Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 21 of 211
Found at i:6453745 original size:30 final size:30
Alignment explanation
Indices: 6453711--6453769 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
6453701 TTTTCCTCCA
6453711 CCATGCCCGCCACTACCACCACAACTACCG
1 CCATGCCCGCCACTACCACCACAACTACCG
* * * * *
6453741 CCATGTCCTCCGCTGCCACCACCACTACC
1 CCATGCCCGCCACTACCACCACAACTACC
6453770 TCCGTATCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.54, G:0.10, T:0.14
Consensus pattern (30 bp):
CCATGCCCGCCACTACCACCACAACTACCG
Found at i:6453848 original size:36 final size:35
Alignment explanation
Indices: 6453756--6453850 Score: 113
Period size: 33 Copynumber: 2.7 Consensus size: 35
6453746 TCCTCCGCTG
* * * *
6453756 CCACCACCACTACCTCCGTATCCTCCACCATGTCCA
1 CCACTACCACT-CCACCGTGTCCTCCACCATATCCA
*
6453792 CCACTACCA--CCACCCTGTCCTCCACCATATCCA
1 CCACTACCACTCCACCGTGTCCTCCACCATATCCA
6453825 CCACTACCACTGCCACCGTGTCCTCC
1 CCACTACCACT-CCACCGTGTCCTCC
6453851 CCCACTGCCG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 29 0.58
36 21 0.42
ACGTcount: A:0.21, C:0.54, G:0.06, T:0.19
Consensus pattern (35 bp):
CCACTACCACTCCACCGTGTCCTCCACCATATCCA
Found at i:6453899 original size:30 final size:30
Alignment explanation
Indices: 6453830--6453902 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
6453820 ATCCACCACT
* * *
6453830 ACCACTGCCACCGTGTCCTCCCCCACTGCC
1 ACCACTGCCTCCATGTCCTCCACCACTGCC
*
6453860 GCCACTGCCTCCATGTCCTCCACCA-TGCCC
1 ACCACTGCCTCCATGTCCTCCACCACTG-CC
6453890 ACCACTGCCTCCA
1 ACCACTGCCTCCA
6453903 CCACTACCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.15, C:0.55, G:0.12, T:0.18
Consensus pattern (30 bp):
ACCACTGCCTCCATGTCCTCCACCACTGCC
Found at i:6453912 original size:21 final size:21
Alignment explanation
Indices: 6453888--6453942 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
6453878 TCCACCATGC
*
6453888 CCACCACTGCCTCCACCACTA
1 CCACCACTGCCTCCACCACCA
*
6453909 CCACCA-TGTCCTCCGCCACCA
1 CCACCACTG-CCTCCACCACCA
6453930 CCACCACTGCCTC
1 CCACCACTGCCTC
6453943 TCTGCCCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.20, C:0.58, G:0.07, T:0.15
Consensus pattern (21 bp):
CCACCACTGCCTCCACCACCA
Found at i:6453937 original size:72 final size:72
Alignment explanation
Indices: 6453830--6454271 Score: 440
Period size: 72 Copynumber: 6.2 Consensus size: 72
6453820 ATCCACCACT
* * * ** * *
6453830 ACCACTGCCACCGTGTCCTCCCCCACTGCCGCCACTGCCTCCATGTCCTCCACCATGCCCACCAC
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
*
6453895 TGCCTCC
66 TGCCGCC
*
6453902 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCT-CTCTGCCCTCCACCATGCCCACCA
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCT-TGTCCTCCACCATGCCCACCA
6453966 CTGCCGCC
65 CTGCCGCC
* *
6453974 ACCGCTACCACCATGACCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
6454039 TGCCGCC
66 TGCCGCC
* * * * * * * *
6454046 ACTACTACCACCA----CT--ACTACCACCACCA-TGTCCGCCACT-ACCACCACCACTACTACC
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTG-CCTCC-TTGTCCTCCACCA-TGC--CC
6454103 ACCACCATGTCCG--
61 ACCA-C-TG-CCGCC
* * * *
6454116 -CCACTGCCACCATGTCTTCCGCCACCACCACCACTACCGCCTTGTCCTCCACCATGCCCACCAC
