Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 91 of 121
Found at i:15464345 original size:20 final size:22
Alignment explanation
Indices: 15464320--15464367 Score: 82
Period size: 20 Copynumber: 2.3 Consensus size: 22
15464310 TTCGAAATTA
15464320 ATAAAATATTA-TTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
15464340 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
15464362 ATAAAA
1 ATAAAA
15464368 ATATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:15464356 original size:22 final size:20
Alignment explanation
Indices: 15464320--15464367 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
15464310 TTCGAAATTA
*
15464320 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTAAAAT
15464340 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA--TTTTAAAAT
15464362 ATAAAA
1 ATAAAA
15464368 ATATAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
22 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAAAATATTATTTTAAAAT
Found at i:15467406 original size:27 final size:27
Alignment explanation
Indices: 15467348--15467406 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
15467338 TTATAAGATT
** *
15467348 ATTTATTTTAATTTAAAATTTTCATAG
1 ATTTATTTTAATAAAAAATTTTCATAA
*
15467375 TTTTATTTT-ATAAAAAATATTTCATAA
1 ATTTATTTTAATAAAAAAT-TTTCATAA
15467402 ATTTA
1 ATTTA
15467407 AAATTAAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTATTTTAATAAAAAATTTTCATAA
Found at i:15470127 original size:26 final size:25
Alignment explanation
Indices: 15470098--15470158 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
15470088 TAATTTTAGC
*
15470098 TAATTATAATATAAGGGGTATATTCG
1 TAATTATAATATAA-GGGCATATTCG
** * *
15470124 TAATTATGGTATGAGGGCATTTTCG
1 TAATTATAATATAAGGGCATATTCG
15470149 TAATTATAAT
1 TAATTATAAT
15470159 TCTTAGGTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 17 0.61
26 11 0.39
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (25 bp):
TAATTATAATATAAGGGCATATTCG
Found at i:15470231 original size:26 final size:26
Alignment explanation
Indices: 15470176--15470240 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
15470166 TATTATAGTA
* *
15470176 ATTTTAGCCAATTATGGTAAGAAGGGT
1 ATTTTAG-TAATTATGGTAAGAAGGAT
*
15470203 ATTTTAGTAATTATGTTAA-AAGAGAT
1 ATTTTAGTAATTATGGTAAGAAG-GAT
*
15470229 ATTATAGTAATT
1 ATTTTAGTAATT
15470241 TTAGTTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.09
26 23 0.70
27 7 0.21
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.40
Consensus pattern (26 bp):
ATTTTAGTAATTATGGTAAGAAGGAT
Found at i:15470359 original size:54 final size:53
Alignment explanation
Indices: 15470285--15470398 Score: 160
Period size: 54 Copynumber: 2.2 Consensus size: 53
15470275 ATTTAGATGC
15470285 ATGTAATTCAATTGTCAAATAATTAAAAAGG-CATCATGATCATTTATAATGGG
1 ATGTAATTCAATTGTCAAATAA-TAAAAAGGACATCATGATCATTTATAATGGG
* * * *
15470338 TATGTAATTCAATTGTTAAATAATCAAAAGGACATTATGATCATTTGTAATGGG
1 -ATGTAATTCAATTGTCAAATAATAAAAAGGACATCATGATCATTTATAATGGG
15470392 AT-TAATT
1 ATGTAATT
15470399 TCATATTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
52 5 0.09
53 9 0.16
54 41 0.75
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (53 bp):
ATGTAATTCAATTGTCAAATAATAAAAAGGACATCATGATCATTTATAATGGG
Found at i:15471240 original size:25 final size:26
Alignment explanation
Indices: 15471189--15471243 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
15471179 AACTTCAATC
15471189 AATTATGGTAAGAGAGGTATTATAGT
1 AATTATGGTAAGAGAGGTATTATAGT
*
15471215 AATTATGTTAAG-G-GGATATTATAGT
1 AATTATGGTAAGAGAGG-TATTATAGT
15471240 AATT
1 AATT
15471244 TTAGTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 2 0.07
25 14 0.52
26 11 0.41
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (26 bp):
AATTATGGTAAGAGAGGTATTATAGT
Found at i:15471612 original size:25 final size:26
Alignment explanation
Indices: 15471560--15471616 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
15471550 AATTTTATTC
* **
15471560 AATTATAATATGAATGGTATTTTCAT
1 AATTATAATAAGAATGACATTTTCAT
15471586 AATTATAATAAGAA-GACATTTTCAT
1 AATTATAATAAGAATGACATTTTCAT
15471611 AATTAT
1 AATTAT
15471617 GGTTAGGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (26 bp):
AATTATAATAAGAATGACATTTTCAT
Found at i:15473843 original size:16 final size:16
Alignment explanation
Indices: 15473816--15473855 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
15473806 AAAAAAAATC
15473816 AAAAATAAAAAAGGATAA
1 AAAAAT-AAAAA-GATAA
*
15473834 AAAAATAAAAAGCTAA
1 AAAAATAAAAAGATAA
15473850 AAAAAT
1 AAAAAT
15473856 TTTGGTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAAGATAA
Found at i:15473965 original size:17 final size:17
Alignment explanation
Indices: 15473943--15473976 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15473933 ATTATGTTTG
*
15473943 AAAAAAATAAAAAAAAT
1 AAAAAAACAAAAAAAAT
*
15473960 AAAAAAGCAAAAAAAAT
1 AAAAAAACAAAAAAAAT
15473977 CCAACCACAG
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:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAT
Found at i:15475289 original size:38 final size:37
Alignment explanation
Indices: 15475243--15475326 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 37
15475233 TAATAAACTC
* *
15475243 TTTT-TAAAAATATAAAAAAAGTAAAAATATATATAAA-
1 TTTTATAAAAAAACAAAAAAAGTAAAAATATA-A-AAAG
* *
15475280 TTTTATAAAAAAACATAAAAATTAAAAATATAAAAAG
1 TTTTATAAAAAAACAAAAAAAGTAAAAATATAAAAAG
15475317 TTTTATAAAA
1 TTTTATAAAA
15475327 TTTCCAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 3 0.07
37 15 0.37
38 23 0.56
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (37 bp):
TTTTATAAAAAAACAAAAAAAGTAAAAATATAAAAAG
Found at i:15475419 original size:15 final size:16
Alignment explanation
Indices: 15475387--15475434 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
15475377 TGTTAAAATT
15475387 TTTTAAAAAAATGAAAA
1 TTTT-AAAAAATGAAAA
15475404 TTTTCAAAAAA-G-AAA
1 TTTT-AAAAAATGAAAA
15475419 TTTTAAAAAAT-AAAA
1 TTTTAAAAAATGAAAA
15475434 T
1 T
15475435 ATTGAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.21
15 11 0.39
16 1 0.04
17 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
TTTTAAAAAATGAAAA
Found at i:15477144 original size:29 final size:29
Alignment explanation
Indices: 15477085--15477151 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
15477075 TTAAAGGTTC
* *
15477085 AATTAATTTGAAATAAAAGATTTAAGACTT
1 AATTAA-TTGAAATAAAACATTAAAGACTT
*
15477115 AATTAATTGCAATAAAACATTAAA-AGCTT
1 AATTAATTGAAATAAAACATTAAAGA-CTT
*
15477144 AAATAATT
1 AATTAATT
15477152 ATTGAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 1 0.03
29 25 0.78
30 6 0.19
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTAATTGAAATAAAACATTAAAGACTT
Found at i:15493869 original size:5 final size:5
Alignment explanation
Indices: 15493853--15493885 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
15493843 CCCATTGTAT
15493853 TTATA TTTATA TTATA TTATA TTATA TTATA TT
1 TTATA -TTATA TTATA TTATA TTATA TTATA TT
15493886 TATAGTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTATA
Found at i:15493879 original size:15 final size:16
Alignment explanation
Indices: 15493850--15493889 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
15493840 TAACCCATTG
15493850 TATTTATATTTATATTA
1 TATTTATA-TTATATTA
15493867 TA-TTATATTATATTA
1 TATTTATATTATATTA
15493882 TATTTATA
1 TATTTATA
15493890 GTTTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 10 0.45
17 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTATATTATATTA
Found at i:15493896 original size:21 final size:21
Alignment explanation
Indices: 15493850--15493901 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
15493840 TAACCCATTG
15493850 TATTTATATTTATATTATATTA
1 TATTTATA-TTATATTATATTA
15493872 TA-TTATATTATATTTATAGTT-
1 TATTTATATTATA-TTATA-TTA
15493893 TATTT-TATT
1 TATTTATATT
15493902 CATTTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTTATATTATATTATATTA
Found at i:15497994 original size:2 final size:2
Alignment explanation
Indices: 15497987--15498021 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
15497977 ACAGAAACTG
*
15497987 AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
15498022 TACATACATA
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:0.51, C:0.46, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:15498022 original size:8 final size:8
Alignment explanation
Indices: 15497991--15498031 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
15497981 AAACTGACAC
*
15497991 ACACACAC
1 ACACACAT
*
15497999 ACACACAC
1 ACACACAT
15498007 ACACACAT
1 ACACACAT
15498015 ACACACAT
1 ACACACAT
*
15498023 ACATACAT
1 ACACACAT
15498031 A
1 A
15498032 TATAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.51, C:0.39, G:0.00, T:0.10
Consensus pattern (8 bp):
ACACACAT
Found at i:15498026 original size:12 final size:12
Alignment explanation
Indices: 15497991--15498029 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
15497981 AAACTGACAC
*
15497991 ACACACACACAC
1 ACACACACACAT
15498003 ACACACACACAT
1 ACACACACACAT
*
15498015 ACACACATACAT
1 ACACACACACAT
15498027 ACA
1 ACA
15498030 TATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.51, C:0.41, G:0.00, T:0.08
Consensus pattern (12 bp):
ACACACACACAT
Found at i:15499032 original size:31 final size:30
Alignment explanation
Indices: 15498975--15499032 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
15498965 TTTTTAAAAA
* *
15498975 ATTTATTCATTAATGTGATGGCATCATCTG
1 ATTTATTCATTAATGAGATAGCATCATCTG
* *
15499005 ATTTACTTTATTAATGAGATAGTATCAT
1 ATTTA-TTCATTAATGAGATAGCATCAT
15499033 TCAATTTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (30 bp):
ATTTATTCATTAATGAGATAGCATCATCTG
Found at i:15499069 original size:2 final size:2
Alignment explanation
Indices: 15499062--15499087 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15499052 ATATAAATCC
