Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 48 of 228
Found at i:14385918 original size:12 final size:12
Alignment explanation
Indices: 14385901--14385938 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14385891 GTTGATAAAG
14385901 AAAATAAAATAA
1 AAAATAAAATAA
14385913 AAAAT-AAATAA
1 AAAATAAAATAA
14385924 GAAAATAAAATAA
1 -AAAATAAAATAA
14385937 AA
1 AA
14385939 TTAGAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
12 12 0.50
13 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:14389984 original size:25 final size:25
Alignment explanation
Indices: 14389932--14389984 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
14389922 TTAGTGTAGA
* * *
14389932 TTAAAAGATTTGAAGAAATACTTTC
1 TTAAAAGATTTAAAGAAAAAATTTC
14389957 TTAAAA-ATTTAAAGAAAAAATTTAC
1 TTAAAAGATTTAAAGAAAAAATTT-C
14389982 TTA
1 TTA
14389985 TTTAGTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.36
Consensus pattern (25 bp):
TTAAAAGATTTAAAGAAAAAATTTC
Found at i:14399602 original size:13 final size:13
Alignment explanation
Indices: 14399584--14399649 Score: 60
Period size: 13 Copynumber: 5.1 Consensus size: 13
14399574 AGTTCTTCAT
14399584 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
14399597 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* ** *
14399610 TACCGTGGAAAAG
1 TGCTTTTGAAAAG
** *
14399623 TGCCGTGGAAAAG
1 TGCTTTTGAAAAG
*
14399636 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
14399649 T
1 T
14399650 TTAGTTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:14399646 original size:26 final size:26
Alignment explanation
Indices: 14399586--14399649 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 26
14399576 TTCTTCATTG
** *
14399586 CTTTTGAAAAGTGCTTTTGAAAAGTA
1 CTTTTGAAAAGTGCCGTGGAAAAGTA
** *
14399612 CCGTGGAAAAGTGCCGTGGAAAAGTA
1 CTTTTGAAAAGTGCCGTGGAAAAGTA
14399638 CTTTTGAAAAGT
1 CTTTTGAAAAGT
14399650 TTAGTTTAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (26 bp):
CTTTTGAAAAGTGCCGTGGAAAAGTA
Found at i:14400159 original size:13 final size:13
Alignment explanation
Indices: 14400143--14400167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14400133 TTCAGAAGTG
14400143 CTTTTGAAAAGCA
1 CTTTTGAAAAGCA
14400156 CTTTTGAAAAGC
1 CTTTTGAAAAGC
14400168 GAAAAATTTC
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CTTTTGAAAAGCA
Found at i:14405655 original size:36 final size:37
Alignment explanation
Indices: 14405593--14405662 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
14405583 TTCGGAGCCA
*
14405593 TTGGTGTGTTTCGAAATGGATTAGCTCTGATGAGTAT
1 TTGGTGTGCTTCGAAATGGATTAGCTCTGATGAGTAT
* *
14405630 TTGGTGTGCTTC-AGATGGATTAGCTCTTATGAG
1 TTGGTGTGCTTCGAAATGGATTAGCTCTGATGAG
14405663 CTTCTGGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 19 0.63
37 11 0.37
ACGTcount: A:0.20, C:0.10, G:0.30, T:0.40
Consensus pattern (37 bp):
TTGGTGTGCTTCGAAATGGATTAGCTCTGATGAGTAT
Found at i:14405671 original size:36 final size:37
Alignment explanation
Indices: 14405594--14405673 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
14405584 TCGGAGCCAT
* *
14405594 TGGTGTGTTTCGAAATGGATTAGCTCTGATGAGTATT
1 TGGTGTGCTTCGAAATGGATTAGCTCTGATGAGTATC
* *
14405631 TGGTGTGCTTC-AGATGGATTAGCTCTTATGAGCT-TC
1 TGGTGTGCTTCGAAATGGATTAGCTCTGATGAG-TATC
14405667 TGGTGTG
1 TGGTGTG
14405674 TTTTGGTTGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 27 0.71
37 11 0.29
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.40
Consensus pattern (37 bp):
TGGTGTGCTTCGAAATGGATTAGCTCTGATGAGTATC
Found at i:14406842 original size:4 final size:4
Alignment explanation
Indices: 14406833--14407035 Score: 385
Period size: 4 Copynumber: 51.5 Consensus size: 4
14406823 ATAGGGACGT
14406833 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14406881 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-A TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14406928 --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14406974 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14407022 TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TG
14407036 AATGGTTTAT
Statistics
Matches: 196, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.01
3 3 0.02
4 191 0.97
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:14409065 original size:27 final size:27
Alignment explanation
Indices: 14409035--14409086 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
14409025 AACAGCTCAC
*
14409035 ATTTTATTTCAAATATCTATATCCAAT
1 ATTTCATTTCAAATATCTATATCCAAT
* *
14409062 ATTTCATTTCATATATCTATTTCCA
1 ATTTCATTTCAAATATCTATATCCA
14409087 TATAACCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTCATTTCAAATATCTATATCCAAT
Found at i:14409110 original size:40 final size:40
Alignment explanation
Indices: 14409066--14409183 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 40
14409056 TCCAATATTT
*
14409066 CATTTCATATATCTATTTCCATATAACCAATTCATATAAC
1 CATTTCATATATCTATTTCCATATAACCGATTCATATAAC
* * *
14409106 CATTTCATATATCAATTTCCATGT-ACTTGATTCATATAAC
1 CATTTCATATATCTATTTCCATATAAC-CGATTCATATAAC
14409146 CATTTCATATATCTATTTCCATATAACCGATTCATATA
1 CATTTCATATATCTATTTCCATATAACCGATTCATATA
14409184 TCTACTTCCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 65 0.94
41 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.42
Consensus pattern (40 bp):
CATTTCATATATCTATTTCCATATAACCGATTCATATAAC
Found at i:14409151 original size:67 final size:68
Alignment explanation
Indices: 14409069--14409250 Score: 167
Period size: 67 Copynumber: 2.7 Consensus size: 68
14409059 AATATTTCAT
* * * *
14409069 TTCATATATCTATTTCCATATAACCAATT-CATATAACC-ATTTCATATATCAATTTCCATGT-A
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGA-TTCATATATCAACTTCCATATAA
*
14409131 CTTGA
65 C-CGA
* * * *
14409136 TTCATATAACCATTT-CATATATCTATTTCCATATAACCGATTCATATATCTACTTCCATATAAC
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATATCAACTTCCATATAAC
14409200 CGA
66 CGA
* * * * * * *
14409203 TTTATATAACCATTT-CATTTATCTATTTTCATATAACTGATTCATATA
1 TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATA
14409251 ATCATTTCAT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
66 10 0.10
67 86 0.87
68 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (68 bp):
TTCATATAACCATTTCCATATAACCAATTCCATATAACCGATTCATATATCAACTTCCATATAAC
CGA
Found at i:14409210 original size:40 final size:40
Alignment explanation
Indices: 14409165--14409541 Score: 490
Period size: 40 Copynumber: 9.5 Consensus size: 40
14409155 TATCTATTTC
*
14409165 CATATAACCGA-TTCATATATCTACTTCCATATAACCGATT
1 CATATAACC-ATTTCATATATCTATTTCCATATAACCGATT
* * * *
14409205 TATATAACCATTTCATTTATCTATTTTCATATAACTGATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* * * *
14409245 CATATAATCATTTCATATATCTACTTCCATATAACTGAAT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* *
14409285 CATATAACCATTTCATTTATCTATTTCCATATAAACGATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* * *
14409325 CATATAACCATTTTATATATCTACTTCCATATAACCGGTT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* **
14409365 CATATAACCATTTCATTTATCTATTTCCATATAATTGATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* *
14409405 CATATAACCATTTCATTTATCTATTTCCATATAATCGATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* * **
14409445 CATATAACCATTTCTTATATTTA-TT-CATATAATTGATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
* * *
14409483 CATATAACCATTTCATTTATCTATTTCCATATAATCAATT
1 CATATAACCATTTCATATATCTATTTCCATATAACCGATT
14409523 CATATAACCATTTCATATA
1 CATATAACCATTTCATATA
14409542 CTACTCTTCA
Statistics
Matches: 295, Mismatches: 39, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 32 0.11
39 5 0.02
40 258 0.87
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (40 bp):
CATATAACCATTTCATATATCTATTTCCATATAACCGATT
Found at i:14409244 original size:107 final size:107
Alignment explanation
Indices: 14409069--14409528 Score: 352
Period size: 120 Copynumber: 4.1 Consensus size: 107
14409059 AATATTTCAT
* *
14409069 TTCATATATCTATTTCCATATAACCAATTCATATAACCATTTCATATATCAATTTCCATGTACTT
1 TTCATATATCTACTTCCATATAACCAATTCATATAACCATTTCATATATCAATTTCCATATACTT
*
14409134 GATTCATATAACCATTTCATATATCTATTTCCATATAACCGA
66 GATTCATATAACCATTTCATATATCTACTTCCATATAACCGA
* * * * *
14409176 TTCATATATCTACTTCCATATAACCGATTTATATAACCATTTCATTTATCTATTTTCATATAAC-
1 TTCATATATCTACTTCCATATAACCAATTCATATAACCATTTCATATATCAATTTCCATAT-ACT
* *
14409240 TGATTCATATAATCATTTCATATATCTACTTCCATATAACTGAATCA
65 TGATTCATATAACCATTTCATATATCTACTTCCATATAACCG----A
* * * * * *
14409287 TATAACCATTTCATTTATCTATTTCCATATAAACGATTCATATAACCATTTTATATATCTACTTC
1 T-T---CA--T-A--TATCTACTTCCATATAACCAATTCATATAACCATTTCATATATCAATTTC
* * * * **
14409352 CATATAAC-CGGTTCATATAACCATTTCATTTATCTATTTCCATATAATTGA
57 CATAT-ACTTGATTCATATAACCATTTCATATATCTACTTCCATATAACCGA
* * * **
14409403 TTCATATAACCATTTCATTTATCTATTTCCATATAATCGATTCATATAACCATTTCTTATATTTA
1 TTCATAT----A--TC---TA-C---TTCCATATAACCAATTCATATAACCATTTCATATATCAA
* * * * *
14409468 -TT-CATATAATTGATTCATATAACCATTTCATTTATCTATTTCCATATAATCAA
53 TTTCCATATACTTGATTCATATAACCATTTCATATATCTACTTCCATATAACCGA
14409521 TTCATATA
1 TTCATATA
14409529 ACCATTTCAT
Statistics
Matches: 292, Mismatches: 33, Indels: 49
0.78 0.09 0.13
Matches are distributed among these distances:
107 94 0.32
108 2 0.01
109 1 0.00
110 1 0.00
111 3 0.01
112 3 0.01
113 2 0.01
114 1 0.00
115 3 0.01
116 4 0.01
117 2 0.01
118 52 0.18
119 2 0.01
120 122 0.42
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.44
Consensus pattern (107 bp):
TTCATATATCTACTTCCATATAACCAATTCATATAACCATTTCATATATCAATTTCCATATACTT
GATTCATATAACCATTTCATATATCTACTTCCATATAACCGA
Found at i:14409279 original size:67 final size:67
Alignment explanation
Indices: 14409098--14409250 Score: 202
Period size: 67 Copynumber: 2.3 Consensus size: 67
14409088 ATAACCAATT
* * * *
14409098 CATATAACC-ATTTCATATATCAATTTCCATGT-ACTTGATTCATATAACCATTTCATATATCTA
1 CATATAACCGA-TTCATATATCTACTTCCATATAAC-CGATTCATATAACCATTTCATATATCTA
14409161 TTTC
64 TTTC
* *
