128 TAATAATCTCACAAAATTATCTCAAAAATTGAATTTTCTTTTATCGTT-ATTCTTTATAAAATGT
18492480 CAAAGTCTTTCTTATATAATG
192 CAAAGTCTTTCTTATATAATG
* * * *
18492501 TAAAATATTAAAATTTATATATTTATTTTATACTTTATATA-AAAGTTA-CTA-TCAAATTTTAA
1 TAAAATATTAAAAATTATATATTTATATTATACTTTATATACAAA-TTATATATTAAAATTTTAA
* *
18492563 A-T-TATTATTTTAATATTTTATATTCATAA-TATA-TTAATATCGTG-CTATAACAGATAATGA
65 ATTATATTATTTTAATATTTTATATTCATAACTA-ACTTAATATCGTGTC-ACAACAAATAATGA
*
18492623 TAATAATCTCATAAAATTATCTCAAAAATTGAATTTTCTTTTATCGTTATTCTTTATAAAA
128 TAATAATCTCACAAAATTATCTCAAAAATTGAATTTTCTTTTATCGTTATTCTTTATAAAA
18492684 AATTAAAAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
206 1 0.01
207 71 0.45
208 2 0.01
209 2 0.01
210 1 0.01
211 25 0.16
212 1 0.01
213 11 0.07
214 5 0.03
215 40 0.25
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (212 bp):
TAAAATATTAAAAATTATATATTTATATTATACTTTATATACAAATTATATATTAAAATTTTAAA
TTATATTATTTTAATATTTTATATTCATAACTAACTTAATATCGTGTCACAACAAATAATGATAA
TAATCTCACAAAATTATCTCAAAAATTGAATTTTCTTTTATCGTTATTCTTTATAAAATGTCAAA
GTCTTTCTTATATAATG
Found at i:18494913 original size:13 final size:13
Alignment explanation
Indices: 18494897--18494921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18494887 CGTAAATATG
18494897 ATATAAAAATAAA
1 ATATAAAAATAAA
18494910 ATATAAAAATAA
1 ATATAAAAATAA
18494922 TATAATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATAAAAATAAA
Found at i:18494956 original size:24 final size:24
Alignment explanation
Indices: 18494907--18494956 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
18494897 ATATAAAAAT
*
18494907 AAAATATAAAAATAATATAATTTA
1 AAAATATAAAAATAATATAATATA
* *
18494931 AAAATTTAACAATAAT-TATATATA
1 AAAATATAAAAATAATATA-ATATA
18494955 AA
1 AA
18494957 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAATATAAAAATAATATAATATA
Found at i:18495028 original size:25 final size:24
Alignment explanation
Indices: 18494999--18495045 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
18494989 TTTATGTTAA
*
18494999 TATAAATTATAATATATAATTTTTG
1 TATAAAATATAATATA-AATTTTTG
*
18495024 TATAAAATATTATATAAATTTT
1 TATAAAATATAATATAAATTTT
18495046 AATATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TATAAAATATAATATAAATTTTTG
Found at i:18498033 original size:21 final size:21
Alignment explanation
Indices: 18498007--18498051 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
18497997 TTTGATAAAT
*
18498007 AAAAATAAAAATAA-ATTTTAA
1 AAAAATAAAAA-AATATATTAA
18498028 AAAAATAAAAAAATATATTAA
1 AAAAATAAAAAAATATATTAA
18498049 AAA
1 AAA
18498052 TATATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAATAAAAAAATATATTAA
Found at i:18498161 original size:34 final size:34
Alignment explanation
Indices: 18498123--18498192 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
18498113 TCATATTTGA
*
18498123 ATATTTTTAA-TACAT-TAATTAATAAATATATATT
1 ATATTTATAATTACATGTAATTAATAAA-AT-TATT
* *
18498157 ATATTTATAATTAGATGTCATTAATAAAATTATT
1 ATATTTATAATTACATGTAATTAATAAAATTATT
18498191 AT
1 AT
18498193 CGAATATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 15 0.48
35 6 0.19
36 10 0.32
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (34 bp):
ATATTTATAATTACATGTAATTAATAAAATTATT
Found at i:18498269 original size:22 final size:22
Alignment explanation
Indices: 18498239--18498284 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
18498229 TTTGTTTATC
18498239 AAATATTTTTTAAAAAAAT-AA
1 AAATATTTTTTAAAAAAATGAA
18498260 AAATATTTTTTAAAAAAATGAA
1 AAATATTTTTTAAAAAAATGAA
18498282 AAA
1 AAA
18498285 GAAAATGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATATTTTTTAAAAAAATGAA
Found at i:18499029 original size:28 final size:27
Alignment explanation
Indices: 18498993--18499045 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
18498983 TTTGCGGATG
*
18498993 CGATACACA-CTACTATTTGTGTGAATGA
1 CGATACACATCT-CTA-TTGCGTGAATGA
*
18499021 CGATTCACATCTCTATTGCGTGAAT
1 CGATACACATCTCTATTGCGTGAAT
18499046 AACAGTGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.41
28 11 0.50
29 2 0.09
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
CGATACACATCTCTATTGCGTGAATGA
Found at i:18501591 original size:21 final size:22
Alignment explanation
Indices: 18501566--18501609 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
18501556 CAAAAATATA
18501566 TATTT-TAAATTTTATTAAAAT
1 TATTTATAAATTTTATTAAAAT
* *
18501587 TATTTATGATTTTTATTAAAAT
1 TATTTATAAATTTTATTAAAAT
18501609 T
1 T
18501610 TTAAGTCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTATAAATTTTATTAAAAT
Found at i:18503268 original size:13 final size:12
Alignment explanation
Indices: 18503250--18503304 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
18503240 TTCAGTTTGG
18503250 ATTAAATTCAAAT
1 ATTAAATT-AAAT
*
18503263 ATTAAATATATAT
1 ATTAAAT-TAAAT