15499062 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
15499088 CACATCCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15500048 original size:20 final size:19
Alignment explanation
Indices: 15499996--15500054 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
15499986 TACCGTGCAA
*
15499996 TTATTCATATCAAAGTTGT
1 TTATTCATAACAAAGTTGT
* **
15500015 TTATTGATGGCAAAGATTGT
1 TTATTCATAACAAAG-TTGT
15500035 TTATTCATAACAAAGTTGT
1 TTATTCATAACAAAGTTGT
15500054 T
1 T
15500055 GATGGCAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTCATAACAAAGTTGT
Found at i:15500645 original size:12 final size:12
Alignment explanation
Indices: 15500628--15500652 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15500618 CTTATAGTAT
15500628 ATAATGATGATG
1 ATAATGATGATG
15500640 ATAATGATGATG
1 ATAATGATGATG
15500652 A
1 A
15500653 GAGTGAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
ATAATGATGATG
Found at i:15505031 original size:22 final size:22
Alignment explanation
Indices: 15504976--15505032 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
15504966 AATTCGTTTT
*
15504976 TTAT-AATTATT-GAATAAAAA
1 TTATAAATTATTAAAATAAAAA
* *
15504996 TTA-AAAGTACTTAAAATAAATA
1 TTATAAATTA-TTAAAATAAAAA
15505018 TTATAAATTATTAAA
1 TTATAAATTATTAAA
15505033 TTGAATAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
20 7 0.24
21 2 0.07
22 15 0.52
23 5 0.17
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
TTATAAATTATTAAAATAAAAA
Found at i:15508561 original size:74 final size:75
Alignment explanation
Indices: 15508344--15508565 Score: 212
Period size: 74 Copynumber: 3.1 Consensus size: 75
15508334 TATTTTTTAT
* * ** * *
15508344 TTTTTTATA-TTTCATCAAAGATTGTATTTTTTATA-TAAAAAA-TAT-T-TTTATTAAATTTTA
1 TTTTTTATATTTTCAACAAAAATTACAATTTTTATATTAAAAAAGT-TGTCTTTATTAAATTTTG
15508404 AAAAATATATA
65 AAAAATATATA
* * * * *
15508415 -TTTTTATGTTTTCAATAAAAATTGCAATTTTTATATTAAAAAATGTTGTTTTTATTGAATTTTG
1 TTTTTTATATTTTCAACAAAAATTACAATTTTTATATTAAAAAA-GTTGTCTTTATTAAATTTTG
15508479 -AAAA-ATATA
65 AAAAATATATA
* * * *
15508488 TTTTTTATATTTTTAACAAAAATTACAA-TTTTATTTTAAAAGCA-TTGTCTTTATTAAATTATG
1 TTTTTTATATTTTCAACAAAAATTACAATTTTTATATTAAAA-AAGTTGTCTTTATTAAATTTTG
15508551 AAAAATATATA
65 AAAAATATATA
15508562 TTTT
1 TTTT
15508566 CATGTTTTTA
Statistics
Matches: 124, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
70 7 0.06
71 21 0.17
72 23 0.19
73 22 0.18
74 39 0.31
75 12 0.10
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (75 bp):
TTTTTTATATTTTCAACAAAAATTACAATTTTTATATTAAAAAAGTTGTCTTTATTAAATTTTGA
AAAATATATA
Found at i:15508593 original size:73 final size:72
Alignment explanation
Indices: 15508390--15508598 Score: 224
Period size: 73 Copynumber: 2.8 Consensus size: 72
15508380 AAAAAATATT
* * *
15508390 TTTATTAAATTTTAAAAAATATATATTTTTATGTTTTCAATAAAAATTGCAATTTTTATATTAAA
1 TTTATTAAATTTTGAAAAATATATATTTTTATGTTTTTAATAAAAATT--AATTTTTATTTTAAA
*
15508455 AAATGTTGTT
64 AAA-GTTGTC
* * * *
15508465 TTTATTGAATTTTGAAAAATATAT-TTTTTATATTTTTAACAAAAATTACAATTTTATTTTAAAA
1 TTTATTAAATTTTGAAAAATATATATTTTTATGTTTTTAATAAAAATTA-ATTTTTATTTTAAAA
*
15508529 GCA-TTGTC
65 -AAGTTGTC
* * * * *
15508537 TTTATTAAATTATGAAAAATATATATTTTCATGTTTTTAGTAAATATTATGTTTTTATTTTA
1 TTTATTAAATTTTGAAAAATATATATTTTTATGTTTTTAATAAAAATTA-ATTTTTATTTTA
15508599 CAAACGGCTT
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
72 27 0.24
73 42 0.38
74 21 0.19
75 22 0.20
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (72 bp):
TTTATTAAATTTTGAAAAATATATATTTTTATGTTTTTAATAAAAATTAATTTTTATTTTAAAAA
AGTTGTC
Found at i:15513013 original size:26 final size:25
Alignment explanation
Indices: 15512980--15513028 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
15512970 TAATGATAAG
* *
15512980 AGGATATTTTTATAATTATGATTGT
1 AGGATATTATAATAATTATGATTGT
*
15513005 AGGAGTATTATAATAATTTTGATT
1 AGGA-TATTATAATAATTATGATT
15513029 AATTATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (25 bp):
AGGATATTATAATAATTATGATTGT
Found at i:15513270 original size:24 final size:25
Alignment explanation
Indices: 15513235--15513281 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
15513225 ATTATAAAGC
*
15513235 AATAAAAGGGTATT-TTGTAATTAT
1 AATAAAAGGGTATTATAGTAATTAT
15513259 AATAAATA-GGTATTATAGTAATT
1 AATAAA-AGGGTATTATAGTAATT
15513282 TTAGCAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
AATAAAAGGGTATTATAGTAATTAT
Found at i:15513827 original size:25 final size:25
Alignment explanation
Indices: 15513799--15513852 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
15513789 ATATGAAAGG
15513799 GTATTTTTGT-ACTTATGGTAAGAGA
1 GTATTTTTGTAAC-TATGGTAAGAGA
* *
15513824 GTATTTTTGTAACTATGGTTAGAGT
1 GTATTTTTGTAACTATGGTAAGAGA
15513849 GTAT
1 GTAT
15513853 CAAAGTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (25 bp):
GTATTTTTGTAACTATGGTAAGAGA
Found at i:15516915 original size:29 final size:27
Alignment explanation
Indices: 15516875--15516944 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 27
15516865 ATTAGGGGCA
*
15516875 TTTTGATATTTTCA-TTATATTTTTTAT
1 TTTTGATATTTTCACTCA-ATTTTTTAT
15516902 TTTTGCATATTTTTCACTCAATTTTTTAT
1 TTTTG-ATA-TTTTCACTCAATTTTTTAT
*
15516931 ATATTTAATATTTT
1 -T-TTTGATATTTT
15516945 TATTTATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 5 0.14
28 3 0.08
29 19 0.53
30 6 0.17
31 3 0.08
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTGATATTTTCACTCAATTTTTTAT
Found at i:15517337 original size:18 final size:18
Alignment explanation
Indices: 15517314--15517349 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15517304 TTCTTCAAGA
15517314 ATAAAAATAAAATAAAAT
1 ATAAAAATAAAATAAAAT
* *
15517332 ATAAAATTAATATAAAAT
1 ATAAAAATAAAATAAAAT
15517350 TTTTCTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATAAAATAAAAT
Found at i:15520308 original size:15 final size:16
Alignment explanation
Indices: 15520288--15520322 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
15520278 TTATTAATTT
15520288 ATTTTATCAAATT-AA
1 ATTTTATCAAATTCAA
15520303 ATTTTATCAAATTCAA
1 ATTTTATCAAATTCAA
15520319 ATTT
1 ATTT
15520323 GAGTGAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTATCAAATTCAA
Found at i:15522886 original size:18 final size:18
Alignment explanation
Indices: 15522865--15522899 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15522855 TACAAAATCT
15522865 TATTTTTT-TACATTTTAA
1 TATTTTTTATA-ATTTTAA
15522883 TATTTTTTATAATTTTA
1 TATTTTTTATAATTTTA
15522900 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTTATAATTTTAA
Found at i:15523657 original size:17 final size:16
Alignment explanation
Indices: 15523617--15523657 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
15523607 TTATTTATTT
15523617 AAAAAAAATACAAAAA
1 AAAAAAAATACAAAAA
*
15523633 AGAGAAAAATACAAAAA
1 A-AAAAAAATACAAAAA
*
15523650 CAAAAAAA
1 AAAAAAAA
15523658 CAAGGGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.83, C:0.07, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAAATACAAAAA
Found at i:15532067 original size:48 final size:47
Alignment explanation
Indices: 15531884--15532352 Score: 472
Period size: 48 Copynumber: 9.9 Consensus size: 47
15531874 GAACATATAA
* * * *
15531884 GATTTTTAAAGTTGTTAAACCTCTCCTTAGAGGAGC-TTTTCTAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTC-AAGAT
* *
15531931 AAGATTTTTAAAGTTGTTGAGCCTCTGCTTAAAGGAGCTTTTTCAAGAT
1 --GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
* * * * *
15531980 AAATTTTAAAGTTGTTGAACTTCTGCTTAGA-GAAACTTTTTCAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATG-AGCTTTTTCAAGAT
* *
15532027 GGATTTTTAAAGTTGTTGAGCCTTTGCTAAGATGAGCTTTTTCAAGAT
1 -GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
* * * *
15532075 GAATTTTAAAGTTGTTGAACCTCTACTTAGATGAGCTTTTCCAAGAT
1 GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
* *
15532122 AAGATTTTTAAAGTCGTTGAGCCTCTGCTTAGATGAACTTTTTCAAGAT
1 --GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
* * * *
15532171 AGATTGTTAAAGTTGTTGAGCCTCTACTTAGAGGAGATTTTTCAAGAT
1 -GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
* *
15532219 GGATTTTTAAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTT-AA-A-
1 -GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAG-CTTTTTCAAGAT
* * *
15532265 -ATTTTCAAAAGTTGGTGAGCCTTTGCTTAGATGAGACTTTTT-AA-AT
1 GATTTT-TAAAGTTGTTGAGCCTCTGCTTAGATGAG-CTTTTTCAAGAT
** * *
15532311 --TTTCAAAAATTGTTGAGCCTCTGCTTAGATGAGCCTTTTCAA
1 GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAA
15532353 AATTTTAAAA
Statistics
Matches: 361, Mismatches: 49, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
43 5 0.01
44 33 0.09
45 36 0.10
46 1 0.00
47 81 0.22
48 116 0.32
49 84 0.23
50 5 0.01
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (47 bp):
GATTTTTAAAGTTGTTGAGCCTCTGCTTAGATGAGCTTTTTCAAGAT
Found at i:15532328 original size:44 final size:44
Alignment explanation
Indices: 15532179--15532449 Score: 260
Period size: 44 Copynumber: 6.1 Consensus size: 44
15532169 ATAGATTGTT
* **
15532179 AAAGTTGTTGAGCCTCTACTTAGAGGAG-ATTTTTCAAGATGGATTTTT
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTT-AA-AT---TTTCA
15532227 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTTAAAATTTTCA
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTT-AAATTTTCA
* * * * *
15532272 AAAGTTGGTGAGCCTTTGCTTAGATGAGACTTTTTAAATTTTCA
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTTAAATTTTCA
* * * *
15532316 AAAATTGTTGAGCCTCTGCTTAGATGAGCCTTTTCAAAATTTT-A
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTT-TAAATTTTCA
** * *
15532360 AAAGTCATTAAGCCTCTACTTAGAGGAGCCTCTTTAAATTTTCA
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTTAAATTTTCA
** * * * *
15532404 AAAGTCATTGAACCTTTATTTAGAGGAG-CTTTTTAAATTTTTA
1 AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTTAAATTTTCA
15532447 AAA
1 AAA
15532450 ATGTCATTGA
Statistics
Matches: 192, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
43 23 0.12