14409165 CATATAACCGATTCATATATCTACTTCCATATAACCGATTTATATAACCATTTCATTTATCTATT
1 CATATAACCGATTCATATATCTACTTCCATATAACCGATTCATATAACCATTTCATATATCTATT
*
14409230 TT
66 TC
*
14409232 CATATAACTGATTCATATA
1 CATATAACCGATTCATATA
14409251 ATCATTTCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
67 73 0.96
68 3 0.04
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.42
Consensus pattern (67 bp):
CATATAACCGATTCATATATCTACTTCCATATAACCGATTCATATAACCATTTCATATATCTATT
TC
Found at i:14410030 original size:27 final size:28
Alignment explanation
Indices: 14409987--14410046 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
14409977 AAACAAACTC
*
14409987 AATCACAACCTACATAAATAATT-ATTA
1 AATCACAACATACATAAATAATTAATTA
* *
14410014 AATCACAA-ATACAATAACTAATTAATTT
1 AATCACAACATAC-ATAAATAATTAATTA
14410042 AATCA
1 AATCA
14410047 ATTTACAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.11
27 17 0.61
28 8 0.29
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (28 bp):
AATCACAACATACATAAATAATTAATTA
Found at i:14412765 original size:16 final size:16
Alignment explanation
Indices: 14412746--14412777 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14412736 ATTCATAATA
14412746 TAATTAAATTTAATTT
1 TAATTAAATTTAATTT
*
14412762 TAATTCAATTTAATTT
1 TAATTAAATTTAATTT
14412778 GGGTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTAAATTTAATTT
Found at i:14418653 original size:16 final size:17
Alignment explanation
Indices: 14418634--14418669 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14418624 AATGCTTGTG
14418634 AAAGAAAA-AGAAAAAA
1 AAAGAAAAGAGAAAAAA
*
14418650 AAAGAAAAGTGAAAAAA
1 AAAGAAAAGAGAAAAAA
14418667 AAA
1 AAA
14418670 AGAGCATATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAGAAAAAA
Found at i:14419275 original size:10 final size:10
Alignment explanation
Indices: 14419226--14419277 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
14419216 ATTAACATGT
*
14419226 TTAATTTTAA
1 TTAATTTTGA
14419236 TTAATTTT-A
1 TTAATTTTGA
14419245 TATCAAATTTTGA
1 T-T--AATTTTGA
14419258 TTAATTTTGA
1 TTAATTTTGA
*
14419268 TTATTTTTGA
1 TTAATTTTGA
14419278 CAGATTTGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
9 2 0.05
10 26 0.70
12 7 0.19
13 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (10 bp):
TTAATTTTGA
Found at i:14420700 original size:17 final size:17
Alignment explanation
Indices: 14420678--14420711 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14420668 ATTCTAAGTT
14420678 AAGAAATGTAATTAATC
1 AAGAAATGTAATTAATC
14420695 AAGAAATGTAATTAATC
1 AAGAAATGTAATTAATC
14420712 TAACACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.29
Consensus pattern (17 bp):
AAGAAATGTAATTAATC
Found at i:14422861 original size:14 final size:15
Alignment explanation
Indices: 14422839--14422876 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
14422829 TTATTATTGT
*
14422839 TTATAATATTTAT-A
1 TTATGATATTTATAA
14422853 TTATGATATTTATAA
1 TTATGATATTTATAA
*
14422868 TTGTGATAT
1 TTATGATAT
14422877 ATATGTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (15 bp):
TTATGATATTTATAA
Found at i:14428172 original size:38 final size:38
Alignment explanation
Indices: 14428117--14428200 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
14428107 TTCGATACAG
*
14428117 CATGGTGTGTAGGGATGGTTGGGTTGATTTAATCCCCA
1 CATGGTGTGTAGAGATGGTTGGGTTGATTTAATCCCCA
14428155 CATGGTGTGTAGAGATGGTTGGGTTGATTTAATCCCCA
1 CATGGTGTGTAGAGATGGTTGGGTTGATTTAATCCCCA
14428193 CATGGTGT
1 CATGGTGT
14428201 AGAGGCTGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.35
Consensus pattern (38 bp):
CATGGTGTGTAGAGATGGTTGGGTTGATTTAATCCCCA
Found at i:14428214 original size:36 final size:37
Alignment explanation
Indices: 14428123--14428214 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 37
14428113 ACAGCATGGT
14428123 GTGTAG-GGATGGTTGGGTTGATTTAATCCCCACATG
1 GTGTAGAGGATGGTTGGGTTGATTTAATCCCCACATG
14428159 GTGT-GTAGAGATGGTTGGGTTGATTTAATCCCCACATG
1 GTGTAG-AG-GATGGTTGGGTTGATTTAATCCCCACATG
*
14428197 GTGTAGAGGCTGG-TGGGT
1 GTGTAGAGGATGGTTGGGT
14428215 AGGATTCTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
35 1 0.02
36 9 0.18
37 5 0.10
38 35 0.69
39 1 0.02
ACGTcount: A:0.18, C:0.12, G:0.37, T:0.33
Consensus pattern (37 bp):
GTGTAGAGGATGGTTGGGTTGATTTAATCCCCACATG
Found at i:14432621 original size:31 final size:31
Alignment explanation
Indices: 14432586--14432690 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
14432576 TTTAATAAAC
*
14432586 TTAATTTAATATTTATCTTCATAGTATTTTA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
* * * * * **
14432617 TTAATATAGTATTAAT-GTGAGA-TATTAAA
1 TTAATTTAATATTTATCTTGATAGTATTTTA
* *
14432646 TTTGATTTAATATTTATCTTGATAGTGTTTTA
1 -TTAATTTAATATTTATCTTGATAGTATTTTA
14432678 TTAATTTAATATT
1 TTAATTTAATATT
14432691 AATATGAGTA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
29 5 0.09
30 15 0.28
31 29 0.55
32 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTTGATAGTATTTTA
Found at i:14440013 original size:23 final size:23
Alignment explanation
Indices: 14439983--14440033 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
14439973 CTACATCCCT
14439983 AATCCCTTAGAACCAAATCGTGA
1 AATCCCTTAGAACCAAATCGTGA
*
14440006 AATCCCTTAGAACCCAATCGTGA
1 AATCCCTTAGAACCAAATCGTGA
14440029 AATCC
1 AATCC
14440034 TTAATCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (23 bp):
AATCCCTTAGAACCAAATCGTGA
Found at i:14441260 original size:16 final size:16
Alignment explanation
Indices: 14441239--14441276 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14441229 TATGATTAGT
*
14441239 CTATACACCATTCACC
1 CTATACACCATCCACC
*
14441255 CTATACACCATCCACG
1 CTATACACCATCCACC
14441271 CTATAC
1 CTATAC
14441277 CAGCCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.42, G:0.03, T:0.24
Consensus pattern (16 bp):
CTATACACCATCCACC
Found at i:14450887 original size:36 final size:37
Alignment explanation
Indices: 14450840--14450923 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 37
14450830 ACAATTGAAC
* * * * *
14450840 TTATAAGTGATTCGGCCTATTGATGTATTTGTAATA-
1 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
14450876 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
1 TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
*
14450913 TTAAAAGTGAT
1 TTATAAGTGAT
14450924 AATTATATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.35, C:0.06, G:0.18, T:0.42
Consensus pattern (37 bp):
TTATAAGTGATTCAGCATAATGATATAGTTGTAATAT
Found at i:14464168 original size:22 final size:22
Alignment explanation
Indices: 14464137--14464265 Score: 109
Period size: 22 Copynumber: 5.5 Consensus size: 22
14464127 AAATGTGGAT
*
14464137 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
*
14464159 TTAAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
* *
14464181 TTGAGAGGAA-ATT-GAAATTAAA
1 TTGAGA-GAATTTTGGAAA-GAAA
*
14464203 TATGGATATAAGAGAATTTTGGAAGGAAA
1 T-T-G-----AGAGAATTTTGGAAAGAAA
14464232 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
14464254 TTGAGAGGAATT
1 TTGAGA-GAATT
14464266 GAGAGGAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
21 4 0.05
22 55 0.64
23 9 0.10
24 1 0.01
27 1 0.01
28 4 0.05
29 9 0.10
30 3 0.03
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.28
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:14464190 original size:73 final size:73
Alignment explanation
Indices: 14464113--14464267 Score: 258
Period size: 73 Copynumber: 2.1 Consensus size: 73
14464103 ATTTTAAAAA
* * *
14464113 AGGAAATTGAAATCAAATGTGGATTTGAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
1 AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
14464178 AAATTGAG
66 AAATTGAG
* *
14464186 AGGAAATTGAAATTAAATATGGATATAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAAG
1 AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
14464251 AAATTGAG
66 AAATTGAG
14464259 AGG-AATTGA
1 AGGAAATTGA
14464268 GAGGAAATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 6 0.08
73 71 0.92
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.27
Consensus pattern (73 bp):
AGGAAATTGAAATCAAATATGGATATAAGAGAATTTTGGAAGGAAATTAAGAGAATTTTGGAAAG
AAATTGAG
Found at i:14464282 original size:12 final size:11
Alignment explanation
Indices: 14464250--14464282 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
14464240 ATTTTGGAAA
14464250 GAAATTGAGAG
1 GAAATTGAGAG
14464261 G-AATTGAGAG
1 GAAATTGAGAG
14464271 GAAATATGAGAG
1 GAAAT-TGAGAG
14464283 AGGATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 4 0.20
12 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.18
Consensus pattern (11 bp):
GAAATTGAGAG
Found at i:14465540 original size:32 final size:32
Alignment explanation
Indices: 14465499--14465563 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
14465489 GACACCTATG
14465499 TTTCCTATTTTGTTTCAAT-TCTTTACCATATA
1 TTTCCTATTTTGTTTCAATATC-TTACCATATA
14465531 TTTCCTATTTTGTTTCAATATCTTACCATATA
1 TTTCCTATTTTGTTTCAATATCTTACCATATA
14465563 T
1 T
14465564 GTATGTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.03, T:0.55
Consensus pattern (32 bp):
TTTCCTATTTTGTTTCAATATCTTACCATATA
Found at i:14467664 original size:34 final size:35
Alignment explanation
Indices: 14467604--14467673 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 35
14467594 AAGGAAGGAA
* *
14467604 TTGATATATCTGTTTGCAGTTTTTGTATTTCATGT
1 TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
*
14467639 TTGAT-TATCTGTTTGTA-TTAGTTGTATTGCATGT
1 TTGATATATCTGTTTGCAGTT-GTTGTATTGCATGT
14467673 T
1 T
14467674 AGAAGGGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 24 0.77
35 5 0.16
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.57
Consensus pattern (35 bp):
TTGATATATCTGTTTGCAGTTGTTGTATTGCATGT
Found at i:14470699 original size:174 final size:174
Alignment explanation
Indices: 14470305--14470796 Score: 738
Period size: 174 Copynumber: 2.8 Consensus size: 174
14470295 TAGATATTAC
*
14470305 AAGACAGCTAAAACAAAGTAATAAATCAACAAAGAAACTGAATTTGAACAAATTTTGTTGCTCAG