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
6454180 TGCCGCC
66 TGCCGCC
* * * * * *
6454187 ACCGCTACCACCATGACCTCCGCCACCACCGCCACTACCTTCTTGTCCTCCACCATGCCCGCCAC
1 ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
*
6454252 TACCGCC
66 TGCCGCC
*
6454259 ACCACTACTACCA
1 ACCACTACCACCA
6454272 CCACCATGTC
Statistics
Matches: 307, Mismatches: 42, Indels: 42
0.79 0.11 0.11
Matches are distributed among these distances:
65 2 0.01
66 23 0.07
67 3 0.01
68 2 0.01
69 19 0.06
70 3 0.01
71 4 0.01
72 220 0.72
73 3 0.01
74 3 0.01
75 24 0.08
76 1 0.00
ACGTcount: A:0.19, C:0.54, G:0.10, T:0.16
Consensus pattern (72 bp):
ACCACTACCACCATGTCCTCCGCCACCACCACCACTGCCTCCTTGTCCTCCACCATGCCCACCAC
TGCCGCC
Found at i:6453958 original size:42 final size:42
Alignment explanation
Indices: 6453861--6453942 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
6453851 CCCACTGCCG
* * *
6453861 CCACTGCCTCCATGTCCTCCACCATGCCCACCACTGCCTCCA
1 CCACTACCACCATGTCCTCCACCATCCCCACCACTGCCTCCA
*
6453903 CCACTACCACCATGTCCTCCGCCA-CCACCACCACTGCCTC
1 CCACTACCACCATGTCCTCCACCATCC-CCACCACTGCCTC
6453943 TCTGCCCTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.18, C:0.56, G:0.09, T:0.17
Consensus pattern (42 bp):
CCACTACCACCATGTCCTCCACCATCCCCACCACTGCCTCCA
Found at i:6454014 original size:21 final size:21
Alignment explanation
Indices: 6453960--6454015 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6453950 TCCACCATGC
* * *
6453960 CCACCACTGCCGCCACCGCTA
1 CCACCACTGCCTCCACCACCA
*
6453981 CCACCA-TGACCTCCGCCACCA
1 CCACCACTG-CCTCCACCACCA
6454002 CCACCACTGCCTCC
1 CCACCACTGCCTCC
6454016 TTGTCCTCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.20, C:0.59, G:0.11, T:0.11
Consensus pattern (21 bp):
CCACCACTGCCTCCACCACCA
Found at i:6454047 original size:12 final size:12
Alignment explanation
Indices: 6454032--6454107 Score: 59
Period size: 12 Copynumber: 6.6 Consensus size: 12
6454022 TCCACCATGC
* *
6454032 CCACCACTGCCG
1 CCACCACTACCA
*
6454044 CCACTACTACCA
1 CCACCACTACCA
*
6454056 CCACTACTACCA
1 CCACCACTACCA
**
6454068 CCACCA-T--GT
1 CCACCACTACCA
*
6454077 CCGCCACTACCA
1 CCACCACTACCA
*
6454089 CCACCACTACTA
1 CCACCACTACCA
6454101 CCACCAC
1 CCACCAC
6454108 CATGTCCGCC
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
9 5 0.10
10 1 0.02
11 1 0.02
12 43 0.86
ACGTcount: A:0.28, C:0.54, G:0.05, T:0.13
Consensus pattern (12 bp):
CCACCACTACCA
Found at i:6454071 original size:243 final size:243
Alignment explanation
Indices: 6453474--6454039 Score: 803
Period size: 243 Copynumber: 2.3 Consensus size: 243
6453464 GCCACTGCCG
* * *
6453474 CCACCACTACCCCCACCACCACCGCCATGTCCTCCACTACCACCACCACTACCTCCATGTCCTCC
1 CCACCACTACCACCACCACTACCGCCATGTCCTCCGCTACCACCACCACTACCTCCATGTCCTCC
* *
6453539 ACCATGTCCACCACTACCACCACCCTGTCCTCCACCATATCCGCCACTGCCACTACCACCGTGTC
66 ACCATGTCCACCACTACCACCACCCTGTCCTCCACCATATCCACCACTACCACTACCACCGTGTC
* ** * * *
6453604 CTCCGCTGCTGCCGCCACTGCCTCCCTGTCCTCCACCATGTCCACCACTACCTCCACCACTACCG
131 CTCCCCCACTGCCGCCACTGCCTCCATGTCCTCCACCATGCCCACCACTACCTCCACCACTACCA
* * * * **
6453669 CCGTGTCCTCTGCGACCGCCACCACTGCTGCCTTTTCCTCCACCATGC