44 92 0.48
45 40 0.21
48 30 0.16
49 7 0.04
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (44 bp):
AAAGTTGTTGAGCCTCTACTTAGAGGAGCCTTTTTAAATTTTCA
Found at i:15534448 original size:61 final size:59
Alignment explanation
Indices: 15534336--15534625 Score: 320
Period size: 59 Copynumber: 4.9 Consensus size: 59
15534326 ACCTTAAAGC
* * *
15534336 ATAACAATTTCAAAAAAATATATTTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTTGAAA
1 ATAA-AATTT-AAGAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
*
15534397 ATAAAAACTTTAAGAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAA
1 AT-AAAA-TTTAAGAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
* *
15534458 ATAAAATTTCAA-AAAATATATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAA
1 ATAAAATTT-AAGAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
** ** * *
15534517 ATAAAATTTTCGAAAA-GCA-TTTTGAGGGAAAA-TTGAAAGTATCAATTTTTCTTGAAC
1 ATAAAATTTAAGAAAATATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
* * * * *
15534574 ATAAAA-TTAAAAATAAAATATTTTTAAGAAAAAAGTTAAAAGTATCAATTTT
1 ATAAAATTTAAGAA-AATATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTT
15534626 TCTTTTATAA
Statistics
Matches: 198, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
56 4 0.02
57 37 0.19
58 9 0.05
59 69 0.35
60 22 0.11
61 52 0.26
62 5 0.03
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.36
Consensus pattern (59 bp):
ATAAAATTTAAGAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAA
Found at i:15534580 original size:31 final size:30
Alignment explanation
Indices: 15534545--15534629 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
15534535 ATTTTGAGGG
* *
15534545 AAAATTGAAAGTATCAATTTTTCTTGAACAT
1 AAAATTAAAAGTATCAATTTTTCTT-AACAA
* * * *
15534576 AAAATTAAAAATA-AAATATTT-TTAAGAA
1 AAAATTAAAAGTATCAATTTTTCTTAACAA
15534604 AAAAGTTAAAAGTATCAATTTTTCTT
1 AAAA-TTAAAAGTATCAATTTTTCTT
15534630 TTATAAAAGC
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
28 7 0.17
29 10 0.24
30 12 0.29
31 13 0.31
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.38
Consensus pattern (30 bp):
AAAATTAAAAGTATCAATTTTTCTTAACAA
Found at i:15536382 original size:11 final size:12
Alignment explanation
Indices: 15536367--15536408 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
15536357 AAATTTTTAT
15536367 TAAAATAAATAA
1 TAAAATAAATAA
15536379 -AAAATAAATAA
1 TAAAATAAATAA
* *
15536390 TGAAATATATAA
1 TAAAATAAATAA
15536402 TAAAATA
1 TAAAATA
15536409 TTTTTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:15539886 original size:3 final size:3
Alignment explanation
Indices: 15539873--15539905 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
15539863 AAGGAAAAAA
15539873 TAT TAAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
15539906 AAATATTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15540823 original size:20 final size:21
Alignment explanation
Indices: 15540783--15540838 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
15540773 ATTTGTCTAG
*
15540783 AAGTATAAAATA-CAAAGTAT
1 AAGTATAAAATATGAAAGTAT
15540803 AAGTATAAAATATGAAA-TAT
1 AAGTATAAAATATGAAAGTAT
*
15540823 AA-TAAAAAATATGAAA
1 AAGTATAAAATATGAAA
15540839 AAAAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.39
20 17 0.52
21 3 0.09
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (21 bp):
AAGTATAAAATATGAAAGTAT
Found at i:15540848 original size:19 final size:19
Alignment explanation
Indices: 15540809--15540850 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15540799 GTATAAGTAT
* * *
15540809 AAAATATGAAATATAATAA
1 AAAATATGAAAAAAAAGAA
15540828 AAAATATGAAAAAAAAGAA
1 AAAATATGAAAAAAAAGAA
15540847 AAAA
1 AAAA
15540851 AAGAACAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAATATGAAAAAAAAGAA
Found at i:15541711 original size:18 final size:19
Alignment explanation
Indices: 15541678--15541714 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15541668 TGAACCGTTG
*
15541678 AACCGTCCAGATCGAACCA
1 AACCGTCCAGACCGAACCA
15541697 AACCGT-CAGACCGAACCA
1 AACCGTCCAGACCGAACCA
15541715 TCGAACCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.38, G:0.16, T:0.08
Consensus pattern (19 bp):
AACCGTCCAGACCGAACCA
Found at i:15542165 original size:18 final size:18
Alignment explanation
Indices: 15542126--15542168 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15542116 TTTTTTTAAA
**
15542126 TAATAAATAAAAATTGGT
1 TAATAAATAAAAATAAGT
15542144 TAATAAATTAAAAATAAG-
1 TAATAAA-TAAAAATAAGT
15542162 TAATAAA
1 TAATAAA
15542169 AATGAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATAAGT
Found at i:15543103 original size:12 final size:11
Alignment explanation
Indices: 15543086--15543147 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
15543076 CATTTTTAGT
*
15543086 AAAAAAAGTAA
1 AAAAAAAATAA
15543097 AAAAAAAATAA
1 AAAAAAAATAA
*
15543108 AAAAAAAA-AC
1 AAAAAAAATAA
* *
15543118 AAGACAAATCAA
1 AAAAAAAAT-AA
15543130 AAATAAAAAGTAA
1 AAA-AAAAA-TAA
15543143 AAAAA
1 AAAAA
15543148 TTCACAGACA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.17
11 18 0.45
12 5 0.12
13 9 0.22
14 1 0.03
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:15551495 original size:18 final size:18
Alignment explanation
Indices: 15551456--15551498 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
15551446 TTTTTTTAAA
**
15551456 TAATAAATAAAAATTGGT
1 TAATAAATAAAAATAAGT
15551474 TAATAAATTAAAAATAAG-
1 TAATAAA-TAAAAATAAGT
15551492 TAATAAA
1 TAATAAA
15551499 AATGAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAAATAAAAATAAGT
Found at i:15554402 original size:17 final size:16
Alignment explanation
Indices: 15554380--15554435 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
15554370 TTATTTATTT
15554380 AAAAAAATAAAAAAAC
1 AAAAAAATAAAAAAAC
*
15554396 AAAAAAATACAAAAAAG
1 AAAAAAATA-AAAAAAC
* *
15554413 AGAAAAATACAAAAAC
1 AAAAAAATAAAAAAAC
15554429 AAAAAAA
1 AAAAAAA
15554436 CAAGGGATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
16 20 0.59
17 14 0.41
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.05
Consensus pattern (16 bp):
AAAAAAATAAAAAAAC
Found at i:15554427 original size:9 final size:8
Alignment explanation
Indices: 15554379--15554435 Score: 60
Period size: 8 Copynumber: 7.0 Consensus size: 8
15554369 TTTATTTATT
15554379 TAAAAAAA
1 TAAAAAAA
15554387 TAAAAAAA
1 TAAAAAAA
*
15554395 CAAAAAAA
1 TAAAAAAA
15554403 TACAAAAAA
1 TA-AAAAAA
* *
15554412 GAGAAAAA
1 TAAAAAAA
*
15554420 TACAAAAA
1 TAAAAAAA
*
15554428 CAAAAAAA
1 TAAAAAAA
15554436 CAAGGGATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 33 0.82
9 7 0.17
ACGTcount: A:0.82, C:0.07, G:0.04, T:0.07
Consensus pattern (8 bp):
TAAAAAAA
Found at i:15554468 original size:20 final size:23
Alignment explanation
Indices: 15554419--15554468 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
15554409 AAAGAGAAAA
15554419 ATACAAAAACAAAAAAACAAGGG
1 ATACAAAAACAAAAAAACAAGGG
*
15554442 ATA-AAAAAGAAAAAAA-AA-GG
1 ATACAAAAACAAAAAAACAAGGG
15554462 A-ACAAAA
1 ATACAAAA
15554469 GAGGTAGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 2 0.08
22 12 0.48
23 3 0.12
ACGTcount: A:0.76, C:0.08, G:0.12, T:0.04
Consensus pattern (23 bp):
ATACAAAAACAAAAAAACAAGGG
Found at i:15555441 original size:21 final size:21
Alignment explanation
Indices: 15555416--15555470 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
15555406 CAAGTGAATT
15555416 TTTTTATT-TTTTAAAATATTA
1 TTTTTATTATTTTAAAAT-TTA
*
15555437 TTTTTGTTATTTTAAAATTTA
1 TTTTTATTATTTTAAAATTTA
* *
15555458 TTATTAATATTTT
1 TTTTTATTATTTT
15555471 GCATGTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTATTATTTTAAAATTTA
Found at i:15555745 original size:13 final size:13
Alignment explanation
Indices: 15555727--15555761 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
15555717 AAATACTACC
15555727 AGAACTCAACACT
1 AGAACTCAACACT
15555740 AGAACTCAACACT
1 AGAACTCAACACT
15555753 AGAACTCAA
1 AGAACTCAA
15555762 ACAAGAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.29, G:0.09, T:0.14
Consensus pattern (13 bp):
AGAACTCAACACT
Found at i:15557448 original size:13 final size:13
Alignment explanation
Indices: 15557430--15557479 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
15557420 TATTATTATA
15557430 TTTTTTTTCTTTC
1 TTTTTTTTCTTTC
15557443 -TTTTTTTCTTT-
1 TTTTTTTTCTTTC
*
15557454 TTTCTTTTTCCTTC
1 TTT-TTTTTCTTTC
*
15557468 TTCTTTTTCTTT
1 TTTTTTTTCTTT
15557480 TCTATTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.42
13 16 0.52
14 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTTCTTTC
Found at i:15557457 original size:15 final size:14
Alignment explanation
Indices: 15557430--15557482 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
15557420 TATTATTATA
15557430 TTTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
*
15557444 TTTTTTCTTTTTTCT
1 TTTTTT-TTCTTTCT
**
15557459 TTTTCCTTC-TTCT
1 TTTTTTTTCTTTCT
15557472 TTTTCTTTTCT
1 TTTT-TTTTCT
15557483 ATTATGATCG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 8 0.27
14 11 0.37
15 11 0.37
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTTCT
Found at i:15557839 original size:18 final size:18
Alignment explanation
Indices: 15557816--15557850 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15557806 ACCTTAGCAT
15557816 ATAAAAA-AAACAAAAAAC
1 ATAAAAACAAA-AAAAAAC
15557834 ATAAAAACAAAAAAAAA
1 ATAAAAACAAAAAAAAA
15557851 TTTGACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.06
Consensus pattern (18 bp):
ATAAAAACAAAAAAAAAC
Found at i:15557845 original size:20 final size:19
Alignment explanation
Indices: 15557813--15557850 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
15557803 CCAACCTTAG
15557813 CATATAAAAAAAACAAAAAA
1 CATATAAAAAAAA-AAAAAA
15557833 CATA-AAAACAAAAAAAAA
1 CATATAAAA-AAAAAAAAA
15557851 TTTGACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.08
Consensus pattern (19 bp):