1 AAGACAACTAAAACAAAGTAATAAATCAACAAAGAAA-TGAATTTGAACAAATTTTGTTGCTCAG
* *
14470370 GTAACCGCTCAGATCGACATGGTTGTCGATGTTTCATTAAATTTTCATAAATTCTAATATAATCA
65 GTAACCGCTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCA
14470435 TCACAGCAACAAAACCACAGATTCACATACAATAAAATGTATCAT
130 TCACAGCAACAAAACCACAGATTCACATACAATAAAATGTATCAT
* *
14470480 AAGACAACTAAAGA-AACGTAATAAATCAACAAGGAAATTGAATTTGAACAAATTTTGTTGCTCA
1 AAGACAACTAAA-ACAAAGTAATAAATCAACAAAGAAA-TGAATTTGAACAAATTTTGTTGCTCA
*
14470544 GGTAACCACTCAGATCGACATAGTTGTCGATGTTTCA-TAAATTTTCATAAATTCTAATATAATC
64 GGTAACCGCTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATC
** * **
14470608 ATCACAGCAACAAAACTGCAGATTCACATACAATAAGAT-TAATTGT
129 ATCACAGCAACAAAACCACAGATTCACATACAATAAAATGT-ATCAT
* * * *
14470654 AAGACGACTAAAACAATGTGATAAATCAACAAAGAGATAGAATTTGAACAAATTTTGTTGCTCAG
1 AAGACAACTAAAACAAAGTAATAAATCAACAAAGAAAT-GAATTTGAACAAATTTTGTTGCTCAG
* * * * *
14470719 GTAACCGCTCAGACCGACATAGTTGCCGATGATTCACAAAATTTTCATAAATTTTAATATAATCA
65 GTAACCGCTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCA
14470784 TCACAGCAACAAA
130 TCACAGCAACAAA
14470797 TATGCAAATT
Statistics
Matches: 290, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
173 3 0.01
174 154 0.53
175 132 0.46
176 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (174 bp):
AAGACAACTAAAACAAAGTAATAAATCAACAAAGAAATGAATTTGAACAAATTTTGTTGCTCAGG
TAACCGCTCAGATCGACATAGTTGTCGATGTTTCACTAAATTTTCATAAATTCTAATATAATCAT
CACAGCAACAAAACCACAGATTCACATACAATAAAATGTATCAT
Found at i:14477336 original size:6 final size:6
Alignment explanation
Indices: 14477325--14477383 Score: 118
Period size: 6 Copynumber: 9.8 Consensus size: 6
14477315 TTAAACATAC
14477325 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
14477373 ATATTT ATATT
1 ATATTT ATATT
14477384 AATAAATCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:14477767 original size:17 final size:18
Alignment explanation
Indices: 14477745--14477784 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
14477735 AGCAAGTTTA
14477745 TATAAGATATTA-ATTAT
1 TATAAGATATTACATTAT
*
14477762 TATAAGATTTTACATTAT
1 TATAAGATATTACATTAT
14477780 TATAA
1 TATAA
14477785 AATAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
TATAAGATATTACATTAT
Found at i:14479816 original size:3 final size:3
Alignment explanation
Indices: 14479810--14479848 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
14479800 TGATGATATC
14479810 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14479849 CAACAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14485593 original size:28 final size:27
Alignment explanation
Indices: 14485544--14485637 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 27
14485534 TTCATATAAG
* *
14485544 AATAATTA-TATTGAATTTTATTAAAT
1 AATAATTATTATTAAATTATATTAAAT
** * *
14485570 TCTATATTTTTATTAAATTATATTTAAT
1 AATA-ATTATTATTAAATTATATTAAAT
**
14485598 AATAATTATT-TTAAATTATATTTTAT
1 AATAATTATTATTAAATTATATTAAAT
14485624 AAT-ATTATATATTA
1 AATAATTAT-TATTA
14485638 TGATTTTAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
25 5 0.09
26 21 0.39
27 11 0.20
28 17 0.31
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
AATAATTATTATTAAATTATATTAAAT
Found at i:14485611 original size:26 final size:25
Alignment explanation
Indices: 14485573--14485631 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
14485563 ATTAAATTCT
*
14485573 ATATTTTTATTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
14485599 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
14485625 ATATTAT
1 ATATTAT
14485632 ATATTATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:14485637 original size:22 final size:24
Alignment explanation
Indices: 14485612--14485658 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
14485602 ATTATTTTAA
14485612 ATTAT-ATTTTA-TAATATT-ATAT
1 ATTATGATTTTAGTAA-ATTCATAT
14485634 ATTATGATTTTAGTAAATTCATAT
1 ATTATGATTTTAGTAAATTCATAT
14485658 A
1 A
14485659 AGAATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 9 0.41
24 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTATGATTTTAGTAAATTCATAT
Found at i:14485641 original size:117 final size:119
Alignment explanation
Indices: 14485496--14485732 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 119
14485486 TAGATTATAT
* *
14485496 ATTATTTTTATAGTATTATATAATATGATTTTAATAAATTCATATAAGAATAATT-ATA-T-TGA
1 ATTATTTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAGA
* *
14485558 ATTTTATTAAATTCTATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
* * *
14485612 ATTATATTTTATAATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTAT-TTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAG
14485677 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
65 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
14485732 A
1 A
14485733 ATATGATTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
116 5 0.05
117 46 0.42
118 3 0.03
119 1 0.01
120 55 0.50
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (119 bp):
ATTATTTTTATAATATTATATAATATGATTTTAATAAATTCATATAAGAATAATTAATACTAAGA
ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:14486279 original size:21 final size:18
Alignment explanation
Indices: 14486253--14486302 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 18
14486243 CGTATTTCTC
14486253 AAATTCAATTGCAATACCTAA
1 AAATTCAATTG-AAT-CC-AA
14486274 AAATTCGAATTGAATCCAA
1 AAATTC-AATTGAATCCAA
*
14486293 CAATTCAATT
1 AAATTCAATT
14486303 AAAAACATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 7 0.26
20 2 0.07
21 9 0.33
22 5 0.19
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (18 bp):
AAATTCAATTGAATCCAA
Found at i:14491480 original size:21 final size:20
Alignment explanation
Indices: 14491456--14491518 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
14491446 TTAATTCTAT
14491456 AAAATTATTTAAAAAAATTCA
1 AAAATTATTTAAAAAAATT-A
* *
14491477 AAAATCT-TTTAAATGAAATTG
1 AAAAT-TATTTAAA-AAAATTA
14491498 AAAATTA--TAAAAAAATATA
1 AAAATTATTTAAAAAAAT-TA
14491517 AA
1 AA
14491519 TTTTAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.12
19 7 0.21
20 1 0.03
21 16 0.47
22 6 0.18
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (20 bp):
AAAATTATTTAAAAAAATTA
Found at i:14492875 original size:7 final size:7
Alignment explanation
Indices: 14492863--14492893 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
14492853 TTAGTTACAT
14492863 GTTTAAG
1 GTTTAAG
14492870 GTTTAAG
1 GTTTAAG
14492877 GTTTAAG
1 GTTTAAG
14492884 GTTTAAG
1 GTTTAAG
14492891 GTT
1 GTT
14492894 ATACATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (7 bp):
GTTTAAG
Found at i:14495348 original size:4 final size:4
Alignment explanation
Indices: 14495301--14495373 Score: 53
Period size: 4 Copynumber: 18.2 Consensus size: 4
14495291 TATGGCTTTG
* * * *
14495301 TTAT TTTT TTAT TGT-T TTAT TTTT GTTAT TCAT TGAT GTTAT TTAT TTAT
1 TTAT TTAT TTAT T-TAT TTAT TTAT -TTAT TTAT TTAT -TTAT TTAT TTAT
*
14495351 TTAT CT-T TTAT TT-T TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
14495374 GTTAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
3 6 0.11
4 41 0.76
5 7 0.13
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:14496305 original size:21 final size:21
Alignment explanation
Indices: 14496274--14496345 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
14496264 TTTCTTTGAA
*
14496274 CCTCAGCTTCTCTCGCTGCTG
1 CCTCTGCTTCTCTCGCTGCTG
* * *
14496295 CCTTTGCTTCTCTCGATGTTG
1 CCTCTGCTTCTCTCGCTGCTG
* *
14496316 CATCTGCTTC-CTTTGCTGCTG
1 CCTCTGCTTCTC-TCGCTGCTG
14496337 CCTCTGCTT
1 CCTCTGCTT
14496346 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 1 0.03
21 39 0.98
ACGTcount: A:0.04, C:0.36, G:0.18, T:0.42
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCTG
Found at i:14501906 original size:25 final size:25
Alignment explanation
Indices: 14501876--14502139 Score: 181
Period size: 25 Copynumber: 10.6 Consensus size: 25
14501866 TGATATATAT
* * *
14501876 TTATGTTTTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
14501901 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
14501926 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
14501951 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
*
14501974 TTATGTATGTTATGTATA-ATAT-TAA-
1 TTATGTA--TTATGTA-AGTTATGTAAG
* *
14501999 TTATGTAAGTTGTGT-A-TAATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* **
14502024 TTGTGTAAGAAATGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* * * **
14502049 TTGTGTATAATGTTAGTTATCAAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
14502074 TTATGTATTATGTAAGTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
14502099 TTATGTAAGTTGTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
14502124 TTATGTAAGTTATGTA
1 TTATGT-A-TTATGTA
14502140 GGCTATCAAT
Statistics
Matches: 198, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
23 14 0.07
24 7 0.04
25 168 0.85
26 4 0.02
27 5 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:14501910 original size:16 final size:16
Alignment explanation
Indices: 14501891--14502182 Score: 160
Period size: 16 Copynumber: 17.9 Consensus size: 16
14501881 TTTTAGGTAA
14501891 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
14501907 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
14501923 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* *
14501939 AAGCTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
14501957 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
14501973 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
14501989 ATAATAT-TAA-TTATGT
1 AT--TATGTAAGTTATGT
* *
14502005 AAGTTGTGT-A-TAATGT
1 -A-TTATGTAAGTTATGT
* **
14502021 AAGTTGTGTAAGAAATGT
1 -A-TTATGTAAGTTATGT
*
14502039 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
14502055 A-TA---ATGTTA-G-
1 ATTATGTAAGTTATGT
**
14502065 -TTATCAAAGTTATGT
1 ATTATGTAAGTTATGT
*
14502080 ATTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
14502096 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