196 CCATGTCCTCCGCCACCACCACCACTGCTGCCTTGCCCTCCACCATGC
* * * * *
6453717 CCGCCACTACCACCACAACTACCGCCATGTCCTCCGCTGCCACCACCACTACCTCCGTATCCTCC
1 CCACCACTACCACCACCACTACCGCCATGTCCTCCGCTACCACCACCACTACCTCCATGTCCTCC
*
6453782 ACCATGTCCACCACTACCACCACCCTGTCCTCCACCATATCCACCACTACCACTGCCACCGTGTC
66 ACCATGTCCACCACTACCACCACCCTGTCCTCCACCATATCCACCACTACCACTACCACCGTGTC
*
6453847 CTCCCCCACTGCCGCCACTGCCTCCATGTCCTCCACCATGCCCACCACTGCCTCCACCACTACCA
131 CTCCCCCACTGCCGCCACTGCCTCCATGTCCTCCACCATGCCCACCACTACCTCCACCACTACCA
6453912 CCATGTCCTCCGCCACCACCACCACTGC--CTCTCTGCCCTCCACCATGC
196 CCATGTCCTCCGCCACCACCACCACTGCTGC-CT-TGCCCTCCACCATGC
* * * * * * * *
6453960 CCACCACTGCCGCCACCGCTACCACCATGACCTCCGCCACCACCACCACTGCCTCCTTGTCCTCC
1 CCACCACTACCACCACCACTACCGCCATGTCCTCCGCTACCACCACCACTACCTCCATGTCCTCC
*
6454025 ACCATGCCCACCACT
66 ACCATGTCCACCACT
6454040 GCCGCCACTA
Statistics
Matches: 284, Mismatches: 37, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
241 1 0.00
242 2 0.01
243 281 0.99
ACGTcount: A:0.18, C:0.54, G:0.10, T:0.18
Consensus pattern (243 bp):
CCACCACTACCACCACCACTACCGCCATGTCCTCCGCTACCACCACCACTACCTCCATGTCCTCC
ACCATGTCCACCACTACCACCACCCTGTCCTCCACCATATCCACCACTACCACTACCACCGTGTC
CTCCCCCACTGCCGCCACTGCCTCCATGTCCTCCACCATGCCCACCACTACCTCCACCACTACCA
CCATGTCCTCCGCCACCACCACCACTGCTGCCTTGCCCTCCACCATGC
Found at i:6454072 original size:36 final size:36
Alignment explanation
Indices: 6454032--6454127 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
6454022 TCCACCATGC
*
6454032 CCACCACTG-CCGCCACTACTACCACCACTACTACCA
1 CCACCA-TGTCCGCCACTACCACCACCACTACTACCA
6454068 CCACCATGTCCGCCACTACCACCACCACTACTACCA
1 CCACCATGTCCGCCACTACCACCACCACTACTACCA
*
6454104 CCACCATGTCCGCCACTGCCACCA
1 CCACCATGTCCGCCACTACCACCA
6454128 TGTCTTCCGC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
35 2 0.04
36 55 0.96
ACGTcount: A:0.26, C:0.53, G:0.07, T:0.14
Consensus pattern (36 bp):
CCACCATGTCCGCCACTACCACCACCACTACTACCA
Found at i:6454085 original size:21 final size:21
Alignment explanation
Indices: 6454061--6454127 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
6454051 TACCACCACT
6454061 ACTACCACCACCATGTCCGCC
1 ACTACCACCACCATGTCCGCC
*
6454082 ACTACCACCACCA------CT
1 ACTACCACCACCATGTCCGCC
6454097 ACTACCACCACCATGTCCGCC
1 ACTACCACCACCATGTCCGCC
*
6454118 ACTGCCACCA
1 ACTACCACCA
6454128 TGTCTTCCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
15 14 0.38
21 23 0.62
ACGTcount: A:0.27, C:0.52, G:0.07, T:0.13
Consensus pattern (21 bp):
ACTACCACCACCATGTCCGCC
Found at i:6454146 original size:21 final size:18
Alignment explanation
Indices: 6454064--6454148 Score: 62
Period size: 18 Copynumber: 4.6 Consensus size: 18
6454054 CACCACTACT
6454064 ACCACCACCATGTCCGCC
1 ACCACCACCATGTCCGCC
* *** ** *
6454082 ACTACCACCACCACTACT
1 ACCACCACCATGTCCGCC
6454100 ACCACCACCATGTCCGCC
1 ACCACCACCATGTCCGCC
**
6454118 ACTGCCACCATGTCTTCCGCC
1 ACCACCACCATG---TCCGCC
6454139 ACCACCACCA
1 ACCACCACCA
6454149 CTACCGCCTT
Statistics
Matches: 46, Mismatches: 18, Indels: 3
0.69 0.27 0.04
Matches are distributed among these distances:
18 32 0.70
21 14 0.30
ACGTcount: A:0.25, C:0.53, G:0.08, T:0.14