CATATAAAAAAAAAAAAAA
Found at i:15558430 original size:30 final size:29
Alignment explanation
Indices: 15558396--15558467 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
15558386 GAATTTTTGA
* * * *
15558396 AAATTTTTTATATATTATTTTTGTTATTTT
1 AAATTTTTTATATAATATTTATG-CATATT
15558426 AAATTTTATTAT-TAATATTTATGCATATT
1 AAATTTT-TTATATAATATTTATGCATATT
*
15558455 AAAATTTTTATAT
1 AAATTTTTTATAT
15558468 CTGTTAGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 16 0.46
31 4 0.11
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (29 bp):
AAATTTTTTATATAATATTTATGCATATT
Found at i:15571150 original size:48 final size:47
Alignment explanation
Indices: 15570985--15571367 Score: 279
Period size: 48 Copynumber: 8.0 Consensus size: 47
15570975 TTTCGAGAAC
* * * *
15570985 AGATGAGATTTTTAAAGTTGTTAAACCTCTCCTTAGATGAGC-TTTTCTA
1 AGATGA-ATTTTTAAAGTTGTTGAA-CTTTACTTAGAGGAGCTTTTTC-A
* * * * * *
15571034 ATATAAGATTTTTAAAGTTATTGAGCCTTTCCTTAAAGGAGCTTTTTCA
1 AGATGA-ATTTTTAAAGTTGTTGA-ACTTTACTTAGAGGAGCTTTTTCA
* * * *
15571083 ATATGAA-TTTTAAAATTGTTGAACTTCTACTTAGAGGAGGTTTTTTA
1 AGATGAATTTTTAAAGTTGTTGAACTT-TACTTAGAGGAGCTTTTTCA
* * * *
15571130 AGATAAATTTTTAAAGTTGTT-AAGCCTTTGCTAAGAGGAGCTTTTTTA
1 AGATGAATTTTTAAAGTTGTTGAA--CTTTACTTAGAGGAGCTTTTTCA
* * * *
15571178 ATATGAA-TTTTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCA
1 AGATGAATTTTTAAAGTTGTTGAA-CTTTACTTAGAGGAGCTTTTTCA
* ** * * * *
15571225 AGATAAGATTTTTAAAGTCATTGAGCCTTTGCATAGAGGAACTTTTTCA
1 AGATGA-ATTTTTAAAGTTGTTGA-ACTTTACTTAGAGGAGCTTTTTCA
* * * * *
15571274 AGATGGATTGTTAAAGTTGTTGAGCCTCTACTTAGAGGAGATTTTTCA
1 AGATGAATTTTTAAAGTTGTTGA-ACTTTACTTAGAGGAGCTTTTTCA
* * * *
15571322 AGATGGATTTTTAAAGTCGTTGAGTCTTTGCTTAGAGGAGCTTTTT
1 AGATGAATTTTTAAAGTTGTTGA-ACTTTACTTAGAGGAGCTTTTT
15571368 TAAAATTTTC
Statistics
Matches: 267, Mismatches: 57, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
46 3 0.01
47 71 0.27
48 112 0.42
49 76 0.28
50 5 0.02
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (47 bp):
AGATGAATTTTTAAAGTTGTTGAACTTTACTTAGAGGAGCTTTTTCA
Found at i:15571271 original size:96 final size:96
Alignment explanation
Indices: 15570994--15571367 Score: 448
Period size: 96 Copynumber: 3.9 Consensus size: 96
15570984 CAGATGAGAT
* * * * * * *
15570994 TTTTAAAGTTGTTAAACCTCTCCTTAGATGAGCTTTTCTAATATAAGATTTTTAAAGTTATTGAG
1 TTTTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGAG
* *
15571059 CCTTTCCTTAAAGGAGCTTTTTCAATATGAA
66 CCTTTGCTTAGAGGAGCTTTTTCAATATGAA
* * ** ** *
15571090 TTTTAAA-ATTGTTGAACTTCTACTTAGAGGAGGTTTTTTAAGATAA-ATTTTTAAAGTTGTTAA
1 TTTTAAAGA-TGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGA
* *
15571153 GCCTTTGCTAAGAGGAGCTTTTTTAATATGAA
65 GCCTTTGCTTAGAGGAGCTTTTTCAATATGAA
15571185 TTTTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGAG
1 TTTTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGAG
* * * *
15571250 CCTTTGCATAGAGGAACTTTTTCAAGATGGA
66 CCTTTGCTTAGAGGAGCTTTTTCAATATGAA
* * * * * *
15571281 TTGTTAAAGTTGTTGAGCCTCTACTTAGAGGAGATTTTTCAAGAT-GGATTTTTAAAGTCGTTGA
1 TT-TTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGA
*
15571345 GTCTTTGCTTAGAGGAGCTTTTT
65 GCCTTTGCTTAGAGGAGCTTTTT
15571368 TAAAATTTTC
Statistics
Matches: 238, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
95 83 0.35
96 117 0.49
97 38 0.16
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (96 bp):
TTTTAAAGATGTTGAACCTCTACTTAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTCATTGAG
CCTTTGCTTAGAGGAGCTTTTTCAATATGAA
Found at i:15571398 original size:45 final size:44
Alignment explanation
Indices: 15571347--15571556 Score: 223
Period size: 44 Copynumber: 4.8 Consensus size: 44
15571337 GTCGTTGAGT
* *
15571347 CTTTGCTTAGAGGAGCTTTTTTAAAATTTTCAAAAGTTGTTCAGC
1 CTTTGCTTAGAGGAGCCTTTTT-AAATTTTCAAAAGTTGTTAAGC
* * *
15571392 CTTTGCTTAAATGAGACTTTTTAAATTTTCAAAAGTTGTTGAA-C
1 CTTTGCTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTT-AAGC
* * *
15571436 CTTTGCTTAGATGAACCTTTTCAAAATTTT-AAAAGTTGTTAAGC
1 CTTTGCTTAGAGGAGCCTTTT-TAAATTTTCAAAAGTTGTTAAGC
* * *
15571480 CTTTACTTAGAGGAGCCTCTTTAAATTTTCAAAAGTTATTAAGC
1 CTTTGCTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTAAGC
* *
15571524 CTCTG-TTCA-ATGGAG-CTTTTTAAATTTTTAAAA
1 CTTTGCTT-AGA-GGAGCCTTTTTAAATTTTCAAAA
15571557 ATGTCGTTGA
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
43 28 0.20
44 86 0.61
45 26 0.19
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (44 bp):
CTTTGCTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTAAGC
Found at i:15571503 original size:133 final size:133
Alignment explanation
Indices: 15571328--15571573 Score: 327
Period size: 133 Copynumber: 1.8 Consensus size: 133
15571318 TTCAAGATGG
* * * * * * * *
15571328 ATTTTTAAAGTCGTTGAGTCTTTGCTTAGAGGAGCTTTTTTAAAATTTTCAAAAGTTGTTCAGCC
1 ATTTTAAAAGTCGTTAAGCCTTTACTTAGAGGAGCCTCTTT-AAATTTTCAAAAGTTATTAAGCC
* * *
15571393 TTTGCTTAAAT-GAGACTTTTTAAA-TTTTCAAAA-GTTGTTGAACCTTTGCTTAGATGAACCTT
65 TCTG-TTAAATGGAG-CTTTTTAAATTTTTAAAAATGTCGTTGAACCTTTGCTTAGATGAACCTT
15571455 TTCAAA
128 TTCAAA
*
15571461 ATTTTAAAAGTTGTTAAGCCTTTACTTAGAGGAGCCTCTTTAAATTTTCAAAAGTTATTAAGCCT
1 ATTTTAAAAGTCGTTAAGCCTTTACTTAGAGGAGCCTCTTTAAATTTTCAAAAGTTATTAAGCCT
*
15571526 CTGTTCAATGGAGCTTTTTAAATTTTTAAAAATGTCGTTGAACCTTTG
66 CTGTTAAATGGAGCTTTTTAAATTTTTAAAAATGTCGTTGAACCTTTG
15571574 TAGACACTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
131 14 0.14
132 35 0.36
133 48 0.49
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (133 bp):
ATTTTAAAAGTCGTTAAGCCTTTACTTAGAGGAGCCTCTTTAAATTTTCAAAAGTTATTAAGCCT
CTGTTAAATGGAGCTTTTTAAATTTTTAAAAATGTCGTTGAACCTTTGCTTAGATGAACCTTTTC
AAA
Found at i:15573466 original size:17 final size:17
Alignment explanation
Indices: 15573429--15573467 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
15573419 AATCGGTCTG
*
15573429 AACCGTTGAATCGCATG
1 AACCGTTGAATCGCATA
15573446 AACCGTTGAATCG-ATCA
1 AACCGTTGAATCGCAT-A
15573463 AACCG
1 AACCG
15573468 ACCCAGACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (17 bp):
AACCGTTGAATCGCATA
Found at i:15574043 original size:14 final size:14
Alignment explanation
Indices: 15574026--15574066 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
15574016 TTTAAACTCT
*
15574026 TAAATCCAAACCCC
1 TAAATCCAAACCCA
15574040 TAAAATCCAAACCCA
1 T-AAATCCAAACCCA
*
15574055 TAAATCAAAACC
1 TAAATCCAAACC
15574067 TCAAACCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAATCCAAACCCA
Found at i:15574116 original size:30 final size:31
Alignment explanation
Indices: 15574082--15574219 Score: 108
Period size: 30 Copynumber: 4.6 Consensus size: 31
15574072 CCTCAAATTT
* * *
15574082 TAAAACCGAAACCTTAAAATCTTC-AAACTC
1 TAAAACCAAAACCCTAAAACCTTCAAAACTC
* * *
15574112 TAAAATCAAAACCCT-AAACCTTCAATACCC
1 TAAAACCAAAACCCTAAAACCTTCAAAACTC
* * * * * *
15574142 TAAAATCTAAGCCTTAAAACTTTCTAAAC-C
1 TAAAACCAAAACCCTAAAACCTTCAAAACTC
*
15574172 TTAAAACC-AAACCCTAAAACCCTCAAAACTC
1 -TAAAACCAAAACCCTAAAACCTTCAAAACTC
15574203 --AAACCAAAACCCTAAAA
1 TAAAACCAAAACCCTAAAA
15574220 TCTGAATCTT
Statistics
Matches: 85, Mismatches: 18, Indels: 11
0.75 0.16 0.10
Matches are distributed among these distances:
28 5 0.06
29 18 0.21
30 45 0.53
31 17 0.20
ACGTcount: A:0.49, C:0.30, G:0.01, T:0.20
Consensus pattern (31 bp):
TAAAACCAAAACCCTAAAACCTTCAAAACTC
Found at i:15574192 original size:21 final size:20
Alignment explanation
Indices: 15574167--15574219 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
15574157 AAAACTTTCT
15574167 AAACCTTAAAAC-CAAACCCTA
1 AAACCTTAAAACTCAAA-CC-A
*
15574188 AAACCCTCAAAACTCAAACCA
1 AAA-CCTTAAAACTCAAACCA
*
15574209 AAACCCTAAAA
1 AAACCTTAAAA
15574220 TCTGAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 7 0.26
22 10 0.37
23 4 0.15
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACCTTAAAACTCAAACCA
Found at i:15580781 original size:14 final size:14
Alignment explanation
Indices: 15580764--15580805 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15580754 TAAAAAAAAC
15580764 AAAAAAAAAGTAAA
1 AAAAAAAAAGTAAA
15580778 AAAAAAAAAG-AGAA
1 AAAAAAAAAGTA-AA
*
15580792 AAAAACAAA-TAAA
1 AAAAAAAAAGTAAA
15580805 A
1 A
15580806 TGACCATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 4 0.16
14 21 0.84
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (14 bp):
AAAAAAAAAGTAAA
Found at i:15580805 original size:24 final size:24
Alignment explanation
Indices: 15580755--15580805 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15580745 GATGGGGCAT
*
15580755 AAAAAAAACAAAAAAAAAGTAAAA
1 AAAAAAAACAAAAAAAAAGCAAAA
* * *
15580779 AAAAAAAAGAGAAAAAAA-CAAAT
1 AAAAAAAACAAAAAAAAAGCAAAA
15580802 AAAA
1 AAAA
15580806 TGACCATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (24 bp):
AAAAAAAACAAAAAAAAAGCAAAA
Found at i:15582757 original size:133 final size:134
Alignment explanation
Indices: 15582611--15582877 Score: 346
Period size: 133 Copynumber: 2.0 Consensus size: 134
15582601 TAAAATTTTT
* *
15582611 AAAGTTTCATTGCCTCTCATTATGAAGAA-CATTCAAAGATTTTGAGATTTGTAAGACCTTCAG-
1 AAAGTTTCATTGCCTCTAATTACG-AGAAGCATTCAAAGATTTTGAGATTTGTAAGACC-TCAGA
* * *
15582674 GCATAATCTCTAATA-CTTTC-GAGCACAACTTTCAAGATTTTCGGGCAAAAAA-TTCTTAAATT
64 GCATAATCTCTAA-AGCTTTCAG-GCACAACATTCAAGATTTTAGGGCAAAAAACTTCTTAAAAT
*
15582736 TTTTAAAA
127 TTTCAAAA
* * ** *
15582744 AAAGTTTTATTGCCTTTAATTACGAGAAGTGTTCAAAGATTTTGAGATTTGTAAGACCTCTGAGC
1 AAAGTTTCATTGCCTCTAATTACGAGAAGCATTCAAAGATTTTGAGATTTGTAAGACCTCAGAGC
* *
15582809 GTAATCTCTAAAGCTTTCAGGCACAACATTCAAGATTTTAGGGCAAAAAACTTTTTAAAATTTTC
66 ATAATCTCTAAAGCTTTCAGGCACAACATTCAAGATTTTAGGGCAAAAAACTTCTTAAAATTTTC
15582874 AAAA
131 AAAA
15582878 TTCACAGATC
Statistics
Matches: 116, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
132 8 0.07
133 92 0.79
134 16 0.14
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (134 bp):
AAAGTTTCATTGCCTCTAATTACGAGAAGCATTCAAAGATTTTGAGATTTGTAAGACCTCAGAGC