18503276 ATTAAATTTAAAT
1 ATTAAA-TTAAAT
*
18503289 A--AAATTAAAA
1 ATTAAATTAAAT
18503299 ATTAAA
1 ATTAAA
18503305 AAAATAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 6 0.17
11 3 0.09
12 3 0.09
13 21 0.60
14 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
ATTAAATTAAAT
Found at i:18503985 original size:14 final size:15
Alignment explanation
Indices: 18503966--18504005 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
18503956 TTAATATCTA
18503966 ATAATTTTAAAATTT
1 ATAATTTTAAAATTT
*
18503981 A-AATTTTAACATTT
1 ATAATTTTAAAATTT
18503995 ATAATTCTTAA
1 ATAATT-TTAA
18504006 CCGTAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 13 0.59
15 5 0.23
16 4 0.18
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAATTTTAAAATTT
Found at i:18505079 original size:20 final size:21
Alignment explanation
Indices: 18505054--18505100 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
18505044 TAAGTATGCA
18505054 ATATTTGAA-AAAATT-TTAAT
1 ATATTT-AATAAAATTATTAAT
*
18505074 ATATTTAATAAAATTATTGAT
1 ATATTTAATAAAATTATTAAT
18505095 ATATTT
1 ATATTT
18505101 TTATCGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
ATATTTAATAAAATTATTAAT
Found at i:18505198 original size:22 final size:23
Alignment explanation
Indices: 18505166--18505228 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
18505156 TTTTTTTACT
*
18505166 TTTTATTAATTT-TT-ATATTAAA
1 TTTTATCAATTTATTAAT-TTAAA
18505188 TTTTATCAATTTATTAATTTAAA
1 TTTTATCAATTTATTAATTTAAA
* *
18505211 ATTTAT--ATTTATTTATTT
1 TTTTATCAATTTATTAATTT
18505229 TTAATAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 11 0.31
22 11 0.31
23 12 0.33
24 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTATCAATTTATTAATTTAAA
Found at i:18514293 original size:10 final size:10
Alignment explanation
Indices: 18514278--18514308 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
18514268 ATAATTATTT
18514278 TTTATTTAAA
1 TTTATTTAAA
18514288 TTTATTTAAA
1 TTTATTTAAA
*
18514298 TTTATTAAAA
1 TTTATTTAAA
18514308 T
1 T
18514309 AATAGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTATTTAAA
Found at i:18514800 original size:2 final size:2
Alignment explanation
Indices: 18514795--18514832 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
18514785 TGTGTGTGTG
* *
18514795 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18514833 AAATCCTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18515586 original size:16 final size:18
Alignment explanation
Indices: 18515552--18515589 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
18515542 ATATCATTAA
18515552 AAATTATATTAATAATTT
1 AAATTATATTAATAATTT
*
18515570 AAATTAT-TTAA-ATTTT
1 AAATTATATTAATAATTT
18515586 AAAT
1 AAAT
18515590 AAATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTATATTAATAATTT
Found at i:18517037 original size:20 final size:22
Alignment explanation
Indices: 18516987--18517031 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
18516977 CTCATTAAGT
18516987 ATAAGTTAAAAGAGAAAGAATAA
1 ATAA-TTAAAAGAGAAAGAATAA
*
18517010 ATAATTAAAAGA-AAATAATAA
1 ATAATTAAAAGAGAAAGAATAA
18517031 A
1 A
18517032 GATTAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.20
Consensus pattern (22 bp):
ATAATTAAAAGAGAAAGAATAA
Found at i:18517968 original size:20 final size:19
Alignment explanation
Indices: 18517940--18517977 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
18517930 AAATTTAATC
18517940 TCATAAATTAAAAATAATTG
1 TCATAAATTAAAAA-AATTG
*
18517960 TCATCAATTAAAAAAATT
1 TCATAAATTAAAAAAATT
18517978 AAATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (19 bp):
TCATAAATTAAAAAAATTG
Found at i:18528388 original size:21 final size:20
Alignment explanation
Indices: 18528360--18528412 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
18528350 GTCCTAAAAT
*
18528360 AATTTATTTTTTAATATTTA
1 AATTTATTTTTTAATATATA
*
18528380 AATTTTATTTTTTTATATATA
1 AA-TTTATTTTTTAATATATA
*
18528401 AAATTATTTTTT
1 AATTTATTTTTT
18528413 GTGATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTTATTTTTTAATATATA
Found at i:18530467 original size:1 final size:1
Alignment explanation
Indices: 18530463--18530493 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
18530453 TGTTATTCTT
*
18530463 AAAAAAAAAAAAAAAAAAAGAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
18530494 GGTGTTGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:18538845 original size:26 final size:26
Alignment explanation
Indices: 18538816--18538869 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18538806 CATAATTTTT
18538816 ATATAAAATATAATATAAATATATAA
1 ATATAAAATATAATATAAATATATAA
*** *
18538842 ATATTTTATATGATATAAATATATAA
1 ATATAAAATATAATATAAATATATAA
18538868 AT
1 AT
18538870 TATCAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAAAATATAATATAAATATATAA
Done.