Consensus pattern (18 bp):
ACCACCACCATGTCCGCC
Found at i:6454348 original size:30 final size:30
Alignment explanation
Indices: 6454294--6454354 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
6454284 CCACTGCCAG
* *
6454294 CATGTCCTCTGCCACCACCGCCACTACCGC
1 CATGTCCTCCGCCACCACCACCACTACCGC
* * *
6454324 CATGTCCTCCGCCTCCGCCACCACTTCCGC
1 CATGTCCTCCGCCACCACCACCACTACCGC
6454354 C
1 C
6454355 GCCACTGCCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.13, C:0.56, G:0.13, T:0.18
Consensus pattern (30 bp):
CATGTCCTCCGCCACCACCACCACTACCGC
Found at i:6454387 original size:42 final size:41
Alignment explanation
Indices: 6454311--6454396 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 41
6454301 TCTGCCACCA
* *
6454311 CCGCCACTACCGCCATGTCCTCCGCCTCCGCCACCACTTCCG
1 CCGCCACTACCGCCATGTCCTCCACCT-CGCCACCACTGCCG
* *
6454353 CCGCCACTGCCGCCTTGTCCTCCACCAT-GTCCACCACTGCCG
1 CCGCCACTACCGCCATGTCCTCCACC-TCG-CCACCACTGCCG
6454395 CC
1 CC
6454397 TTGTCCTCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 36 0.95
43 1 0.03
ACGTcount: A:0.12, C:0.56, G:0.15, T:0.17
Consensus pattern (41 bp):
CCGCCACTACCGCCATGTCCTCCACCTCGCCACCACTGCCG
Found at i:6454390 original size:30 final size:30
Alignment explanation
Indices: 6454356--6454420 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
6454346 ACTTCCGCCG
6454356 CCACTGCCGCCTTGTCCTCCACCATGTCCA
1 CCACTGCCGCCTTGTCCTCCACCATGTCCA
6454386 CCACTGCCGCCTTGTCCTCCACCATGTCCA
1 CCACTGCCGCCTTGTCCTCCACCATGTCCA
6454416 CCACT
1 CCACT
6454421 ACCATTTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.14, C:0.51, G:0.12, T:0.23
Consensus pattern (30 bp):
CCACTGCCGCCTTGTCCTCCACCATGTCCA
Found at i:6454402 original size:168 final size:168
Alignment explanation
Indices: 6454068--6454424 Score: 464
Period size: 168 Copynumber: 2.1 Consensus size: 168
6454058 ACTACTACCA
*
6454068 CCACCATGTCCGCCACTACCACCACCACTACTACCACCACCATGTCCGCCACTGCCACCATGTCT
1 CCACCATGTCCGCCACTACCACCACCACTACTACCACCACCATGTCCGCCACTGCCACCATGTCC
* * *
6454133 TCCGCCACCACCACCACTACCGCCTTGTCCTCCACCATGCCCACCACTGCCGCCACCGCTACCAC
66 TCCGCCACCACCACCACTACCGCCATGTCCTCCACCATCCCCACCACTGCCGCCACCACTACCAC
* * **
6454198 CATGACCTCCGCCACCACCGCCACTACCTTCTTGTCCT
131 CATGACCTCCACCACCACCACCACTACCGCCTTGTCCT
* * * *
6454236 CCACCATGCCCGCCACTACCGCCACCACTACTACCACCACCATGTCTGCCACTGCCAGCATGTCC
1 CCACCATGTCCGCCACTACCACCACCACTACTACCACCACCATGTCCGCCACTGCCACCATGTCC
* * * * * * *
6454301 TCTGCCACCACCGCCACTACCGCCATGTCCTCCGCC-TCCGCCACCACTTCCGCCGCCACTGCCG
66 TCCGCCACCACCACCACTACCGCCATGTCCTCCACCATCC-CCACCACTGCCGCCACCACTACCA
* * *** *
6454365 CCTTGTCCTCCACCATGTCCACCACTGCCGCCTTGTCCT
130 CCATGACCTCCACCACCACCACCACTACCGCCTTGTCCT
*
6454404 CCACCATGTCCACCACTACCA
1 CCACCATGTCCGCCACTACCA
6454425 TTTCCTAGGT
Statistics
Matches: 160, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
167 2 0.01
168 158 0.99
ACGTcount: A:0.18, C:0.53, G:0.11, T:0.18
Consensus pattern (168 bp):
CCACCATGTCCGCCACTACCACCACCACTACTACCACCACCATGTCCGCCACTGCCACCATGTCC
TCCGCCACCACCACCACTACCGCCATGTCCTCCACCATCCCCACCACTGCCGCCACCACTACCAC
CATGACCTCCACCACCACCACCACTACCGCCTTGTCCT
Found at i:6456450 original size:17 final size:17