ATAATCTCTAAAGCTTTCAGGCACAACATTCAAGATTTTAGGGCAAAAAACTTCTTAAAATTTTC
AAAA
Found at i:15583257 original size:111 final size:108
Alignment explanation
Indices: 15582914--15583326 Score: 386
Period size: 111 Copynumber: 3.8 Consensus size: 108
15582904 TTCAAAGATG
* * * * * * * * *
15582914 TGATTTCTAAAACCTCTGGGTATAATTTTGATTCG-TGATGTTATCCCGATCGATTCTTTATTTA
1 TGATTTATAAGACCTCCGGGCATAATTTCGATTCGCAG-TGTTATCCCAATCGATTCTTTTTTTT
* * *
15582978 TGACTTACGATGTTATCTCGATCAATTCTATAAGACCT-CTAGGCA
65 TGACTTACGGTGTTATCT-GATCAATTCTATAAGACCTCCGA-GAA
* * * * * *
15583023 TGATTTCTAAGACATCCAGG-ATAATTTCGATTCACAGTGTTATCTCAATCGATTCTTTATCTTT
1 TGATTTATAAGACCTCCGGGCATAATTTCGATTCGCAGTGTTATCCCAATCGATTCTTT-TTTTT
* * ** * *
15583087 CGACTTATGGTACTATTCT-AGTCGATTCTGTAAGACCTCCG-GATA
65 TGACTTACGGTGTTA-TCTGA-TCAATTCTATAAGACCTCCGAGA-A
* * *
15583132 TGATTCTATAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGATTTCTTATTTT
1 TGATT-TATAAGACCTCCGGGCATAATTTCGATTCGCAGTGTTATCCCAATCGA-TTCTT-TTTT
*
15583197 TTTAACTTACGGTGTTATCCTGATCAATTCTATAAGACCTCCGAGAA
63 TTTGACTTACGGTGTTAT-CTGATCAATTCTATAAGACCTCCGAGAA
* * *
15583244 TGATTTATAAGACCTTCGGGCATAATTTCAATTCGCAGTGTTATCCCAATCGATTCTTTATCTTT
1 TGATTTATAAGACCTCCGGGCATAATTTCGATTCGCAGTGTTATCCCAATCGATTCTTT-TTTTT
**
15583309 TGACTTGTGGTGTTATCT
65 TGACTTACGGTGTTATCT
15583327 CAGTTGATTC
Statistics
Matches: 244, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
108 33 0.14
109 53 0.22
110 38 0.16
111 71 0.29
112 45 0.18
113 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (108 bp):
TGATTTATAAGACCTCCGGGCATAATTTCGATTCGCAGTGTTATCCCAATCGATTCTTTTTTTTT
GACTTACGGTGTTATCTGATCAATTCTATAAGACCTCCGAGAA
Found at i:15583411 original size:88 final size:88
Alignment explanation
Indices: 15583251--15583434 Score: 233
Period size: 88 Copynumber: 2.1 Consensus size: 88
15583241 GAATGATTTA
* * * *
15583251 TAAGACCTTCGGGCATAATTTCAATTCGCAGTGTTATCCCAATCGATTCTTTATCTTTTGACTTG
1 TAAGACCTTCGGGCATAATTTCAATTCGCAGTATTATCCCAATCGATTCCTTATCTTTTAACTTA
* * *
15583316 TGGTGTTATCTCAGTTGATTCTG
66 CGATGTTATCACAGTTGATTCTG
** * * * * *
15583339 TAAGACCTTCGGGCATAATTTTGATTTGCGGTATTATCTCTATCGATTCCTTATTTTTTAACTTA
1 TAAGACCTTCGGGCATAATTTCAATTCGCAGTATTATCCCAATCGATTCCTTATCTTTTAACTTA
15583404 CGATGTTATCACAGTTGATTCTG
66 CGATGTTATCACAGTTGATTCTG
*
15583427 TAGGACCT
1 TAAGACCT
15583435 CTGGACATGA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.42
Consensus pattern (88 bp):
TAAGACCTTCGGGCATAATTTCAATTCGCAGTATTATCCCAATCGATTCCTTATCTTTTAACTTA
CGATGTTATCACAGTTGATTCTG
Found at i:15583496 original size:198 final size:194
Alignment explanation
Indices: 15583133--15583813 Score: 638
Period size: 198 Copynumber: 3.4 Consensus size: 194
15583123 CTCCGGATAT
* * * * *
15583133 GATTCTATAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGATTTCTTATTTTT
1 GATTCTATAAGACCTTCGGGCATAATTTCGATTCACGGTGTTATCTCGATCGATTCCTTA-TTTT
* ** * * *
15583198 TTAACTTACGGTGTTATCCTGATCAATTCTATAAGACCTCCGAGA-ATGATTTATAAGACCTT-C
65 TTAACTTACGGTGTTATCCAG-TTGATTCTGTAAGACCTCTG-GACATGATTTCTAAGA-CTTCC
** **
15583261 GGGCATAATTTCAATTCGCAGTGTTATCCCAATCGATTCTTTATCTTTTGACTTGTGGTGTTATC
127 GGGCATAATTTTGATTCG-A-TGTTATCCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATC
*
15583326 TCAGTT
190 -CAGTC
* * ** * *
15583332 GATTCTGTAAGACCTTCGGGCATAATTTTGATTTGCGGTATTATCTCTATCGATTCCTTATTTTT
1 GATTCTATAAGACCTTCGGGCATAATTTCGATTCACGGTGTTATCTCGATCGATTCCTTATTTTT
* * *
15583397 TAACTTACGATGTTATCACAGTTGATTCTGTAGGACCTCTGGACATGATTTCTAAGATTTCCGGG
66 TAACTTACGGTGTTATC-CAGTTGATTCTGTAAGACCTCTGGACATGATTTCTAAGACTTCCGGG
* * * * *
15583462 CATAATTTTGATTCATGATATTATCCTGATCGATT-TCTTATTTTTTGATTTATGATGTTATCCA
130 CATAATTTTGATTC--GATGTTATCCTGATCGATTCT-TTATCTTTTGACTTGTGGTGTTATCC-
15583526 AGTC
191 AGTC
*
15583530 GATTCTATAAGACC-TCTGGGCATAATTTCGATTCACAGTGTTATCTCGATCGATTCCTTATTTT
1 GATTCTATAAGACCTTC-GGGCATAATTTCGATTCACGGTGTTATCTCGATCGATTCCTTATTTT
* * ** * * *
15583594 TTGACCTGTGGTGTTATCCCAATTGATTCTTCTGTAAGACCT-TCGGGCATGATTTCTAAGACCT
65 TTAACTTACGGTGTTAT-CCAGTTGA---TTCTGTAAGACCTCT-GGACATGATTTCTAAGACTT
* * * * * **
15583658 CCAGACATAATTTTGATTCGCGGTGTTA-ACTCGATCGATTCCTTATCTTGCGACTTGTGGTGTT
125 CCGGGCATAATTTTGATT--CGATGTTATCCT-GATCGATTCTTTATCTTTTGACTTGTGGTGTT
15583722 ATCCCAGTC
187 AT-CCAGTC
* * * *
15583731 GATTCTATAAGA-CTTCCGGGTATAATTTCGATTTACGGTGTTATCTCAATCGATTCATTATTTT
1 GATTCTATAAGACCTT-CGGGCATAATTTCGATTCACGGTGTTATCTCGATCGATTCCTTATTTT
* * *
15583795 TTGACTTAGGGTGTCATCC
65 TTAACTTACGGTGTTATCC
15583814 TAATCGTTTT
Statistics
Matches: 396, Mismatches: 66, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
197 8 0.02
198 174 0.44
199 55 0.14
200 7 0.02
201 148 0.37
202 3 0.01
203 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (194 bp):
GATTCTATAAGACCTTCGGGCATAATTTCGATTCACGGTGTTATCTCGATCGATTCCTTATTTTT
TAACTTACGGTGTTATCCAGTTGATTCTGTAAGACCTCTGGACATGATTTCTAAGACTTCCGGGC
ATAATTTTGATTCGATGTTATCCTGATCGATTCTTTATCTTTTGACTTGTGGTGTTATCCAGTC
Found at i:15583534 original size:110 final size:110
Alignment explanation
Indices: 15583348--15583558 Score: 273
Period size: 110 Copynumber: 1.9 Consensus size: 110
15583338 GTAAGACCTT
** *
15583348 CGGGCATAATTTTGATTTGCGGTATTATCTCTATCGATTCCTTATTTTTTAACTTACGATGTTAT
1 CGGGCATAATTTTGATTCACGATATTATCTCTATCGATTCCTTATTTTTTAACTTACGATGTTAT
* * * *
15583413 CACAGTTGATTCTGTAGGACCTCTGGACATGATTTCTAAGATTTC
66 CACAGTCGATTCTATAAGACCTCTGGACATAATTTCTAAGATTTC
* * * * *
15583458 CGGGCATAATTTTGATTCATGATATTATC-CTGATCGATTTCTTATTTTTTGATTTATGATGTTA
1 CGGGCATAATTTTGATTCACGATATTATCTCT-ATCGATTCCTTATTTTTTAACTTACGATGTTA
*
15583522 TC-CAAGTCGATTCTATAAGACCTCTGGGCATAATTTC
65 TCAC-AGTCGATTCTATAAGACCTCTGGACATAATTTC
15583559 GATTCACAGT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 3 0.03
110 83 0.97
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (110 bp):
CGGGCATAATTTTGATTCACGATATTATCTCTATCGATTCCTTATTTTTTAACTTACGATGTTAT
CACAGTCGATTCTATAAGACCTCTGGACATAATTTCTAAGATTTC
Found at i:15585531 original size:15 final size:14
Alignment explanation
Indices: 15585510--15585552 Score: 59
Period size: 15 Copynumber: 3.0 Consensus size: 14
15585500 TTTAAACTCT
15585510 TAAATCCAAACCCC
1 TAAATCCAAACCCC
*
15585524 TAAAATCCAAACCCG
1 T-AAATCCAAACCCC
*
15585539 TAAATCAAAACCCC
1 TAAATCCAAACCCC
15585553 AAACCTTAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.14
Consensus pattern (14 bp):
TAAATCCAAACCCC
Found at i:15585676 original size:21 final size:20
Alignment explanation
Indices: 15585651--15585703 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
15585641 AAGACTTTCT
15585651 AAACCTTAAAAC-CAAACCCTA
1 AAACCTTAAAACTCAAA-CC-A
*
15585672 AAACCCTCAAAACTCAAACCA
1 AAA-CCTTAAAACTCAAACCA
*
15585693 AAACCATAAAA
1 AAACCTTAAAA
15585704 TCCGAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 7 0.26
22 10 0.37
23 4 0.15
ACGTcount: A:0.57, C:0.32, G:0.00, T:0.11
Consensus pattern (20 bp):
AAACCTTAAAACTCAAACCA
Found at i:15587015 original size:18 final size:18
Alignment explanation
Indices: 15586992--15587034 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15586982 ATGTATAAGA
*
15586992 ATAAAAGCTGTGTGTAAT
1 ATAAAACCTGTGTGTAAT
15587010 ATAAAACCTGTGTGTAAT
1 ATAAAACCTGTGTGTAAT
15587028 ATAAAAC
1 ATAAAAC
15587035 AAAACAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (18 bp):
ATAAAACCTGTGTGTAAT
Found at i:15593390 original size:17 final size:16
Alignment explanation
Indices: 15593368--15593422 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
15593358 TTTATTTATT
*
15593368 AAAAAAGTACAAAAAC
1 AAAAAAATACAAAAAC
15593384 AAAAAAATACAAAAA-
1 AAAAAAATACAAAAAC
15593399 AGAGAAAAATAC-AAAAC
1 A-A-AAAAATACAAAAAC
15593416 AAAAAAA
1 AAAAAAA
15593423 CAAGGGATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
15 6 0.17
16 20 0.57
17 9 0.26
ACGTcount: A:0.80, C:0.09, G:0.05, T:0.05
Consensus pattern (16 bp):
AAAAAAATACAAAAAC
Found at i:15593446 original size:27 final size:25
Alignment explanation
Indices: 15593378--15593446 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 25
15593368 AAAAAAGTAC
15593378 AAAAACAAAAAAATACAAAAAAGAGAA
1 AAAAACAAAAAAA-A-AAAAAAGAGAA
* * *
15593405 AAATACAAAACAAAAAAACAAGGGATA
1 AAAAACAAAA-AAAAAAAAAAGAGA-A
15593432 AAAAACAAAAAAAAA
1 AAAAACAAAAAAAAA
15593447 GGAACAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 13 0.36
27 20 0.56
28 3 0.08
ACGTcount: A:0.80, C:0.09, G:0.07, T:0.04
Consensus pattern (25 bp):
AAAAACAAAAAAAAAAAAAAGAGAA
Found at i:15594462 original size:21 final size:22
Alignment explanation
Indices: 15594418--15594463 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
15594408 TTTTTAATTT
* **
15594418 TTTTAAAATATTATTTTTGTTA
1 TTTTAAAATATTATTATTAATA
15594440 TTTTAAAAT-TTATTATTAATA
1 TTTTAAAATATTATTATTAATA
15594461 TTT
1 TTT
15594464 ATGCATGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAAAATATTATTATTAATA
Found at i:15596554 original size:10 final size:9
Alignment explanation
Indices: 15596538--15596562 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15596528 GCACCATTTT
15596538 TAAAAAAAA
1 TAAAAAAAA
15596547 TAAAAAAAA
1 TAAAAAAAA
15596556 TAAAAAA
1 TAAAAAA
15596563 TGCAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:15598375 original size:9 final size:9
Alignment explanation
Indices: 15598363--15598420 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 9
15598353 TATTATTGTA
15598363 TTTTTTC-T
1 TTTTTTCTT
15598371 TTTTTTCTT
1 TTTTTTCTT
15598380 TTTTTTCTT
1 TTTTTTCTT
15598389 TATTTTTCCTT
1 T-TTTTT-CTT
15598400 CTTCTTCTTCTT
1 -TT-TT-TTCTT
15598412 TTTTATTCT
1 TTTT-TTCT
15598421 GATTAGTTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
8 7 0.16
9 11 0.26
10 11 0.26
11 6 0.14
12 6 0.14
13 2 0.05
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:15598414 original size:20 final size:20
Alignment explanation
Indices: 15598367--15598415 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15598357 ATTGTATTTT
* * *