14502114 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* * **
14502130 AAGTTATGTAGGCTATCA
1 -A-TTATGTAAGTTATGT
14502148 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
14502168 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
14502183 CAAGTTTATA
Statistics
Matches: 218, Mismatches: 32, Indels: 51
0.72 0.11 0.17
Matches are distributed among these distances:
10 2 0.01
11 1 0.00
12 4 0.02
13 5 0.02
14 1 0.00
15 2 0.01
16 128 0.59
17 19 0.09
18 43 0.20
19 3 0.01
20 10 0.05
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:14501936 original size:41 final size:40
Alignment explanation
Indices: 14501891--14502139 Score: 205
Period size: 41 Copynumber: 6.0 Consensus size: 40
14501881 TTTTAGGTAA
14501891 ATTATGTAAGTTATGTATTATATAAGTTATGTAAGTTATGT
1 ATTATGTAAGTTATGTATTATATAA-TTATGTAAGTTATGT
* * *
14501932 ATTATGTAAGCTATGTAAGTTGTGT-ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT-A-TTATATAATTATGTAAGTTATGT
* * *
14501973 ATTATGTATGTTATGTATAATATTAATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTATTATA-TAATTATGTAAGTTATGT
* * ** * * *
14502014 ATAATGTAAGTTGTGTAAGAAATGTATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGTATTATAT-AATTATGTAAGTTATGT
* * ** * *
14502055 ATAATGTTAGTTATCAAAGTTATGT-ATTATGTAAGTTATTT
1 ATTATGTAAGTTAT-GTA-TTATATAATTATGTAAGTTATGT
* *
14502096 AAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGTATTATATAA-TTATGTAAGTTATGT
14502139 A
1 A
14502140 GGCTATCAAT
Statistics
Matches: 165, Mismatches: 32, Indels: 21
0.76 0.15 0.10
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 123 0.75
42 7 0.04
43 30 0.18
ACGTcount: A:0.33, C:0.01, G:0.20, T:0.47
Consensus pattern (40 bp):
ATTATGTAAGTTATGTATTATATAATTATGTAAGTTATGT
Found at i:14502152 original size:34 final size:33
Alignment explanation
Indices: 14502080--14502169 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 33
14502070 AAAGTTATGT
* * **
14502080 ATTATGTAAGTTATTTAAGTTATGTAAGTTGTGT
1 ATTATGTAAGTTA-TTAAGTTATGTAAGCTATCA
*
14502114 ATTATGTAAGTTATGTAAGTTATGTAGGCTATCA
1 ATTATGTAAGTTAT-TAAGTTATGTAAGCTATCA
*
14502148 ATTATGTAAGTTATTATGTTAT
1 ATTATGTAAGTTATTAAGTTAT
14502170 TATGTAAGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
33 8 0.16
34 41 0.84
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (33 bp):
ATTATGTAAGTTATTAAGTTATGTAAGCTATCA
Found at i:14502199 original size:12 final size:12
Alignment explanation
Indices: 14502184--14502212 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14502174 TAAGTTATGC
14502184 AAGTTTATATAT
1 AAGTTTATATAT
14502196 AAGTTTATATAT
1 AAGTTTATATAT
14502208 AAGTT
1 AAGTT
14502213 CTGTAAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (12 bp):
AAGTTTATATAT
Found at i:14502499 original size:22 final size:18
Alignment explanation
Indices: 14502446--14502495 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
14502436 GTATATAAAT
*
14502446 TTTAAATAATGTAATATA
1 TTTAAGTAATGTAATATA
14502464 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
14502482 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
14502496 GTAAGTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 5 0.17
18 25 0.83
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:14502501 original size:31 final size:31
Alignment explanation
Indices: 14502466--14502610 Score: 114
Period size: 31 Copynumber: 4.4 Consensus size: 31
14502456 GTAATATATT
14502466 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
14502497 TAAGTAATGTAATATATACTTAAATTTTAGTAA-G
1 TAAGTAATGTAATATAT--TT-TA-GTAAGTAATG
* * *
14502531 TCATGT-ATTTAAGTAAATTTTAGTAAGTAATG
1 T-AAGTAATGTAA-TATATTTTAGTAAGTAATG
* *
14502563 TATTTTAGTTATGTAATATATTTCAGTAAGTAATG
1 TA----AGTAATGTAATATATTTTAGTAAGTAATG
14502598 TAAGTAATGTAAT
1 TAAGTAATGTAAT
14502611 GTATACTTAA
Statistics
Matches: 88, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
31 34 0.39
32 3 0.03
33 4 0.05
34 8 0.09
35 34 0.39
36 5 0.06
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.43
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:14502569 original size:17 final size:17
Alignment explanation
Indices: 14502547--14502599 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
14502537 ATTTAAGTAA
14502547 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
* *
14502564 ATTTTAGTTATGTAATAT
1 ATTTTAG-TAAGTAATGT
*
14502582 ATTTCAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
14502599 A
1 A
14502600 AGTAATGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:14502645 original size:101 final size:103
Alignment explanation
Indices: 14502441--14502670 Score: 265
Period size: 101 Copynumber: 2.2 Consensus size: 103
14502431 ACCATGTATA
*
14502441 TAAATTTTAAATAATGTAATATATTTAAGTAATGTAATATATTTTAGTAAGTAATGTAAGTAATG
1 TAAATTTTAAATAATGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAAGTAATG
* * * *
14502506 TAATATATACTTAAATTTTAGTAAGTCATGTATTTAAG
66 TAATATATACTTAAAATATAGTAAGTCAAGTATGTAAG
* * * *
14502544 TAAATTTT-AGTAA-GTAATGTATTTTAGTTATGTAATATATTTCAGTAAGTAATGTAAGTAATG
1 TAAATTTTAAATAATGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAAGTAATG
* * *
14502607 TAATGTATACTTAAAA-ATA-TATATTTAAGTAATGTAAG
66 TAATATATACTTAAAATATAGTA-AGTCAAGT-ATGTAAG
14502645 TTATAAATTTTAAA-AATGT-ATATATT
1 ---TAAATTTTAAATAATGTAATATATT
14502671 AATAATTCAT
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
99 2 0.02
100 7 0.07
101 66 0.62
102 4 0.04
103 8 0.08
104 16 0.15
105 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.44
Consensus pattern (103 bp):
TAAATTTTAAATAATGTAATATATTTAAGTAATGTAATATATTTCAGTAAGTAATGTAAGTAATG
TAATATATACTTAAAATATAGTAAGTCAAGTATGTAAG
Found at i:14505086 original size:14 final size:15
Alignment explanation
Indices: 14505036--14505089 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 15
14505026 TTGATCTGAT
14505036 CCTAACATCCCTAAACC
1 CCTAA-ATCCCTAAA-C
*
14505053 CCT-AACCCCTAAAC
1 CCTAAATCCCTAAAC
*
14505067 CTTAAATCCC-AAAC
1 CCTAAATCCCTAAAC
14505081 CCTAAATCC
1 CCTAAATCC
14505090 ATACAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 15 0.47
15 13 0.41
16 1 0.03
17 3 0.09
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (15 bp):
CCTAAATCCCTAAAC
Found at i:14506225 original size:83 final size:83
Alignment explanation
Indices: 14506138--14506429 Score: 279
Period size: 83 Copynumber: 3.5 Consensus size: 83
14506128 ATTACCGCTA
* * *
14506138 AAAACCACGAGCATTACCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCAATAGCGGCGC
1 AAAACCCCGAGCATTAGCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCATTAGCGGCGC
* *
14506203 ATAATCATAAACGCTGCC
66 TTAATCATAAACGCCGCC
* * * ** * * * *
14506221 AAAACCCCGAGCATTAGCGGCGCAACATAAAAAATGCCGCTAAAGACTATG-GCATTAGCGGCGC
1 AAAACCCCGAGCATTAGCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCATTAGCGGCGC
*
14506285 TTAATCATAAACGCCGCT
66 TTAATCATAAACGCCGCC
* * * * *
14506303 AAATACCTCGAGCAATAGC-AGCGCT-TGACCATAAACGCCGCT-AAAACC-CTAATCATTAGCG
1 AAA-ACCCCGAGCATTAGCGA-CGCTAT-ACCAAAAACGCCGCTAAAAACCAC-GAGCATTAGCG
* *
14506364 GCGCTTAATAAAAAACGCCGCC
62 GCGCTTAATCATAAACGCCGCC
* * * *
14506386 AAAACCCCGAGCATTAGCGGCGATATTCCAAAAACGCCACTAAA
1 AAAACCCCGAGCATTAGCGACGCTATACCAAAAACGCCGCTAAA
14506430 GCCCACAAAA
Statistics
Matches: 162, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
82 62 0.38
83 100 0.62
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (83 bp):
AAAACCCCGAGCATTAGCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCATTAGCGGCGC
TTAATCATAAACGCCGCC
Found at i:14506321 original size:124 final size:125
Alignment explanation
Indices: 14506086--14506429 Score: 349
Period size: 124 Copynumber: 2.8 Consensus size: 125
14506076 GCTTTTTCAA
* * *
14506086 AAACGCTGCTAAAA-TCCGAACATTAGCGGCGCTAAATTAAAAATTACCGCTAAAAACCACGAGC
1 AAACGCTGCTAAAACCCCGAACATTAGCGGCGCTAAA-TAAAAAATGCCGCTAAAAACCACGAGC
* *
14506150 ATTACCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCAATAGCGGCGCATAATCAT
65 ATTACCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCAATAGCAGCGCATAACCAT
* * * * *
14506211 AAACGCTGCCAAAACCCCGAGCATTAGCGGCGC-AACATAAAAAATGCCGCTAAAGACTATG-GC
1 AAACGCTGCTAAAACCCCGAACATTAGCGGCGCTAA-ATAAAAAATGCCGCTAAAAACCACGAGC
* * * * * * * *
14506274 ATTAGCGGCGCT-TAATCATAAACGCCGCTAAATACCTCGAGCAATAGCAGCGCTTGACCAT
65 ATTACCGACGCTAT-ACCAAAAACGCCGCTAAAAACCACGAGCAATAGCAGCGCATAACCAT
* * * * * *
14506335 AAACGCCGCTAAAA-CCCTAATCATTAGCGGCGCTTAATAAAAAACGCCGC-CAAAACCCCGAGC
1 AAACGCTGCTAAAACCCCGAA-CATTAGCGGCGCTAAATAAAAAATGCCGCTAAAAACCACGAGC
* * * * *
14506398 ATTAGCGGCGATATTCCAAAAACGCCACTAAA
65 ATTACCGACGCTATACCAAAAACGCCGCTAAA
14506430 GCCCACAAAA
Statistics
Matches: 178, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
123 10 0.06
124 115 0.65
125 36 0.20
126 17 0.10
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.16
Consensus pattern (125 bp):
AAACGCTGCTAAAACCCCGAACATTAGCGGCGCTAAATAAAAAATGCCGCTAAAAACCACGAGCA
TTACCGACGCTATACCAAAAACGCCGCTAAAAACCACGAGCAATAGCAGCGCATAACCAT
Found at i:14506419 original size:41 final size:41
Alignment explanation
Indices: 14506082--14506429 Score: 242
Period size: 41 Copynumber: 8.4 Consensus size: 41
14506072 CGGCGCTTTT
* * *
14506082 TCAAAAACGCTGCTAAAATC-CGAACATTAGCGGCGC-TAAA
1 TCAAAAACGCCGCTAAAACCACGAGCATTAGCGGCGCAT-AA
* ** * *
14506122 TTAAAAATTACCGCTAAAAACCACGAGCATTACCGACGC-TATA
1 TCAAAAA-CGCCGCT-AAAACCACGAGCATTAGCGGCGCATA-A
* *
14506165 CCAAAAACGCCGCTAAAAACCACGAGCAATAGCGGCGCATAA
1 TCAAAAACGCCGCT-AAAACCACGAGCATTAGCGGCGCATAA
* * * *
14506207 TCATAAACGCTGCCAAAACCCCGAGCATTAGCGGCGCA-ACA
1 TCAAAAACGCCGCTAAAACCACGAGCATTAGCGGCGCATA-A
* * * * *
14506248 TAAAAAATGCCGCTAAAGACTATG-GCATTAGCGGCGCTTAA
1 TCAAAAACGCCGCTAAA-ACCACGAGCATTAGCGGCGCATAA
* * * * * *
14506289 TCATAAACGCCGCTAAATACCTCGAGCAATAGCAGCGCTTGA
1 TCAAAAACGCCGCTAAA-ACCACGAGCATTAGCGGCGCATAA
* * * * *
14506331 CCATAAACGCCGCTAAAACC-CTAATCATTAGCGGCGCTTAA
1 TCAAAAACGCCGCTAAAACCAC-GAGCATTAGCGGCGCATAA
* * * *
14506372 TAAAAAACGCCGCCAAAACCCCGAGCATTAGCGGCG-ATAT
1 TCAAAAACGCCGCTAAAACCACGAGCATTAGCGGCGCATAA