Alignment explanation
Indices: 6456430--6456470 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
6456420 AAACTATTCT
6456430 TATTAAATGCAAATCAA
1 TATTAAATGCAAATCAA
*
6456447 TATTAAATGCAAATTAA
1 TATTAAATGCAAATCAA
6456464 T-TTAAAT
1 TATTAAAT
6456471 ATTCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (17 bp):
TATTAAATGCAAATCAA
Found at i:6456492 original size:21 final size:21
Alignment explanation
Indices: 6456457--6456498 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6456447 TATTAAATGC
6456457 AAATTAATTTAAATATTCAAAA
1 AAATTAATTTAAATATT-AAAA
*
6456479 AAATT-ATTTTAATATTAAAA
1 AAATTAATTTAAATATTAAAA
6456499 TGAAGGACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTAATTTAAATATTAAAA
Found at i:6463825 original size:14 final size:12
Alignment explanation
Indices: 6463793--6463828 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6463783 TTTGGTTTTC
6463793 ATTATTTATATT
1 ATTATTTATATT
6463805 ATTATTTATATT
1 ATTATTTATATT
6463817 -TT-TTTAT-TT
1 ATTATTTATATT
6463826 ATT
1 ATT
6463829 TGATTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 7 0.30
11 2 0.09
12 12 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTATTTATATT
Found at i:6464620 original size:25 final size:26
Alignment explanation
Indices: 6464571--6464626 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
6464561 GGAATCTCCT
6464571 TTTA-CAAAGTAAAATAGTACAAAAC
1 TTTATCAAAGTAAAATAGTACAAAAC
6464596 TTTATCAAAGTAAAATAGTAC-AAAC
1 TTTATCAAAGTAAAATAGTACAAAAC
6464621 TTTATC
1 TTTATC
6464627 TATTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 14 0.47
26 16 0.53
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.30
Consensus pattern (26 bp):
TTTATCAAAGTAAAATAGTACAAAAC
Found at i:6465640 original size:59 final size:58
Alignment explanation
Indices: 6465568--6465736 Score: 229
Period size: 59 Copynumber: 2.9 Consensus size: 58
6465558 ATGAGTTAGG
*
6465568 TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATATCTTCTTCTTTTTTTCAC-
1 TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATGTCTTC-T-TTTTTTTCACA
6465627 TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATGTCTTCTTTTTTTTCACA
1 TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATGTCTTCTTTTTTTTCACA
* ** * *
6465685 T-ACGGA-GTGTTGAAAGAAAGTGGAGAGTTTGACACAATGTCTT-TTTTGTTTT
1 TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATGTCTTCTTTT-TTTT
6465737 GGGAAGATGA
Statistics
Matches: 102, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
55 4 0.04
56 39 0.38
57 12 0.12
58 2 0.02
59 45 0.44
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.38
Consensus pattern (58 bp):
TGGCACATTTGTTGAAAGGAAGTGGAGAGTTTGACACAATGTCTTCTTTTTTTTCACA
Found at i:6473839 original size:30 final size:29
Alignment explanation
Indices: 6473790--6473923 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 29
6473780 TAAATATTTT
* *
6473790 TATTTTTAAATTTTTTTTTAATTTTAAAA
1 TATTTTTAAAATATTTTTTAATTTTAAAA
***
6473819 TATTTTTAAAATACTTTTTTAAATTTT-TTT
1 TATTTTTAAAATA-TTTTTT-AATTTTAAAA
* *
6473849 TAATTTTAAAATA---CTT--TTTTAAAA
1 TATTTTTAAAATATTTTTTAATTTTAAAA