15598367 TTCTTTTTTTCTTTTTTTTC
1 TTCTTTTTTCCTTCTTCTTC
15598387 TT-TATTTTTCCTTCTTCTTC
1 TTCT-TTTTTCCTTCTTCTTC
15598407 TTCTTTTTT
1 TTCTTTTTT
15598416 ATTCTGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (20 bp):
TTCTTTTTTCCTTCTTCTTC
Found at i:15598601 original size:23 final size:23
Alignment explanation
Indices: 15598566--15598614 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
15598556 AGGCCGATTG
* *
15598566 AAAATTTGGGATTTGAATCCCAA
1 AAAATCTGAGATTTGAATCCCAA
*
15598589 AAAATCTGAGATTTGAATCCTAA
1 AAAATCTGAGATTTGAATCCCAA
15598612 AAA
1 AAA
15598615 GCTCTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (23 bp):
AAAATCTGAGATTTGAATCCCAA
Found at i:15605874 original size:13 final size:13
Alignment explanation
Indices: 15605856--15605881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15605846 GAGTTATATA
15605856 ATGACTAAGGTTT
1 ATGACTAAGGTTT
15605869 ATGACTAAGGTTT
1 ATGACTAAGGTTT
15605882 TGATCGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
ATGACTAAGGTTT
Found at i:15610899 original size:48 final size:48
Alignment explanation
Indices: 15610736--15611118 Score: 294
Period size: 48 Copynumber: 8.0 Consensus size: 48
15610726 TTTCAAGAAC
* * *
15610736 AGATGAGATTTTTAAAGTTTTTAAACCTCTCCTTAGAGGAGC-TTTTCTA
1 AGATG-GATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTC-A
* * * * * *
15610785 AAATAAGATTTTTAAAGTTATTGAGCCCCTACTT-GAAGGAG-TTGTTTCA
1 AGAT-GGATTTTTAAAGTTGTTGAACCTCTGCTTAG-AGGAGCTT-TTTCA
* * *
15610834 AGAT-GAGTTTTAAAGTTGTTGAATCTCTGCTTAGAGAAGCTTTTTCA
1 AGATGGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCA
* * *
15610881 AGATGGATTTTTAAAGTTGTTGAGCCTTTG-TTAAGAGGAGCGTTTTCA
1 AGATGGATTTTTAAAGTTGTTGAACCTCTGCTT-AGAGGAGCTTTTTCA
* ** * * **
15610929 AGAT-GAATTTTAAAACTGTTGAACCTCTACTTGGATAAGC-TTTTCTA
1 AGATGGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTC-A
* * * *
15610976 AGATAAGATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAACTTTTTCA
1 AGAT-GGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCA
* * * * * * * *
15611025 AGATGGATTGTTAAAGTTGTTTAGCTTTTACTTAGACGAGATTTTTCA
1 AGATGGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCA
* * * **
15611073 ATATGGATTTTTAAAGTCGTCGAGTCTCTGCTTAGAGGAGCTTTTT
1 AGATGGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTT
15611119 TTAAATTTTC
Statistics
Matches: 260, Mismatches: 61, Indels: 27
0.75 0.18 0.08
Matches are distributed among these distances:
46 5 0.02
47 66 0.25
48 113 0.43
49 67 0.26
50 9 0.03
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (48 bp):
AGATGGATTTTTAAAGTTGTTGAACCTCTGCTTAGAGGAGCTTTTTCA
Found at i:15611170 original size:44 final size:44
Alignment explanation
Indices: 15611098--15611300 Score: 230
Period size: 44 Copynumber: 4.6 Consensus size: 44
15611088 GTCGTCGAGT
* *
15611098 CTCTGCTTAGAGGAGCTTTTTTTAAATTTTCAAAAGTTGTTGAGC
1 CTCTACTTAGAGGAGC-CTTTTTAAATTTTCAAAAGTTGTTGAGC
* * * *
15611143 CTCTGCTTAGATGAGACTTTCTAAATTTTCAAAAGTTGTTGAGC
1 CTCTACTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTGAGC
** * * * *
15611187 CTCTACTTAGATAAGCCTTTTAAAATTTTTAAAAGTTGTTAAAC
1 CTCTACTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTGAGC
* **
15611231 CTCTACTTAGAGGAGCCTTTTTAAATTTTTAAAAGTCATTGAGC
1 CTCTACTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTGAGC
*
15611275 CTTTA-TTCAGAGGAG-CTTTTTAAATT
1 CTCTACTT-AGAGGAGCCTTTTTAAATT
15611301 CTTAAAAATG
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
43 13 0.09
44 110 0.80
45 14 0.10
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (44 bp):
CTCTACTTAGAGGAGCCTTTTTAAATTTTCAAAAGTTGTTGAGC
Found at i:15613411 original size:7 final size:7
Alignment explanation
Indices: 15613386--15613479 Score: 57
Period size: 7 Copynumber: 12.9 Consensus size: 7
15613376 AACGATGGGT
15613386 GAAAAAA
1 GAAAAAA
15613393 TGAAAGAAA
1 -GAAA-AAA
15613402 GAAAAAA
1 GAAAAAA
15613409 GAAAAAA
1 GAAAAAA
15613416 -AAATGAAA
1 GAAA--AAA
*
15613424 G-AACAA
1 GAAAAAA
*
15613430 GAAAAAT
1 GAAAAAA
15613437 GAAAAAA
1 GAAAAAA
*
15613444 TGAAAAAT
1 -GAAAAAA
* *
15613452 GAAAGAT
1 GAAAAAA
**
15613459 GAAAATG
1 GAAAAAA
15613466 GAGAAAAA
1 GA-AAAAA
15613474 GAAAAA
1 GAAAAA
15613480 CTCAAATTCA
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
6 6 0.09
7 35 0.51
8 24 0.35
9 3 0.04
ACGTcount: A:0.73, C:0.01, G:0.18, T:0.07
Consensus pattern (7 bp):
GAAAAAA
Found at i:15613419 original size:26 final size:28
Alignment explanation
Indices: 15613387--15613443 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
15613377 ACGATGGGTG
15613387 AAAAAATGAAAG-A-AAGAAAAAAGAAA
1 AAAAAATGAAAGAACAAGAAAAAAGAAA
*
15613413 AAAAAATGAAAGAACAAGAAAAATGAAA
1 AAAAAATGAAAGAACAAGAAAAAAGAAA
15613441 AAA
1 AAA
15613444 TGAAAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 12 0.43
27 1 0.04
28 15 0.54
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (28 bp):
AAAAAATGAAAGAACAAGAAAAAAGAAA
Found at i:15614743 original size:34 final size:34
Alignment explanation
Indices: 15614705--15614922 Score: 184
Period size: 34 Copynumber: 6.4 Consensus size: 34
15614695 GAATCTTTAT
* *
15614705 TTCTTACGAATTTGAAAGCCTTGCGAATCTCCAA
1 TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
* * * * *
15614739 TTCTTGCAAATCTGAATGTCTTGTGAATCTCTAA
1 TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
* * **
15614773 TTCTTGTGAATCTGAAAGCTTTTGCGAATCTTTAA
1 TTCTTGCGAATCTGAAAGC-CTTGCGAATCTCCAA
* * * * *
15614808 TTCTTGTGAATTTGAAAACTTTGCAAATCTCCAA
1 TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
* * * *
15614842 TTCTTGCGAATCTAAAAACTTTGCAAATCTCCAA
1 TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
* ** * **
15614876 CTCTTATGAATTTGAAAGCCTTGCGAATCTTTAA
1 TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
*
15614910 TTCTTGTGAATCT
1 TTCTTGCGAATCT
15614923 CCAATTCTTA
Statistics
Matches: 148, Mismatches: 35, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
34 119 0.80
35 29 0.20
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (34 bp):
TTCTTGCGAATCTGAAAGCCTTGCGAATCTCCAA
Found at i:15614744 original size:17 final size:17
Alignment explanation
Indices: 15614724--15614937 Score: 76
Period size: 17 Copynumber: 12.5 Consensus size: 17
15614714 ATTTGAAAGC
15614724 CTTGCGAATCTCCAATT
1 CTTGCGAATCTCCAATT
* *
15614741 CTTGCAAATCT-GAATGT
1 CTTGCGAATCTCCAAT-T
* *
15614758 CTTGTGAATCTCTAATT
1 CTTGCGAATCTCCAATT
* **
15614775 CTTGTGAATCTGAAAGCTT
1 CTTGCGAATCTCCAA--TT
**
15614794 -TTGCGAATCTTTAATT
1 CTTGCGAATCTCCAATT
* ** **
15614810 CTTGTGAAT-TTGAAAA
1 CTTGCGAATCTCCAATT
*
15614826 CTTTGCAAATCTCCAATT
1 C-TTGCGAATCTCCAATT
* **
15614844 CTTGCGAATCT-AAAAA
1 CTTGCGAATCTCCAATT
* *
15614860 CTTTGCAAATCTCCAACT
1 C-TTGCGAATCTCCAATT
** * ** **
15614878 CTTATGAATTTGAAAGC
1 CTTGCGAATCTCCAATT
**
15614895 CTTGCGAATCTTTAATT
1 CTTGCGAATCTCCAATT
*
15614912 CTTGTGAATCTCCAATT
1 CTTGCGAATCTCCAATT
*
15614929 CTTACGAAT
1 CTTGCGAAT
15614938 TTAAAATTCT
Statistics
Matches: 140, Mismatches: 48, Indels: 18
0.68 0.23 0.09
Matches are distributed among these distances:
16 13 0.09
17 104 0.74
18 21 0.15
19 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (17 bp):
CTTGCGAATCTCCAATT
Found at i:15614789 original size:103 final size:103
Alignment explanation
Indices: 15614668--15614914 Score: 286
Period size: 103 Copynumber: 2.4 Consensus size: 103
15614658 TTTTTTTTTC
* * * * *
15614668 AATTCTTGTGAATTTGAAAG-TTTCTGTGAATCTTTATTTCTTACGAATTTGAAAGCCTTGCGAA
1 AATTCTTGTGAATCTGAAAGCTTT-TGCGAATCTTTAATTCTTACGAATTTGAAAACCTTGCAAA
15614732 TCTCCAATTCTTGCAAATCTGAATGTCTTGTGAATCTCT
65 TCTCCAATTCTTGCAAATCTGAATGTCTTGTGAATCTCT
** *
15614771 AATTCTTGTGAATCTGAAAGCTTTTGCGAATCTTTAATTCTTGTGAATTTGAAAACTTTGCAAAT
1 AATTCTTGTGAATCTGAAAGCTTTTGCGAATCTTTAATTCTTACGAATTTGAAAACCTTGCAAAT
* *** *
15614836 CTCCAATTCTTGCGAATCT-AAAAACTT-TGCAAATCTCC
66 CTCCAATTCTTGCAAATCTGAATGTCTTGTG--AATCTCT
* * * *
15614874 AACTCTTATGAATTTGAAAGC-CTTGCGAATCTTTAATTCTT
1 AATTCTTGTGAATCTGAAAGCTTTTGCGAATCTTTAATTCTT
15614915 GTGAATCTCC
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
101 2 0.02
102 24 0.19
103 95 0.77
104 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (103 bp):
AATTCTTGTGAATCTGAAAGCTTTTGCGAATCTTTAATTCTTACGAATTTGAAAACCTTGCAAAT
CTCCAATTCTTGCAAATCTGAATGTCTTGTGAATCTCT
Found at i:15614922 original size:51 final size:50
Alignment explanation
Indices: 15614867--15614972 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 50
15614857 AAACTTTGCA
* *
15614867 AATCTCCAACTCTTATGAATTTGAAAGCCTTGCGAATCTTT-AATTCTTGTG
1 AATCTCCAACTCTTACGAATTTAAAAGCCTTGCGAAT-TTTGAA-TCTTGTG
* ** *
15614918 AATCTCCAATTCTTACGAATTTAAAATTCTTGTGAATTTTGAATCTTGTG
1 AATCTCCAACTCTTACGAATTTAAAAGCCTTGCGAATTTTGAATCTTGTG
15614968 AATCT
1 AATCT
15614973 TTGGATTGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
50 15 0.31
51 33 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (50 bp):
AATCTCCAACTCTTACGAATTTAAAAGCCTTGCGAATTTTGAATCTTGTG
Found at i:15614954 original size:17 final size:17
Alignment explanation
Indices: 15614908--15614970 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
15614898 GCGAATCTTT
* **
15614908 AATTCTTGTGAATCTCC
1 AATTCTTGTGAATTTAA
**
15614925 AATTCTTACGAATTTAA
1 AATTCTTGTGAATTTAA
**
15614942 AATTCTTGTGAATTTTG
1 AATTCTTGTGAATTTAA
15614959 AA-TCTTGTGAAT
1 AATTCTTGTGAAT
15614971 CTTTGGATTG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 10 0.27
17 27 0.73
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (17 bp):
AATTCTTGTGAATTTAA
Found at i:15615279 original size:85 final size:85
Alignment explanation
Indices: 15615135--15615369 Score: 283
Period size: 85 Copynumber: 2.8 Consensus size: 85
15615125 TTGTAAAGTC
* * * * *
15615135 AGACTTTGGATTAATGCAGATCATTTTGTTTTGGATTTTGGCTTATGCCAGATCCTTCTTTGGTT
1 AGACTTTGGATTCATCCAGGTCATTTAGTTTTGGATTTTGGCTTATGCCAGATCCTTCTTTGGCT
* *
15615200 CAGTCCAAGTTATTTATCTT
66 CAGTCCAAGTTAATTAACTT