*
14506412 TCCAAAAACGCCACTAAA
1 T-CAAAAACGCCGCTAAA
14506430 GCCCACAAAA
Statistics
Matches: 239, Mismatches: 57, Indels: 23
0.75 0.18 0.07
Matches are distributed among these distances:
40 11 0.05
41 128 0.54
42 78 0.33
43 22 0.09
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.16
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAACCACGAGCATTAGCGGCGCATAA
Found at i:14507837 original size:31 final size:29
Alignment explanation
Indices: 14507802--14507859 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
14507792 AATAGTATTT
*
14507802 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
14507833 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
14507860 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:14521905 original size:39 final size:39
Alignment explanation
Indices: 14521862--14522002 Score: 183
Period size: 39 Copynumber: 3.6 Consensus size: 39
14521852 TATATTCACT
* * * * * *
14521862 TTTAAGCATGTATCACATTACACATTTAATCACATAGCA
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
* *
14521901 TTTAAACATATATCAAAATACTCGTATAATCACATAACA
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
**
14521940 TTTAAGCATATATCAAAATACTCATATAATCACATAATT
1 TTTAAGCATATATCAAAATACTCATATAATCACATAACA
*
14521979 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCAAAATACTCA
14522003 AAAACATGTT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (39 bp):
TTTAAGCATATATCAAAATACTCATATAATCACATAACA
Found at i:14525442 original size:14 final size:14
Alignment explanation
Indices: 14525423--14525449 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14525413 TAGGCAATAC
14525423 TTAATCTCTATCAT
1 TTAATCTCTATCAT
14525437 TTAATCTCTATCA
1 TTAATCTCTATCA
14525450 CATTCAGCCT
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:0.30, C:0.22, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATCTCTATCAT
Found at i:14527454 original size:7 final size:7
Alignment explanation
Indices: 14527442--14527485 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
14527432 TATCGTAATA
14527442 TAATTAC
1 TAATTAC
14527449 TAATTAC
1 TAATTAC
14527456 TAATTA-
1 TAATTAC
*
14527462 -AATTAT
1 TAATTAC
14527468 TAATTA-
1 TAATTAC
14527474 -AATTAC
1 TAATTAC
14527480 TAATTA
1 TAATTA
14527486 GATCTATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.30
7 23 0.70
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (7 bp):
TAATTAC
Found at i:14527465 original size:12 final size:12
Alignment explanation
Indices: 14527450--14527485 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
14527440 TATAATTACT
14527450 AATTACTAATTA
1 AATTACTAATTA
*
14527462 AATTATTAATTA
1 AATTACTAATTA
14527474 AATTACTAATTA
1 AATTACTAATTA
14527486 GATCTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (12 bp):
AATTACTAATTA
Found at i:14532051 original size:10 final size:10
Alignment explanation
Indices: 14532019--14532070 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 10
14532009 TCAATTAAAG
14532019 AAATTAT-TA
1 AAATTATATA
*
14532028 AAATTTTATAA
1 AAATTATAT-A
*
14532039 AAATTAAATA
1 AAATTATATA
*
14532049 AAAATATTATA
1 AAATTA-TATA
14532060 AAATTATATA
1 AAATTATATA
14532070 A
1 A
14532071 TTTGGTTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.18
10 12 0.35
11 16 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATTATATA
Found at i:14532062 original size:21 final size:22
Alignment explanation
Indices: 14532027--14532070 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14532017 AGAAATTATT
*
14532027 AAAATTTTATAAAAATTAAATA
1 AAAATATTATAAAAATTAAATA
*
14532049 AAAATATTAT-AAAATTATATA
1 AAAATATTATAAAAATTAAATA
14532070 A
1 A
14532071 TTTGGTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATTATAAAAATTAAATA
Found at i:14535122 original size:23 final size:22
Alignment explanation
Indices: 14535059--14535138 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 22
14535049 TTATGATATA
**
14535059 AAATATTTTTATAAATATTTAT
1 AAATATTAATATAAATATTTAT
* **
14535081 AAATTTTAATATATTTA-TTATT
1 AAATATTAATATAAATATTTA-T
14535103 AGAATATTAATATAAATATTTAAT
1 A-AATATTAATATAAATATTT-AT
*
14535127 AATATTTTAATA
1 AA-ATATTAATA
14535139 ATATTACTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
21 3 0.07
22 14 0.32
23 14 0.32
24 12 0.27
25 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
AAATATTAATATAAATATTTAT
Found at i:14535128 original size:11 final size:11
Alignment explanation
Indices: 14535059--14535143 Score: 52
Period size: 12 Copynumber: 7.6 Consensus size: 11
14535049 TTATGATATA
*
14535059 AAATATTTTTAT
1 AAATA-TTTAAT
14535071 AAATATTT-AT
1 AAATATTTAAT
14535081 AAAT-TTTAAT
1 AAATATTTAAT
* * *
14535091 ATATTTATTATT
1 AAATAT-TTAAT
*
14535103 AGAATATTAATAT
1 A-AATATTTA-AT
14535116 AAATATTTAAT
1 AAATATTTAAT
14535127 -AATATTTTAAT
1 AAATA-TTTAAT
14535138 -AATATT
1 AAATATT
14535144 ACTCAAAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
9 3 0.05
10 17 0.28
11 16 0.27
12 19 0.32
13 5 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (11 bp):
AAATATTTAAT
Found at i:14535305 original size:24 final size:24
Alignment explanation
Indices: 14535252--14535308 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
14535242 ATATTGTTAA
* *
14535252 ATATAAATAATTAATATTGAACGTT
1 ATATAAA-AAATAATATTGAACATT
* *
14535277 GTATAAAAAATAATATTGAGCATT
1 ATATAAAAAATAATATTGAACATT
14535301 ATATAAAA
1 ATATAAAA
14535309 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (24 bp):
ATATAAAAAATAATATTGAACATT
Found at i:14547568 original size:15 final size:15
Alignment explanation
Indices: 14547544--14547573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14547534 GTGGGAGCCC
*
14547544 CATTTTCCATTAAAA
1 CATTTCCCATTAAAA
14547559 CATTTCCCATTAAAA
1 CATTTCCCATTAAAA
14547574 GAGAAAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (15 bp):
CATTTCCCATTAAAA
Found at i:14552032 original size:51 final size:51
Alignment explanation
Indices: 14551975--14552079 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
14551965 AAATTTCTAT
14551975 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
1 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
14552026 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
1 AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
14552077 AAT
1 AAT
14552080 CGGAGCTCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (51 bp):
AATTATTTATAATAGAGGGTTGTTGAAGGATGAAATTGAAATGAGTTTAAA
Found at i:14556834 original size:46 final size:46
Alignment explanation
Indices: 14556661--14556952 Score: 452
Period size: 46 Copynumber: 6.5 Consensus size: 46
14556651 TACGTATGAT
* * *
14556661 CACTTATCAC-TTGTC-CCTGATCATATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14556704 CACTTATCACTTTGTCGCTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14556750 CACTTATAAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAAGCTAC
14556794 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
**
14556840 CACTTATCACTTTGTCACTTGATCTTATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14556886 CACTTATCACTTTGTCACTTGGTCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14556932 CACTTATCACTCTGTCACTTG
1 CACTTATCACTTTGTCACTTG
14556953 TCACTGATCA
Statistics
Matches: 231, Mismatches: 11, Indels: 11
0.91 0.04 0.04
Matches are distributed among these distances:
43 10 0.04
44 43 0.19
45 27 0.12
46 151 0.65
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:14561407 original size:29 final size:30
Alignment explanation
Indices: 14561362--14561430 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 30
14561352 ATGGTTTGTG
*
14561362 AAAATTGAATCAAAATCAAAGTTCATGTAT
1 AAAATTGCATCAAAATCAAAGTTCATGTAT
*
14561392 AAAATTGCA-CAAAATCAAAGTTCATTTAT
1 AAAATTGCATCAAAATCAAAGTTCATGTAT
*
14561421 AACATTGCAT
1 AAAATTGCAT
14561431 ATTGAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 27 0.77
30 8 0.23
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (30 bp):
AAAATTGCATCAAAATCAAAGTTCATGTAT
Found at i:14563102 original size:43 final size:43
Alignment explanation
Indices: 14563053--14563274 Score: 202
Period size: 43 Copynumber: 5.2 Consensus size: 43
14563043 AGAAATAAAT
** **
14563053 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAAC
* *
14563096 GCCGCTAAAGAACATGACCTGTAGCGGCGC--ATACCAACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CAACAAAC
*
14563138 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCT-CCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TACAACAAAC
* * ** * * * *
14563181 GCTGCTGAAAGTA-ATGTTCTTTAGCGACGTTTTTTTCCACAAAC
1 GCCGCT-AAAGAACATGACCTTTAGCGGCG-CTTTTACAACAAAC
* * *
14563225 GCCGCTATAGAACATGACTTTTAGCGGCGCTTTTATAA-AAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAAC
*
14563267 GCCACTAA
1 GCCGCTAA
14563275 TTTTGGGATT
Statistics
Matches: 143, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.01
42 47 0.33
43 60 0.42
44 33 0.23
45 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAAC
Found at i:14563147 original size:42 final size:42
Alignment explanation
Indices: 14563088--14563167 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
14563078 GGCGCTTTTA
14563088 CAACAAACGCCGCTAAAGAACATGACCTGTAGCGGCGCATAC
1 CAACAAACGCCGCTAAAGAACATGACCTGTAGCGGCGCATAC
*
14563130 CAACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC
1 CAACAAACGCCGCTAAAGAACATGACCTGTAGCGGCGC
14563168 TTTCTCCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.31, G:0.21, T:0.12
Consensus pattern (42 bp):
CAACAAACGCCGCTAAAGAACATGACCTGTAGCGGCGCATAC
Found at i:14563206 original size:85 final size:85
Alignment explanation
Indices: 14563053--14563274 Score: 209
Period size: 85 Copynumber: 2.6 Consensus size: 85
14563043 AGAAATAAAT
** **
14563053 GCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGACCTGT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGACCTGT
*
14563118 AGCGGCG-CATACCAACAAAC
66 AGCGACGTCATACC-ACAAAC
* * * **