6473873 TACTTTTTTAAAAT-TTTTTTAATTTTAAAA
1 TA--TTTTTAAAATATTTTTTAATTTTAAAA
6473903 TATTTTTAAAATATTTTTTAA
1 TATTTTTAAAATATTTTTTAA
6473924 AAATTTTTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 22
0.71 0.10 0.19
Matches are distributed among these distances:
23 4 0.05
24 2 0.02
26 11 0.13
28 12 0.15
29 19 0.23
30 28 0.34
31 6 0.07
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (29 bp):
TATTTTTAAAATATTTTTTAATTTTAAAA
Found at i:6473868 original size:43 final size:42
Alignment explanation
Indices: 6473792--6473949 Score: 232
Period size: 43 Copynumber: 3.7 Consensus size: 42
6473782 AATATTTTTA
6473792 TTTTTAAATTTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAAATTTTTTTTTAATTTTAAAATATTTTTAAAATACT
6473834 TTTTTAAA-TTTTTTTTAATTTTAAAATACTTTTTTAAAATACT
1 TTTTTAAATTTTTTTTTAATTTTAAAATA--TTTTTAAAATACT
*
6473877 TTTTTAAA-ATTTTTTTAATTTTAAAATATTTTTAAAATA-T
1 TTTTTAAATTTTTTTTTAATTTTAAAATATTTTTAAAATACT
6473917 TTTTTAAAAATTTTTGTTTTAATTTTTAAAATA
1 TTTTT--AAATTTTT-TTTTAA-TTTTAAAATA
6473950 AATTTTTGGT
Statistics
Matches: 107, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
40 6 0.06
41 31 0.29
42 11 0.10
43 43 0.40
44 6 0.06
45 10 0.09
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.61
Consensus pattern (42 bp):
TTTTTAAATTTTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:6473926 original size:13 final size:12
Alignment explanation
Indices: 6473811--6473931 Score: 87
Period size: 11 Copynumber: 11.2 Consensus size: 12
6473801 TTTTTTTTAA
6473811 TTTTAAAATA-T
1 TTTTAAAATATT
6473822 TTTTAAAATACTT
1 TTTTAAAATA-TT
6473835 TTTT-AAAT-TT
1 TTTTAAAATATT
*
6473845 TTTT----TA-A
1 TTTTAAAATATT
6473852 TTTTAAAATACTT
1 TTTTAAAATA-TT
6473865 TTTTAAAATACTT
1 TTTTAAAATA-TT
6473878 TTTTAAAAT-TT
1 TTTTAAAATATT
6473889 TTTT---A-A--
1 TTTTAAAATATT
6473895 TTTTAAAATA-T
1 TTTTAAAATATT
6473906 TTTTAAAATATT
1 TTTTAAAATATT
6473918 TTTTAAAA-ATT
1 TTTTAAAATATT
6473929 TTT
1 TTT
6473932 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 2, Indels: 32
0.73 0.02 0.25
Matches are distributed among these distances:
6 4 0.04
7 5 0.05
8 1 0.01
9 1 0.01
10 7 0.08
11 34 0.37
12 13 0.14
13 27 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAAATATT
Found at i:6475638 original size:43 final size:43
Alignment explanation
Indices: 6475563--6475726 Score: 231
Period size: 43 Copynumber: 3.8 Consensus size: 43
6475553 GCGTCGTTAA
* * *
6475563 CTTTAGCGGTGCTTTTCCCA-AAAATGCTGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTACCACAAAA-GCCGCTAAAGACCAGGAC
*
6475606 CTTTAGTGGCGCTTTTACCACAAAAGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTACCACAAAAGCCGCTAAAGACCAGGAC
* * *
6475649 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAGTAC
1 CTTTAGCGGCGCTTTTACCACAAAAGCCGCTAAAGACCAGGAC
*
6475692 CTTTAGCGGCGCTTTTTACCACAAACGCCGCTAAA
1 CTTTAGCGGCGC-TTTTACCACAAAAGCCGCTAAA
6475727 AACATGACTT
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
43 85 0.78
44 24 0.22
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAAAGCCGCTAAAGACCAGGAC
Found at i:6475667 original size:86 final size:87
Alignment explanation
Indices: 6475563--6475726 Score: 267