* * * * *
15615220 TGACTTTGGTTTCATTCAGGTCATTTAATTTTGGATTTTGGCTTATGCCAGATACTTCTTTGGCT
1 AGACTTTGGATTCATCCAGGTCATTTAGTTTTGGATTTTGGCTTATGCCAGATCCTTCTTTGGCT
*
15615285 CAGTCCAAGTTAATTAAGTT
66 CAGTCCAAGTTAATTAACTT
* * * * * *
15615305 AGAC-TTCGATTCAGTCCAGGTCATTTCGGTTTGAATTTTGACTTATGTCAGATCCTTCTTTGGC
1 AGACTTTGGATTCA-TCCAGGTCATTTAGTTTTGGATTTTGGCTTATGCCAGATCCTTCTTTGGC
15615369 T
65 T
15615370 TAGCCCAAAT
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
84 7 0.06
85 119 0.94
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (85 bp):
AGACTTTGGATTCATCCAGGTCATTTAGTTTTGGATTTTGGCTTATGCCAGATCCTTCTTTGGCT
CAGTCCAAGTTAATTAACTT
Found at i:15616953 original size:61 final size:60
Alignment explanation
Indices: 15616860--15617208 Score: 315
Period size: 61 Copynumber: 5.9 Consensus size: 60
15616850 TCCTTAAACC
* * * *
15616860 ATAAAAATTTCAAAAAAGTAT-TTTTT-AGGAAAATTTGAATGTATCAATTTTTTTTTAAA
1 ATAAAAATTTCAAAAAA-TATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
* * *
15616919 ATAAAAACTTCAAGAAAATATATTGTTGAGGAAAAGTTGAAAGTGTCAA-TTTTCTTCAAA
1 ATAAAAATTTCAA-AAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
* * * *
15616979 ATTAAAAATTTCAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 A-TAAAAATTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
* * * *
15617040 ATAAAATTTTCAAAAAAATACATTTTTGAGGGAAAGTTGAAAGTATCAATTTTTCTTGAAA
1 ATAAAAATTTC-AAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
* * * ** ** * *
15617101 GTAAAATTTTCGAAAAGCA-ATTTAAG-GGAAAA-TTGAAAGTATCAATTTTCCTTGAAA
1 ATAAAAATTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
* * ** * *
15617158 ATAGAAATGTC---AAA-AT-GCTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 ATAAAAATTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
15617209 GTATAAAAGC
Statistics
Matches: 241, Mismatches: 40, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
53 2 0.01
54 7 0.03
55 20 0.08
57 31 0.13
58 5 0.02
59 20 0.08
60 63 0.26
61 93 0.39
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (60 bp):
ATAAAAATTTCAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTCAAA
Found at i:15617076 original size:121 final size:120
Alignment explanation
Indices: 15616861--15617208 Score: 353
Period size: 121 Copynumber: 3.0 Consensus size: 120
15616851 CCTTAAACCA
* ** *
15616861 TAAAAATTTCAAAAAAGTAT-TTTTT-AGGAAAATTTGAATGTATCAATTTTTTTTTAAAATAAA
1 TAAAAATTTCAAAAAA-TATATTTTTAAGGAAAA-TTGAAAGTATCAATTTTCCTTGAAAATAAA
* * * * *
15616924 AACTTCAAGAAAATATATTGTTGAGGAAAAGTTGAAAGTGTCAA-TTTTCTTCAAAAT
64 ATCTTCAAAAAAATACATTGTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAG
*
15616981 TAAAAATTTCAAAAAATATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAA
1 TAAAAATTTCAAAAAATATATTTTTAAGGAAAA-TTGAAAGTATCAATTTTCCTTGAAAATAAAA
* * * *
15617046 TTTTCAAAAAAATACATTTTTGAGGGAAAGTTGAAAGTATCAATTTTTCTTGAAAG
65 TCTTCAAAAAAATACATTGTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAG
* * **
15617102 TAAAATTTTCGAAAAGCA-A--TTTAAGGGAAAATTGAAAGTATCAATTTTCCTTGAAAATAGAA
1 TAAAAATTTCAAAAAATATATTTTTAA-GGAAAATTGAAAGTATCAATTTTCCTTGAAAATA-AA
* * * *
15617164 AT-GTC---AAAATGC--T-TTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
64 ATCTTCAAAAAAATACATTGTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT
15617209 GTATAAAAGC
Statistics
Matches: 198, Mismatches: 25, Indels: 18
0.82 0.10 0.07
Matches are distributed among these distances:
112 29 0.15
113 1 0.01
115 6 0.03
118 35 0.18
119 12 0.06
120 22 0.11
121 86 0.43
122 7 0.04
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (120 bp):
TAAAAATTTCAAAAAATATATTTTTAAGGAAAATTGAAAGTATCAATTTTCCTTGAAAATAAAAT
CTTCAAAAAAATACATTGTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAG
Found at i:15620731 original size:17 final size:16
Alignment explanation
Indices: 15620705--15620736 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15620695 TCTCAAATAG
15620705 AAAAAAAAAAAAAAGC
1 AAAAAAAAAAAAAAGC
15620721 AAAACAAAAAAAAAAG
1 AAAA-AAAAAAAAAAG
15620737 GGAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGC
Found at i:15620747 original size:17 final size:16
Alignment explanation
Indices: 15620704--15620748 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 16
15620694 GTCTCAAATA
15620704 GAAAAAAAAAAAAAAG
1 GAAAAAAAAAAAAAAG
*
15620720 CAAAACAAAAAAAAAAGG
1 GAAAA-AAAAAAAAAA-G
15620738 GAAAAGAAAAA
1 GAAAA-AAAAA
15620749 TAAGTGCCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 10 0.42
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAG
Found at i:15621149 original size:33 final size:32
Alignment explanation
Indices: 15621112--15621202 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 32
15621102 TGGGTGAAAG
15621112 AATGAAAGAAAGAAAAATGAGAAAAAA-AATGAA
1 AATGAAAGAAAGAAAAATGAGAAAAAATAA--AA
15621145 AATGAAAGAACAAGAAAAATGA-AAAAAATAAAA
1 AATGAAAG-A-AAGAAAAATGAGAAAAAATAAAA
*
15621178 AATGAAAG-ATG-AAAATGGAGAAAAA
1 AATGAAAGAAAGAAAAAT-GAGAAAAA
15621203 GGAAAACTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
29 5 0.10
30 4 0.08
31 5 0.10
33 18 0.35
34 7 0.13
35 13 0.25
ACGTcount: A:0.71, C:0.01, G:0.18, T:0.10
Consensus pattern (32 bp):
AATGAAAGAAAGAAAAATGAGAAAAAATAAAA
Found at i:15622483 original size:17 final size:17
Alignment explanation
Indices: 15622447--15622509 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
15622437 ATCTGAAAGC
* *
15622447 CTTGCAAATCTATAATT
1 CTTGCGAATCTAGAATT
15622464 CTTGCGAATCT-GAATGT
1 CTTGCGAATCTAGAAT-T
* **
15622481 CTTGTGAATCTCCAATT
1 CTTGCGAATCTAGAATT
15622498 CTTGCGAATCTA
1 CTTGCGAATCTA
15622510 AAAACTTTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
16 3 0.08
17 32 0.84
18 3 0.08
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (17 bp):
CTTGCGAATCTAGAATT
Found at i:15622519 original size:17 final size:18
Alignment explanation
Indices: 15622497--15622627 Score: 60
Period size: 17 Copynumber: 7.7 Consensus size: 18
15622487 AATCTCCAAT
15622497 TCTTGCGAATCTAAAAAC
1 TCTTGCGAATCTAAAAAC
* ** *
15622515 T-TTGCAAATCT-CCAAT
1 TCTTGCGAATCTAAAAAC
*
15622531 TCTTGTGAATCTAAAAAC
1 TCTTGCGAATCTAAAAAC
* * ** *
15622549 T-TTACAAATCT-CCAAT
1 TCTTGCGAATCTAAAAAC
*
15622565 TCTTGTGAATCTAAAAAC
1 TCTTGCGAATCTAAAAAC
* * *
15622583 T-TTACAAATCT-CAAAC
1 TCTTGCGAATCTAAAAAC
* *
15622599 TCTTACGAATCTAAAAGC
1 TCTTGCGAATCTAAAAAC
*
15622617 -CTTGCAAATCT
1 TCTTGCGAATCT
15622628 TCAATTCTTG
Statistics
Matches: 77, Mismatches: 30, Indels: 13
0.64 0.25 0.11
Matches are distributed among these distances:
16 11 0.14
17 56 0.73
18 10 0.13
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (18 bp):
TCTTGCGAATCTAAAAAC
Found at i:15622661 original size:34 final size:34
Alignment explanation
Indices: 15622431--15622675 Score: 226
Period size: 34 Copynumber: 7.2 Consensus size: 34
15622421 TCTTTATTTT
* * * **
15622431 TTGTGAATCTGAAAGCCTTGCAAATCTATAATTC
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
* **
15622465 TTGCGAATCTGAATGTCTTGTG--AATCTCCAATTC
1 TTGTGAATCT-AAAATCTT-TGCAAATCTCCAATTC
* *
15622499 TTGCGAATCTAAAAACTTTGCAAATCTCCAATTC
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
* *
15622533 TTGTGAATCTAAAAACTTTACAAATCTCCAATTC
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
* * * *
15622567 TTGTGAATCTAAAAACTTTACAAATCTCAAACTC
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
** * * *
15622601 TTACGAATCTAAAAGCCTTGCAAATCTTCAATTC
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
* * **
15622635 TTGTGAATCTGAAATTTTTGTGAATCTCCAATT-
1 TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
15622668 TTGTGAAT
1 TTGTGAAT
15622676 TTGAAATTCT
Statistics
Matches: 175, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
32 2 0.01
33 13 0.07
34 155 0.89
35 3 0.02
36 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (34 bp):
TTGTGAATCTAAAATCTTTGCAAATCTCCAATTC
Found at i:15622671 original size:16 final size:16
Alignment explanation
Indices: 15622623--15622675 Score: 61
Period size: 17 Copynumber: 3.2 Consensus size: 16
15622613 AAGCCTTGCA
*
15622623 AATCTTCAATTCTTGTG
1 AATCTCCAATT-TTGTG
**
15622640 AATCTGAAATTTTTGTG
1 AATCTCCAA-TTTTGTG
15622657 AATCTCCAATTTTGTG
1 AATCTCCAATTTTGTG
15622673 AAT
1 AAT
15622676 TTGAAATTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 10 0.32
17 19 0.61
18 2 0.06
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.45
Consensus pattern (16 bp):
AATCTCCAATTTTGTG
Found at i:15622694 original size:17 final size:17
Alignment explanation
Indices: 15622630--15622692 Score: 74
Period size: 17 Copynumber: 3.8 Consensus size: 17
15622620 GCAAATCTTC
15622630 AATTCTTGTGAATCTGA
1 AATTCTTGTGAATCTGA
* **
15622647 AATTTTTGTGAATCTCC
1 AATTCTTGTGAATCTGA
*
15622664 AATT-TTGTGAATTTGA
1 AATTCTTGTGAATCTGA
*
15622680 AATTCTTATGAAT
1 AATTCTTGTGAAT
15622693 TTTGAATCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.34
17 25 0.66
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (17 bp):
AATTCTTGTGAATCTGA
Found at i:15623047 original size:85 final size:84
Alignment explanation
Indices: 15622867--15623111 Score: 253
Period size: 85 Copynumber: 2.9 Consensus size: 84
15622857 AATTATTCTA
* * * * * *
15622867 AAGTCAGACTTTGGTTTCATCCAGATCATTTTATTTTAGATTTC-AGCTTATGCTAGATCTTTCT
1 AAGTCAGAC-TTAGTTTCATTCAGGTCATTTCATTTTGGATTTCGA-CTTATGCTAGATCCTTCT
* *
15622931 TTGG-TTCAGTCCAGGTTATTT
64 TTGGCTT-AGTCCAAGTTAATT
* ** *
15622952 AACTTTGACTTCAGTTTCATTCAGGTCATTTCGTTTTGGATTTCGACTTATGCTAGATCCTTCTT
1 AAGTCAGACTT-AGTTTCATTCAGGTCATTTCATTTTGGATTTCGACTTATGCTAGATCCTTCTT
*
15623017 TGGCTTAGTTCAAGTTAATT
65 TGGCTTAGTCCAAGTTAATT
* * * * *
15623037 AAGTCAGACTTTGGTTCAGTCTAGGTCATTTCATTTTGAATTTTGACTTATG-TCAGATCCTTCT
1 AAGTCAGACTTAGTTTCATTC-AGGTCATTTCATTTTGGATTTCGACTTATGCT-AGATCCTTCT
15623101 TTGGCTTAGTC
64 TTGGCTTAGTC
15623112 TAAATTGTTC
Statistics
Matches: 132, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
84 10 0.08
85 119 0.90