14563138 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCT-CCACAAACGCTGCTGAAAGTA-ATGTTCT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TACAACAAACGCCGCT-AAAGAACATGACCT
* ** *
14563201 TTAGCGACGTTTTTTTCCACAAAC
64 GTAGCGACG--TCATACCACAAAC
* * * *
14563225 GCCGCTATAGAACATGACTTTTAGCGGCGCTTTTATAA-AAACGCCACTAA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAA
14563275 TTTTGGGATT
Statistics
Matches: 111, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
85 55 0.50
86 15 0.14
87 38 0.34
88 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (85 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACAACAAACGCCGCTAAAGAACATGACCTGT
AGCGACGTCATACCACAAAC
Found at i:14563689 original size:21 final size:21
Alignment explanation
Indices: 14563642--14563692 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
14563632 TTCTTTTGAA
* * *
14563642 CCTCTACTTCTCTCGCTGCAG
1 CCTCTGCTTCCCTCGCTACAG
*
14563663 CCTCTGCTTCCCTCGCTACCG
1 CCTCTGCTTCCCTCGCTACAG
14563684 CCTCTGCTT
1 CCTCTGCTT
14563693 TAAGTTGTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.06, C:0.47, G:0.14, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCCTCGCTACAG
Found at i:14569146 original size:9 final size:9
Alignment explanation
Indices: 14569129--14569540 Score: 145
Period size: 9 Copynumber: 48.4 Consensus size: 9
14569119 TAAATATAAT
*
14569129 TAAGCTATG
1 TAAGTTATG
14569138 TAAGTTATG
1 TAAGTTATG
14569147 TAAGTTATG
1 TAAGTTATG
*
14569156 T-A-TTAAG
1 TAAGTTATG
14569163 TAAGTTAT-
1 TAAGTTATG
*
14569171 TTA-TTATG
1 TAAGTTATG
* *
14569179 AAAATTATG
1 TAAGTTATG
14569188 TAAGTTATG
1 TAAGTTATG
14569197 T-A-TTATG
1 TAAGTTATG
*
14569204 -AATATTATG
1 TAA-GTTATG
* *
14569213 TAAGCTGTG
1 TAAGTTATG
14569222 -AA-TTATG
1 TAAGTTATG
**
14569229 TAAGTGCTG
1 TAAGTTATG
14569238 T-A-TTATG
1 TAAGTTATG
14569245 ATCAA-TTATG
1 -T-AAGTTATG
14569255 TAAGTTATG
1 TAAGTTATG
14569264 T-A-TTATG
1 TAAGTTATG
* *
14569271 AAAATTATG
1 TAAGTTATG
* *
14569280 TAAGCTGTG
1 TAAGTTATG
*
14569289 T-ACTGTA--
1 TAAGT-TATG
14569296 TAAGTTATG
1 TAAGTTATG
14569305 TAAGTTATG
1 TAAGTTATG
* *
14569314 AAAATTATG
1 TAAGTTATG
14569323 TAAGTTATG
1 TAAGTTATG
14569332 TAAGTT-T-
1 TAAGTTATG
*
14569339 TTA-TTATG
1 TAAGTTATG
* * *
14569347 AAAATTAAG
1 TAAGTTATG
*
14569356 TAACTTAT-
1 TAAGTTATG
14569364 T-A-TTATG
1 TAAGTTATG
* *
14569371 AAAATTATG
1 TAAGTTATG
*
14569380 TAAGTTCA-A
1 TAAGTT-ATG
14569389 T-A-TTATG
1 TAAGTTATG
14569396 TAAGTTATG
1 TAAGTTATG
*
14569405 T-A-CTATG
1 TAAGTTATG
* *
14569412 AAAATTATG
1 TAAGTTATG
14569421 TAAGTTATG
1 TAAGTTATG
* *
14569430 TATGTTGTG
1 TAAGTTATG
*
14569439 T-ATTATATG
1 TAAGT-TATG
14569448 TAAGTTATG
1 TAAGTTATG
*
14569457 TATGTGTATAATG
1 TA--AGT-T-ATG
*
14569470 AAAGTTATG
1 TAAGTTATG
*
14569479 TAAGTTGTG
1 TAAGTTATG
*
14569488 T-A-TAATG
1 TAAGTTATG
14569495 TAAGTTATG
1 TAAGTTATG
* *
14569504 TAATTTAAG
1 TAAGTTATG
*
14569513 T-A-TAAT-
1 TAAGTTATG
*
14569519 TAAGCTATG
1 TAAGTTATG
14569528 TAAGTTATG
1 TAAGTTATG
14569537 TAAG
1 TAAG
14569541 ATGTGATAGT
Statistics
Matches: 292, Mismatches: 68, Indels: 86
0.65 0.15 0.19
Matches are distributed among these distances:
6 8 0.03
7 47 0.16
8 33 0.11
9 183 0.63
10 12 0.04
11 4 0.01
12 1 0.00
13 4 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.43
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14569185 original size:25 final size:25
Alignment explanation
Indices: 14569134--14569216 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
14569124 ATAATTAAGC
*
14569134 TATGTAAGTTATGTAAGTTATG--TAT
1 TATGTAAGTTATGT-A-TTATGAAAAT
* *
14569159 TAAGTAAGTTATTTATTATGAAAAT
1 TATGTAAGTTATGTATTATGAAAAT
*
14569184 TATGTAAGTTATGTATTATGAATAT
1 TATGTAAGTTATGTATTATGAAAAT
14569209 TATGTAAG
1 TATGTAAG
14569217 CTGTGAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.10
24 1 0.02
25 44 0.88
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATGTATTATGAAAAT
Found at i:14569201 original size:16 final size:16
Alignment explanation
Indices: 14569142--14569505 Score: 115
Period size: 16 Copynumber: 22.0 Consensus size: 16
14569132 GCTATGTAAG
14569142 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* *
14569158 TTAAGTAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
14569174 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
14569191 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* * *
14569208 TTATGTAAGCTGTGAA
1 TTATGTAAGTTATGTA
**
14569224 TTATGTAAGTGCTGTA
1 TTATGTAAGTTATGTA
14569240 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
14569258 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
14569275 TTATGTAAGCTGTGTA
1 TTATGTAAGTTATGTA
* * *
14569291 CTGTATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
14569308 GTTATGAAAATTATGTAA
1 -TTATGTAAGTTATGT-A
*
14569326 GTTATGTAAGTT-TTTA
1 -TTATGTAAGTTATGTA
* * *
14569342 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
14569359 CTTAT-T-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
14569375 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
14569391 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
14569407 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
* *
14569424 GTTATGTATGTTGTGTA
1 -TTATGTAAGTTATGTA
14569441 TTATATGTAAGTTATGTA
1 -T-TATGTAAGTTATGTA
* * *
14569459 -TGTGT-A-TAATGAAA
1 TTATGTAAGTTATG-TA
*
14569473 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
14569490 TAATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
14569506 ATTTAAGTAT
Statistics
Matches: 251, Mismatches: 63, Indels: 68
0.66 0.16 0.18
Matches are distributed among these distances:
13 4 0.02
14 2 0.01
15 22 0.09
16 126 0.50
17 21 0.08
18 70 0.28
19 6 0.02
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:14569226 original size:25 final size:25
Alignment explanation
Indices: 14569173--14569228 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
14569163 TAAGTTATTT
* *
14569173 ATTATGAAAATTATGTAAGTTATGT
1 ATTATGAAAATTATGTAAGCTATGA
* *
14569198 ATTATGAATATTATGTAAGCTGTGA
1 ATTATGAAAATTATGTAAGCTATGA
14569223 ATTATG
1 ATTATG
14569229 TAAGTGCTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.43
Consensus pattern (25 bp):
ATTATGAAAATTATGTAAGCTATGA
Found at i:14569253 original size:26 final size:25
Alignment explanation
Indices: 14569222--14569384 Score: 120
Period size: 24 Copynumber: 6.5 Consensus size: 25
14569212 GTAAGCTGTG
* *
14569222 AATTATGTAAGTGCTGTATTATGATC
1 AATTATGTAAGTGATGTATTATGA-A
*
14569248 AATTATGTAAGTTATGTATTATGAA
1 AATTATGTAAGTGATGTATTATGAA
14569273 AATTATGTAAGCTG-TGTACTGTAT--A
1 AATTATGTAAG-TGATGTA-T-TATGAA
* * * *
14569298 AGTTATGTAAGTTATGAAAATTATGTA
1 AATTATGTAAGTGATG--TATTATGAA
* * *
14569325 AGTTATGTAAGT-TTTTATTATGAA
1 AATTATGTAAGTGATGTATTATGAA
* * *
14569349 AATTAAGTAACTTAT-TATTATGAA
1 AATTATGTAAGTGATGTATTATGAA
14569373 AATTATGTAAGT
1 AATTATGTAAGT
14569385 TCAATATTAT
Statistics
Matches: 111, Mismatches: 17, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
24 36 0.32
25 32 0.29
26 26 0.23
27 17 0.15
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.43
Consensus pattern (25 bp):
AATTATGTAAGTGATGTATTATGAA
Found at i:14569270 original size:67 final size:66
Alignment explanation
Indices: 14569163--14569333 Score: 225
Period size: 67 Copynumber: 2.5 Consensus size: 66
14569153 ATGTATTAAG
* * * *
14569163 TAAGTTATTTATTATGAAAATTATGTAAGTTATGTATTATGAATATTATGTAAGCTGTGAATTAT
1 TAAGTGATGTATTATGAAAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTAT
*
14569228 G
66 A
* * * *
14569229 TAAGTGCTGTATTATGATCAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGTACTG
1 TAAGTGATGTATTATGA-AAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTA
14569294 TA
65 TA
*
14569296 TAAGTTATGTAAGTTATGAAAATTATGTAAGTTATGTA
1 TAAGTGATGT-A-TTATGAAAATTATGTAAGTTATGTA
14569334 AGTTTTTATT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
66 14 0.16
67 51 0.57
68 19 0.21
69 6 0.07
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (66 bp):
TAAGTGATGTATTATGAAAATTATGTAAGTTATGTATTATGAAAATTATGTAAGCTGTGAACTAT
A
Found at i:14569358 original size:24 final size:24
Alignment explanation
Indices: 14569222--14569406 Score: 131
Period size: 25 Copynumber: 7.4 Consensus size: 24
14569212 GTAAGCTGTG
** *
14569222 AATTATGTAAGTGCTGTATTATGATC
1 AATTATGTAAGTTAT-TATTATGA-A
14569248 AATTATGTAAGTTATGTATTATGAA
1 AATTATGTAAGTTAT-TATTATGAA
* *
14569273 AATTATGTAAGCTGTGTACTGTAT--A
1 AATTATGTAAGTTAT-TA-T-TATGAA
* * *
14569298 AGTTATGTAAGTTATGAAAATTATGTA
1 AATTATGTAAGTTAT---TATTATGAA
* *
14569325 AGTTATGTAAGTTTTTATTATGAA
1 AATTATGTAAGTTATTATTATGAA
* *
14569349 AATTAAGTAACTTATTATTATGAA
1 AATTATGTAAGTTATTATTATGAA
* *
14569373 AATTATGTAAGTTCAATATTATGTA
1 AATTATGTAAGTT-ATTATTATGAA
*
14569398 AGTTATGTA
1 AATTATGTA
14569407 CTATGAAAAT
Statistics
Matches: 130, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
24 38 0.29
25 49 0.38
26 24 0.18
27 19 0.15
ACGTcount: A:0.37, C:0.03, G:0.16, T:0.43
Consensus pattern (24 bp):
AATTATGTAAGTTATTATTATGAA
Found at i:14569403 original size:25 final size:25
Alignment explanation
Indices: 14569296--14569533 Score: 141
Period size: 25 Copynumber: 9.6 Consensus size: 25
14569286 GTGTACTGTA
*
14569296 TAAGTTATGTAAGTTATGAAAATTATG
1 TAAGTTATGTAAG-T-TGAATATTATG
**
14569323 TAAGTTATGTAAGTT-TTTATTATG
1 TAAGTTATGTAAGTTGAATATTATG
* * * * *
14569347 AAAATTAAGTAACTT-ATTATTATG
1 TAAGTTATGTAAGTTGAATATTATG
* * *
14569371 AAAATTATGTAAGTTCAATATTATG
1 TAAGTTATGTAAGTTGAATATTATG
* *
14569396 TAAGTTATGT-ACTATGAAAATTATG
1 TAAGTTATGTAAGT-TGAATATTATG
* **
14569421 TAAGTTATGTATGTTGTGTATTATATG
1 TAAGTTATGTAAGTTGAATA-T-TATG
* *
14569448 TAAGTTATGTATG-TG--TATAATG
1 TAAGTTATGTAAGTTGAATATTATG
* ** *
14569470 AAAGTTATGTAAGTTGTGTATAATG
1 TAAGTTATGTAAGTTGAATATTATG
* *
14569495 TAAGTTATGTAA-TTTAAGTATAAT-
1 TAAGTTATGTAAGTTGAA-TATTATG
*
14569519 TAAGCTATGTAAGTT
1 TAAGTTATGTAAGTT
14569534 ATGTAAGATG
Statistics
Matches: 172, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
22 14 0.08
23 3 0.02
24 55 0.32
25 65 0.38
26 5 0.03
27 30 0.17