86 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (84 bp):
AAGTCAGACTTAGTTTCATTCAGGTCATTTCATTTTGGATTTCGACTTATGCTAGATCCTTCTTT
GGCTTAGTCCAAGTTAATT
Found at i:15623129 original size:85 final size:83
Alignment explanation
Indices: 15622974--15623132 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 83
15622964 AGTTTCATTC
* * *
15622974 AGGTCATTTCGTTTTGGATTTCGACTTATGCTAGATCCTTCTTTGGCTTAGTTCAAGTTAATTAA
1 AGGTCATTTCATTTTGAATTTCGACTTATGCTAGATCCTTCTTTGGCTTAGTTAAAGTTAATT-A
15623039 GTCAGACTTTGGTTCAGTCT
65 -TCAGACTTTGGTTCAGTCT
* *
15623059 AGGTCATTTCATTTTGAATTTTGACTTATG-TCAGATCCTTCTTTGGCTTAGTCTAAATTGTTCA
1 AGGTCATTTCATTTTGAATTTCGACTTATGCT-AGATCCTTCTTTGGCTTAGT-TAAA--GTTAA
15623123 TT-TCAGACTT
62 TTATCAGACTT
15623133 CAGTTCGATC
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
84 1 0.02
85 55 0.85
86 3 0.05
88 6 0.09
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (83 bp):
AGGTCATTTCATTTTGAATTTCGACTTATGCTAGATCCTTCTTTGGCTTAGTTAAAGTTAATTAT
CAGACTTTGGTTCAGTCT
Found at i:15623150 original size:85 final size:83
Alignment explanation
Indices: 15622958--15623150 Score: 196
Period size: 85 Copynumber: 2.3 Consensus size: 83
15622948 ATTTAACTTT
* * * *
15622958 GACTTCAGTTTCATTC-AGGTCATTTCGTTTTGGATTTCGACTTATGCTAGATCCTTCTTTGGCT
1 GACTTCAG-TTCAGTCTAAGTCATTTCATTTTGAATTTCGACTTATGCTAGATCCTTCTTTGGCT
*
15623022 TAGTTCAAGTTAATTAAGTCA
65 TAGTTAAAGTTAATT-A-TCA
** * *
15623043 GACTTTGGTTCAGTCTAGGTCATTTCATTTTGAATTTTGACTTATG-TCAGATCCTTCTTTGGCT
1 GACTTCAGTTCAGTCTAAGTCATTTCATTTTGAATTTCGACTTATGCT-AGATCCTTCTTTGGCT
*
15623107 TAGTCTAAATTGTTCATT-TCA
65 TAGT-TAAA--GTTAATTATCA
15623128 GACTTCAGTTC-GATCTAAGTCAT
1 GACTTCAGTTCAG-TCTAAGTCAT
15623151 CATTTTTGGA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
84 8 0.09
85 74 0.81
86 3 0.03
88 6 0.07
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (83 bp):
GACTTCAGTTCAGTCTAAGTCATTTCATTTTGAATTTCGACTTATGCTAGATCCTTCTTTGGCTT
AGTTAAAGTTAATTATCA
Found at i:15624742 original size:60 final size:58
Alignment explanation
Indices: 15624598--15624951 Score: 394
Period size: 60 Copynumber: 5.9 Consensus size: 58
15624588 TCCTTAAAGC
** *
15624598 ATAAAAATTTCAAAAAAGTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAA
1 ATAAAAATTTCAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAA
* * * * *
15624657 ATTAAAACTTCAAGAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAGTTTTCTTCAAAA
1 ATAAAAATTTCAA-AAAA-ACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTT-GAAA
* * *
15624718 ACAAAAATTTCAAAAAATATATTTTTGA-GAAAAGATTGAAAGTATCAATTTTTCTTGAAA
1 ATAAAAATTTCAAAAAA-ACATTTTTAAGGAAAAG-TTGAAAGTATCAA-TTTTCTTGAAA
* *
15624778 ATAAAAATTTCAAAAAATACATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTTGAAA
1 ATAAAAATTTCAAAAAA-ACATTTTTAAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAA
* * *
15624838 ATAAAATTTTC-AAAAAGCA-TTTTAAGGGGAAAA--TGAAAGTATCAATTTTCTTTGAAC
1 ATAAAAATTTCAAAAAAACATTTTTAA--GGAAAAGTTGAAAGTATCAATTTTC-TTGAAA
*
15624895 ATAAAATTTTCAAAAGAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 ATAAAAATTTCAAAA-AAACATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCTTG
15624952 TATAAAAACA
Statistics
Matches: 258, Mismatches: 21, Indels: 31
0.83 0.07 0.10
Matches are distributed among these distances:
56 1 0.00
57 37 0.14
58 11 0.04
59 35 0.14
60 117 0.45
61 57 0.22
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
ATAAAAATTTCAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTGAAA
Found at i:15625660 original size:8 final size:8
Alignment explanation
Indices: 15625649--15625696 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
15625639 TATTATTATA
15625649 TTTTTTCT
1 TTTTTTCT
15625657 TTTTTTCT
1 TTTTTTCT
*
15625665 TATTTT-T
1 TTTTTTCT
*
15625672 TTCTTTC-
1 TTTTTTCT
15625679 -TTTTTC-
1 TTTTTTCT
15625685 TTTTTTCT
1 TTTTTTCT
15625693 TTTT
1 TTTT
15625697 ATTTTCTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.15
7 11 0.33
8 17 0.52
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:15625661 original size:7 final size:7
Alignment explanation
Indices: 15625649--15625696 Score: 55
Period size: 7 Copynumber: 6.7 Consensus size: 7
15625639 TATTATTATA
15625649 TTTTTTC
1 TTTTTTC
15625656 TTTTTTTC
1 -TTTTTTC
15625664 TTATTTT-
1 TT-TTTTC
15625671 TTTCTTTC
1 TTT-TTTC
15625679 -TTTTTC
1 TTTTTTC
15625685 TTTTTTC
1 TTTTTTC
15625692 TTTTT
1 TTTTT
15625697 ATTTTCTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 5 0.14
7 20 0.56
8 11 0.31
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTTC
Found at i:15625672 original size:11 final size:10
Alignment explanation
Indices: 15625656--15625690 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15625646 ATATTTTTTC
15625656 TTTTTTTCTT
1 TTTTTTTCTT
15625666 ATTTTTTTCTT
1 -TTTTTTTCTT
*
15625677 TCTTTTTCTT
1 TTTTTTTCTT
15625687 TTTT
1 TTTT
15625691 CTTTTTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:15625683 original size:13 final size:13
Alignment explanation
Indices: 15625650--15625701 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
15625640 ATTATTATAT
15625650 TTTTTCTTTTTTTC
1 TTTTTC-TTTTTTC
*
15625664 TTATTTTTTTCTTTC
1 TT-TTTCTTT-TTTC
15625679 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
*
15625692 TTTTTATTTT
1 TTTTTCTTTT
15625702 CTGTTATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 13 0.39
14 11 0.33
15 9 0.27
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:15625701 original size:11 final size:11
Alignment explanation
Indices: 15625649--15625703 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
15625639 TATTATTATA
15625649 TTTTTTCTTTT
1 TTTTTTCTTTT
* *
15625660 TTTCTTATTTT
1 TTTTTTCTTTT
15625671 TTTCTTTCTTTTT
1 TTT-TTTC-TTTT
15625684 CTTTTTTCTTTT
1 -TTTTTTCTTTT
*
15625696 TATTTTCT
1 TTTTTTCT
15625704 GTTATAATCG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 19 0.53
12 6 0.17
13 8 0.22
14 3 0.08
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:15625701 original size:19 final size:18
Alignment explanation
Indices: 15625647--15625701 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
15625637 ATTATTATTA
*
15625647 TATTTTTTCTTTTTTTCT
1 TATTTTTTCTTTTTTTTT
*
15625665 TATTTTTT-TCTTTCTTTT
1 TATTTTTTCT-TTTTTTTT
* *
15625683 TCTTTTTTCTTTTTATTT
1 TATTTTTTCTTTTTTTTT
15625701 T
1 T
15625702 CTGTTATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (18 bp):
TATTTTTTCTTTTTTTTT
Found at i:15625702 original size:18 final size:17
Alignment explanation
Indices: 15625649--15625703 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
15625639 TATTATTATA
*
15625649 TTTTTTCTTTTTTTCTTAT
1 TTTTTTCTTTTTTT-TT-C
*
15625668 TTTTTTCTTTCTTTTTC
1 TTTTTTCTTTTTTTTTC
15625685 TTTTTTCTTTTTATTTTC
1 TTTTTTCTTTTT-TTTTC
15625703 T
1 T
15625704 GTTATAATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.34
18 8 0.25
19 13 0.41
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTTC
Found at i:15626745 original size:12 final size:12
Alignment explanation
Indices: 15626715--15626755 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
15626705 AAATTTTTAT
*
15626715 TAAAATAAATAA
1 TAAAATATATAA
15626727 -AAAATATATAA
1 TAAAATATATAA
*
15626738 TGAAATATATAA
1 TAAAATATATAA
15626750 TAAAAT
1 TAAAAT
15626756 TTTTTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
TAAAATATATAA
Found at i:15630996 original size:15 final size:16
Alignment explanation
Indices: 15630976--15631010 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15630966 TTATTAATTT
*
15630976 ATTTTATTAAATT-AA
1 ATTTTATCAAATTCAA
15630991 ATTTTATCAAATTCAA
1 ATTTTATCAAATTCAA
15631007 ATTT
1 ATTT
15631011 GAGTGAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTATCAAATTCAA
Found at i:15634618 original size:16 final size:16
Alignment explanation
Indices: 15634597--15634632 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
15634587 CAATGTAAAT
15634597 TTTTTTTAATT-TTATA
1 TTTTTTTAATTATTA-A
15634613 TTTTTTTAATTATTAA
1 TTTTTTTAATTATTAA
15634629 TTTT
1 TTTT
15634633 AATAGATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTTTAATTATTAA
Found at i:15635613 original size:20 final size:18
Alignment explanation
Indices: 15635589--15635647 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 18
15635579 GTATAAGTAT
*
15635589 AAAATATGAAATATAATAA
1 AAAATATGAAATACAA-AA
*
15635608 ACAAATACGAAATACAAAA
1 A-AAATATGAAATACAAAA
**
15635627 AAAATATGCCATA-AAAA
1 AAAATATGAAATACAAAA
15635644 AAAA
1 AAAA
15635648 CAAAACATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.24
18 9 0.26
19 4 0.12
20 13 0.38
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATATGAAATACAAAA
Found at i:15636083 original size:21 final size:21
Alignment explanation
Indices: 15636040--15636086 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
15636030 CACGAAGAAG
***
15636040 AAAAAAAAAGAGTCAGTTTAA
1 AAAAAAAAAGAGTCAGAACAA
15636061 AAAAAAAAAGAGTCAGAACAA
1 AAAAAAAAAGAGTCAGAACAA
15636082 AAAAA
1 AAAAA
15636087 TATATAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.70, C:0.06, G:0.13, T:0.11
Consensus pattern (21 bp):
AAAAAAAAAGAGTCAGAACAA
Found at i:15638266 original size:11 final size:12
Alignment explanation
Indices: 15638236--15638266 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
15638226 TCTCAAAACT
15638236 AAAAAAAACTAA
1 AAAAAAAACTAA
15638248 AAAAAAAAC-AA
1 AAAAAAAACTAA
15638259 AAAAAAAA
1 AAAAAAAA
15638267 TATTTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAACTAA
Found at i:15655487 original size:14 final size:14
Alignment explanation
Indices: 15655470--15655504 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
15655460 TATTTTGCTT
15655470 AAAAAAAGAG-AACA
1 AAAAAAAGAGTAA-A
15655484 AAAAAAAGAGTAAA
1 AAAAAAAGAGTAAA
15655498 AAAAAAA
1 AAAAAAA
15655505 ATAAAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.83, C:0.03, G:0.11, T:0.03
Consensus pattern (14 bp):
AAAAAAAGAGTAAA
Done.