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (25 bp):
TAAGTTATGTAAGTTGAATATTATG
Found at i:14569412 original size:41 final size:40
Alignment explanation
Indices: 14569350--14569426 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
14569340 TATTATGAAA
*
14569350 ATTAAGTAACTTATTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAACTTATTACTATGAAAATTATGTAAGTTCAAT
* *
14569390 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAACTTAT-TACTATGAAAATTATGTAAGTT
14569427 ATGTATGTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 12 0.36
41 21 0.64
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (40 bp):
ATTAAGTAACTTATTACTATGAAAATTATGTAAGTTCAAT
Found at i:14569528 original size:49 final size:51
Alignment explanation
Indices: 14569418--14569563 Score: 153
Period size: 49 Copynumber: 2.9 Consensus size: 51
14569408 TATGAAAATT
* * *
14569418 ATGTAAGTTATGTATGTTGTGTATTATATGTAAGTTATGT-ATGT--GTATA
1 ATGTAAGTTATGTAAGTTGTGTA-TAGATGTAAGTTATGTAATTTAAGTATA
*
14569467 ATGAAAGTTATGTAAGTTGTGTATA-ATGTAAGTTATGTAATTTAAGTATA
1 ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAATTTAAGTATA
* * *
14569517 AT-TAAGCTATGTAAGTTATGTA-AGATGTGATAGTCATGTAA-TTAAGT
1 ATGTAAGTTATGTAAGTTGTGTATAGATGT-A-AGTTATGTAATTTAAGT
14569564 TATGTTTTTA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
47 13 0.15
48 6 0.07
49 42 0.50
50 14 0.17
51 9 0.11
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (51 bp):
ATGTAAGTTATGTAAGTTGTGTATAGATGTAAGTTATGTAATTTAAGTATA
Found at i:14570834 original size:10 final size:10
Alignment explanation
Indices: 14570819--14570843 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14570809 TAACATTCAA
14570819 AACATAGCTT
1 AACATAGCTT
14570829 AACATAGCTT
1 AACATAGCTT
14570839 AACAT
1 AACAT
14570844 TCAAAACTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (10 bp):
AACATAGCTT
Found at i:14570839 original size:45 final size:44
Alignment explanation
Indices: 14570785--14570887 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 44
14570775 TGCAGAAACT
*
14570785 CATATGCTTAACAGTC-AAA-ATGTTTAACATTCAAAACATAGCTTAA
1 CATA-GCTTAACAGTCAAAACATGCTTAACATTC-AAA-AT-GCTTAA
* *
14570831 CATAGCTTAACATTCAAAACTATGCTTAACATTCAAAATGTTTAA
1 CATAGCTTAACAGTCAAAAC-ATGCTTAACATTCAAAATGCTTAA
14570876 CATAGCTTAACA
1 CATAGCTTAACA
14570888 TAGTTTTCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
45 27 0.53
46 9 0.18
47 3 0.06
48 12 0.24
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (44 bp):
CATAGCTTAACAGTCAAAACATGCTTAACATTCAAAATGCTTAA
Found at i:14570878 original size:16 final size:18
Alignment explanation
Indices: 14570829--14570868 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 18
14570819 AACATAGCTT
14570829 AACATAGCTTAACATTCAA
1 AACAT-GCTTAACATTCAA
14570848 AACTATGCTTAACATTCAA
1 AAC-ATGCTTAACATTCAA
14570867 AA
1 AA
14570869 TGTTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (18 bp):
AACATGCTTAACATTCAA
Found at i:14575909 original size:94 final size:94
Alignment explanation
Indices: 14575748--14575927 Score: 319
Period size: 94 Copynumber: 1.9 Consensus size: 94
14575738 CTCAAACTCC
14575748 AAAACCCTAAATCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCACAAA
1 AAAACCCTAAATCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCACAAA
14575813 ATAATAAACATTATATAATGATTAACCCT
66 ATAATAAACATTATATAATGATTAACCCT
*
14575842 AAAACCCTAAA-CCAAAAACACTAAACCTACATCGTAAACCCTAAACTCAAAACTCTAATC-CAA
1 AAAACCCTAAATCC-AAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCAC-A
14575905 AAATAATAAACATTATATAATGA
64 AAATAATAAACATTATATAATGA
14575928 ATCCTCATAC
Statistics
Matches: 83, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
93 3 0.04
94 80 0.96
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (94 bp):
AAAACCCTAAATCCAAAACACTAAACCTACATCATAAACCCTAAACTCAAAACTCTAATCACAAA
ATAATAAACATTATATAATGATTAACCCT
Found at i:14578105 original size:4 final size:4
Alignment explanation
Indices: 14578096--14578244 Score: 209
Period size: 4 Copynumber: 38.5 Consensus size: 4
14578086 GGTTAAGGAA
14578096 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
14578144 GTAT GTAT GTAT G--T GTGT GTAT GTGT GTAT GTGT GTGT GTAT G--T
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
14578188 GTGT GTGT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
14578236 GTAT G-AT GT
1 GTAT GTAT GT
14578245 TTATCTTATA
Statistics
Matches: 134, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.03
3 3 0.02
4 127 0.95
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:14578162 original size:2 final size:2
Alignment explanation
Indices: 14578155--14578197 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
14578145 TATGTATGTA
* * *
14578155 TG TG TG TG TA TG TG TG TA TG TG TG TG TG TA TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14578197 T
1 T
14578198 ATGTATGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.07, C:0.00, G:0.42, T:0.51
Consensus pattern (2 bp):
TG
Found at i:14597252 original size:40 final size:40
Alignment explanation
Indices: 14597197--14597276 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
14597187 ACTCCTATAC
14597197 ACATAACTTCAGAAGTTAGTAAGTGTATCAACCAAACATA
1 ACATAACTTCAGAAGTTAGTAAGTGTATCAACCAAACATA
*
14597237 ACATAACTTCAGAAGTTAGTAAGTGTATCAACGAAACATA
1 ACATAACTTCAGAAGTTAGTAAGTGTATCAACCAAACATA
14597277 TAATTCCTAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (40 bp):
ACATAACTTCAGAAGTTAGTAAGTGTATCAACCAAACATA
Found at i:14599833 original size:17 final size:17
Alignment explanation
Indices: 14599808--14599843 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14599798 TAGAATTAGG
* *
14599808 TTGAGAAAATTATTTAA
1 TTGAAAAAATTAATTAA
14599825 TTGAAAAAATTAATTAA
1 TTGAAAAAATTAATTAA
14599842 TT
1 TT
14599844 TAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (17 bp):
TTGAAAAAATTAATTAA
Found at i:14601524 original size:53 final size:52
Alignment explanation
Indices: 14601455--14601556 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 52
14601445 GATCGTAAAG
* *
14601455 GACCATATCGTTTAAGATCATAACTGGTGGGTTATGACATCATATAGGAAGAA
1 GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATAT-GGAAGAA
*
14601508 GACCATATCATGTAAGATCGTAACTGGTGGGTTATGACATCATATGGAA
1 GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATATGGAA
14601557 AAATTTAAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 4 0.09
53 42 0.91
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (52 bp):
GACCATATCATGTAAGATCATAACTGGTGGGTTATGACATCATATGGAAGAA
Found at i:14606819 original size:20 final size:20
Alignment explanation
Indices: 14606794--14606832 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14606784 CGTAAAATTA
*
14606794 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
14606814 TTTCTGTAAAATGATTTAC
1 TTTCTGGAAAATGATTTAC
14606833 CAGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:14606965 original size:17 final size:18
Alignment explanation
Indices: 14606939--14606980 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
14606929 CATATATTAA
14606939 TATATATT-AATAATTTT
1 TATATATTAAATAATTTT
* *
14606956 TATATTTTAAATTATTTT
1 TATATATTAAATAATTTT
*
14606974 TACATAT
1 TATATAT
14606981 ATTGCAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTAAATAATTTT
Found at i:14613043 original size:19 final size:19
Alignment explanation
Indices: 14613021--14613064 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14613011 ACAAGGTAAT
*
14613021 TTTTTAAAAATATTAAATC
1 TTTTTAAAAATATTAAATA
* * *
14613040 TTTTTTAAAATTTTATATA
1 TTTTTAAAAATATTAAATA
14613059 TTTTTA
1 TTTTTA
14613065 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTAAAAATATTAAATA
Found at i:14618152 original size:14 final size:14
Alignment explanation
Indices: 14618133--14618160 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14618123 CTGGCACACT
14618133 TTATTCACTGATAA
1 TTATTCACTGATAA
14618147 TTATTCACTGATAA
1 TTATTCACTGATAA
14618161 GGCAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TTATTCACTGATAA
Found at i:14625270 original size:27 final size:27
Alignment explanation
Indices: 14625230--14625282 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14625220 GAAGAATATA
*
14625230 GGGGGTATGTTGATGATGATGAAGGTG
1 GGGGGTATGGTGATGATGATGAAGGTG
*
14625257 GGGGGTTTGGTGATGATGATGAAGGT
1 GGGGGTATGGTGATGATGATGAAGGT
14625283 AACAGAACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (27 bp):
GGGGGTATGGTGATGATGATGAAGGTG
Found at i:14629244 original size:19 final size:19
Alignment explanation
Indices: 14629222--14629258 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14629212 TTGATATGAT
14629222 ATTAATCTATTAGAAAGAC
1 ATTAATCTATTAGAAAGAC
*
14629241 ATTAATCTATTGGAAAGA
1 ATTAATCTATTAGAAAGA
14629259 AATAATATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (19 bp):
ATTAATCTATTAGAAAGAC
Found at i:14632712 original size:13 final size:14
Alignment explanation
Indices: 14632693--14632724 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
14632683 AAGAAACCAA
14632693 AGGAAAATTAAAAG
1 AGGAAAATTAAAAG
14632707 -GGAAAATTAAAAG
1 AGGAAAATTAAAAG
14632720 AGGAA
1 AGGAA
14632725 CTTTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (14 bp):
AGGAAAATTAAAAG
Found at i:14645781 original size:12 final size:12
Alignment explanation
Indices: 14645766--14645791 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14645756 TTTTAAAAAT
14645766 AAAAAAATTTAA
1 AAAAAAATTTAA
14645778 AAAAAAATTTAA
1 AAAAAAATTTAA
14645790 AA
1 AA
14645792 TTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:14645809 original size:19 final size:19
Alignment explanation
Indices: 14645760--14645810 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
14645750 AAATTATTTT
*
14645760 AAAAAT-AAAA-AAATTTA
1 AAAAATAAAAATAAAATTA
**
14645777 AAAAA-AAATTTAAAATTA
1 AAAAATAAAAATAAAATTA
14645795 AAAAATAAAAATAAAA
1 AAAAATAAAAATAAAA
14645811 AAAGATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATAAAAATAAAATTA
Found at i:14646183 original size:15 final size:16
Alignment explanation
Indices: 14646152--14646184 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14646142 TATATTTACT
14646152 AAAAATAATGATATTTG
1 AAAAATAAT-ATATTTG
14646169 AAAAATAAT-TATTTG
1 AAAAATAATATATTTG
14646184 A
1 A
14646185 TTTTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (16 bp):
AAAAATAATATATTTG
Found at i:14647886 original size:26 final size:26
Alignment explanation
Indices: 14647857--14647906 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
14647847 AATAAACAAT
* *
14647857 TAATAGAATCAATTGGTCAAATCAAC
1 TAATAAAATCAATCGGTCAAATCAAC
14647883 TAATAAAATCAATCGGTCAAATCA
1 TAATAAAATCAATCGGTCAAATCA
14647907 GCCACTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (26 bp):
TAATAAAATCAATCGGTCAAATCAAC
Found at i:14654602 original size:21 final size:22
Alignment explanation
Indices: 14654573--14654619 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
14654563 CAGAAGGAGT
*
14654573 GAGTAGTACTTCACAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
*
14654595 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCACAGCAGGTG
14654616 GAGT
1 GAGT
14654620 TTGAGCAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCACAGCAGGTG
Found at i:14674171 original size:45 final size:45
Alignment explanation
Indices: 14674107--14674199 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
14674097 CCAATTTCTC
* *
14674107 ACTTTGCATGCTAGCACTCCAATTTTGACCACCATTTCGGTTTTG
1 ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
**
14674152 ACTTTGCATGCCATTACTCCAATTTTGACCACCATTTCGATTTTG
1 ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
14674197 ACT
1 ACT
14674200 CACATAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.39
Consensus pattern (45 bp):
ACTTTGCATGCCAGCACTCCAATTTTGACCACCATTTCGATTTTG
Found at i:14678504 original size:81 final size:81
Alignment explanation
Indices: 14678400--14678558 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
14678390 TATAAGATCG
* * * *
14678400 AAGTTCAGAGAAAAATCAAGTTATTAGGCAGGGAGTGCTGGTCTAGTCTGGAACCAGACCAACCT
1 AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
*
14678465 ACAGGCGCAACAGCAC
66 ACAGACGCAACAGCAC
** * **
14678481 AAGTTCAGAGAAAAATCCTGTTATTTGGCAAGGAGTGCTGGTATTTTCTGGAACCAGAACAACCA
1 AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
14678546 ACAGACGCAACAG
66 ACAGACGCAACAG
14678559 GAAAAGTTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (81 bp):
AAGTTCAGAGAAAAATCAAGTTATTAGGCAAGGAGTGCTGGTATAGTCTGGAACCAGAACAACCA
ACAGACGCAACAGCAC
Found at i:14679279 original size:18 final size:19
Alignment explanation
Indices: 14679250--14679286 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
14679240 TATTACTAAA
14679250 TTTACTTTTTTGGTCACTT
1 TTTACTTTTTTGGTCACTT
14679269 TTTAC-TTTTTGGTCACTT
1 TTTACTTTTTTGGTCACTT
14679287 AATATAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.62
Consensus pattern (19 bp):
TTTACTTTTTTGGTCACTT
Found at i:14681700 original size:44 final size:45
Alignment explanation
Indices: 14681615--14681703 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 45
14681605 ATAAAATAAA
14681615 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
1 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
* *
14681660 AGTCTTAAGCAATAGTGGTT-TATTAGCTGGCCGTTGAAAATATT
1 AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
14681704 GAAATGATTC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 22 0.52
45 20 0.48
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (45 bp):
AGTCTTAAGCAATAGTGGTTAAATTAGCTGGACGTTGAAAATATT
Found at i:14686355 original size:21 final size:22
Alignment explanation
Indices: 14686316--14686366 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
14686306 TATATGAAAA
* * *
14686316 TTAAAAAATAACTCTTAATTTT
1 TTAAAAAATAACACGTAATTAT
14686338 TTAAAAAATAA-ACGTAATTAT
1 TTAAAAAATAACACGTAATTAT
*
14686359 CTAAAAAA
1 TTAAAAAA
14686367 GAATGTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAAAATAACACGTAATTAT
Found at i:14687517 original size:9 final size:9
Alignment explanation
Indices: 14687503--14687528 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14687493 AAATAGTTCA
14687503 AGTTATTCG
1 AGTTATTCG
14687512 AGTTATTCG
1 AGTTATTCG
14687521 AGTTATTC
1 AGTTATTC
14687529 AGATAAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (9 bp):
AGTTATTCG
Found at i:14688602 original size:47 final size:47
Alignment explanation
Indices: 14688540--14688632 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
14688530 ATAAAATAAA
** *
14688540 AGTCTTAAGTGATAGTGGTTTAATTAGCTGGGT-GTTGAAAATATTGT
1 AGTCTTAAGAAATAGTGGTTTAATAAGCT-GGTCGTTGAAAATATTGT
*
14688587 AGTCTTAAGAAATAGTGGTTTGATAAGCTGGTCGTTGAAAATATTG
1 AGTCTTAAGAAATAGTGGTTTAATAAGCTGGTCGTTGAAAATATTG
14688633 AAATGATTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 3 0.07
47 38 0.93
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (47 bp):
AGTCTTAAGAAATAGTGGTTTAATAAGCTGGTCGTTGAAAATATTGT
Found at i:14695115 original size:46 final size:45
Alignment explanation
Indices: 14695048--14695373 Score: 377
Period size: 46 Copynumber: 7.6 Consensus size: 45
14695038 TTTGAGTACT
* *
14695048 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
14695094 TCTGATCAAGTGAAAAAGTGATAAGT--T--C-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
14695130 TTTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
14695166 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
* * *
14695212 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCAGTTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
14695258 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* * *
14695304 TTTGATCAAGTGAAAAAGTGATAAATGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
*
14695349 TCTGATCAAG-G-ACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
14695374 ATCATACGTA
Statistics
Matches: 251, Mismatches: 16, Indels: 29
0.85 0.05 0.10
Matches are distributed among these distances:
35 1 0.00
36 59 0.24
38 1 0.00
39 2 0.01
40 4 0.02
42 3 0.01
43 12 0.05
44 3 0.01
45 22 0.09
46 143 0.57
47 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:14695130 original size:36 final size:36
Alignment explanation
Indices: 14695084--14695192 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
14695074 GGTAGCTTTA
*
14695084 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
14695120 TCTATACTTATTTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
14695156 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
14695192 G
1 G
14695193 GTAGCTTTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:14699793 original size:41 final size:41
Alignment explanation
Indices: 14699715--14699813 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
14699705 CTATATGATT
* *
14699715 AGCACTAAGTGTGCG-AATTAAATGATGAGGTTGAATAACG
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
* *
14699755 AGCGCTAAGTGTGCGAAATTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
14699796 AGCACTAAGTGTGCGAAA
1 AGCACTAAGTGTGCGAAA
14699814 CCGAGATCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 14 0.26
41 39 0.74
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.24
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAATTAAATAATGAGGTTAAATAACG
Found at i:14725291 original size:30 final size:30
Alignment explanation
Indices: 14725255--14725337 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
14725245 GTATATGTTT
*
14725255 TATACATTGTCGAATTGATTTGTATGTAGA
1 TATACATTGTCGAATTGATTTGTATATAGA
* * *
14725285 TATACATTGTTGAATTTGATTCGTATATGGA
1 TATACATTGTCGAA-TTGATTTGTATATAGA
** **
14725316 TATATTTTACCGAATTGATTTG
1 TATACATTGTCGAATTGATTTG
14725338 AGCTTTGGAT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
30 20 0.48
31 22 0.52
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.46
Consensus pattern (30 bp):
TATACATTGTCGAATTGATTTGTATATAGA
Found at i:14725513 original size:43 final size:43
Alignment explanation
Indices: 14725452--14725559 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 43
14725442 ACTTCTGAGG
* *
14725452 TGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATT
1 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
*
14725495 TGAGATTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
*
14725538 CGAGATTTCTATGTAAGACCAT
1 TGAGATTTC-ATGTAAGACCAT
14725560 GTCTAGGACA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 48 0.81
44 11 0.19
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGAGATTTCATGTAAGACCATAGCTAGGCTATTGGCATCGATA
Found at i:14729329 original size:29 final size:29
Alignment explanation
Indices: 14729287--14729345 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
14729277 AAATTCGCAG
14729287 ATAGTTTTCGGGTTGAATGGAACATCCTT
1 ATAGTTTTCGGGTTGAATGGAACATCCTT
14729316 ATAGTTTTCGGGTTGAATGGAACATCCTT
1 ATAGTTTTCGGGTTGAATGGAACATCCTT
14729345 A
1 A
14729346 CCTCTTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (29 bp):
ATAGTTTTCGGGTTGAATGGAACATCCTT
Found at i:14737869 original size:41 final size:40
Alignment explanation
Indices: 14737812--14738046 Score: 289
Period size: 41 Copynumber: 5.8 Consensus size: 40
14737802 TTTGGGGGCA
* *
14737812 TTTAGAGGCGTTTTTGAAAAAGCGCTACTAATGCTCGAGGC
1 TTTAGCGGCGTTTTTGAAAAAGCGC-GCTAATGCTCGAGGC
*
14737853 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGAGCC
1 TTTAGCGGCGTTTTTGAAAAAGCG-CGCTAATGCTCGAGGC
* *
14737894 TTTAGCGGCGTTTTTGGAAAAGCGACGCTAATACTCG-GGCC
1 TTTAGCGGCGTTTTTGAAAAAGCG-CGCTAATGCTCGAGG-C
* *
14737935 TTTAGCGGCGTTTTTGGAAAAGCGACGCTAATACTCG-GGCC
1 TTTAGCGGCGTTTTTGAAAAAGCG-CGCTAATGCTCGAGG-C
*
14737976 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT--AGCC
1 TTTAGCGGCGTTTTTGAAAAAGCG-CGCTAATGCTCGAGGC
*
14738015 TTTAGAGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCG-CGCTAAT
14738047 AATAAAATCT
Statistics
Matches: 179, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 32 0.18
40 2 0.01
41 144 0.80
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCGCTAATGCTCGAGGC
Done.