Period size: 86 Copynumber: 1.9 Consensus size: 87
6475553 GCGTCGTTAA
* * *
6475563 CTTTAGCGGTGCTTTTCCCAAAAATGCTGCTAAAGACCAGGACCTTTAGTGGCGC-TTTTACCAC
1 CTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTACCAC
6475627 AAAAGCCGCTAAAGACCAGGAC
66 AAAAGCCGCTAAAGACCAGGAC
* *
6475649 CTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAGACCAGTACCTTTAGCGGCGCTTTTTACCAC
1 CTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTACCAC
*
6475714 AAACGCCGCTAAA
66 AAAAGCCGCTAAA
6475727 AACATGACTT
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 50 0.70
87 21 0.30
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (87 bp):
CTTTAGCGGCGCTTTTCCCAAAAATGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTACCAC
AAAAGCCGCTAAAGACCAGGAC
Found at i:6475767 original size:20 final size:19
Alignment explanation
Indices: 6475742--6475789 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
6475732 GACTTAAAAA
6475742 ATATTTTAAT-TAAATAATAT
1 ATATTTTAATATAAAT-AT-T
*
6475762 ATATTTTTATCATAAATATT
1 ATATTTTAAT-ATAAATATT
6475782 ATATTTTA
1 ATATTTTA
6475790 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 17 0.71
21 2 0.08
22 5 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTTAATATAAATATT
Found at i:6478448 original size:41 final size:41
Alignment explanation
Indices: 6478330--6478485 Score: 181
Period size: 41 Copynumber: 3.9 Consensus size: 41
6478320 ATTTTTTGCA
* * *
6478330 GCGCTT-TTTAAAAACGCCGCTAAAGACTCGAGAATTAGCG
1 GCGCTTCTTCAAAAACGCCGCTAAAGACCCGAAAATTAGCG
* * * * **
6478370 GCGCCTCTT-AAAAATGCCGCTAAATACCAGATCATTAGCG
1 GCGCTTCTTCAAAAACGCCGCTAAAGACCCGAAAATTAGCG
* *
6478410 GCGCTTCTTCAAAAGCGCCACTAAAGACCCGAAAATTAGCG
1 GCGCTTCTTCAAAAACGCCGCTAAAGACCCGAAAATTAGCG
* *
6478451 GCGCTTCTTCAAAAACGTCGCTAAAGCCCCGAAAA
1 GCGCTTCTTCAAAAACGCCGCTAAAGACCCGAAAA
6478486 CTCAACAGAC
Statistics
Matches: 95, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
40 38 0.40
41 57 0.60
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
GCGCTTCTTCAAAAACGCCGCTAAAGACCCGAAAATTAGCG
Found at i:6478596 original size:40 final size:40
Alignment explanation
Indices: 6478507--6478641 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
6478497 TAGGCTTAGG
* *
6478507 TTTTTTGCGGCGCTTTT-TGTAAAA-CGACGCTAATGCTC-A
1 TTTTTAGCGGCG-TTTTCT-TAAAAGCGCCGCTAATGCTCGA
* * *
6478546 TTTTTAGCGGCGTTTTCTTGAAAGTGCCGCTAATACTCGA
1 TTTTTAGCGGCGTTTTCTTAAAAGCGCCGCTAATGCTCGA
* * *
6478586 TCTTTAGCGGCGTTTTCTTAAAAGCGCCGGTAATGCTTGA
1 TTTTTAGCGGCGTTTTCTTAAAAGCGCCGCTAATGCTCGA
6478626 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
6478642 TTATCCAAAC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
38 8 0.10
39 23 0.28
40 50 0.62
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCTTAAAAGCGCCGCTAATGCTCGA
Found at i:6485765 original size:33 final size:32
Alignment explanation
Indices: 6485728--6485874 Score: 96
Period size: 33 Copynumber: 4.4 Consensus size: 32
6485718 ATAACCTAGT
6485728 TATGGTCTTATCATTAGAATGCCATAGCCCAAC
1 TATGGTCTTA-CATTAGAATGCCATAGCCCAAC
* * * *
6485761 TATGGTCTTACATATAAACACTGTCATGGTCCAAC
1 TATGGTCTTACAT-TAGA-A-TGCCATAGCCCAAC
* * * * * * **
6485796 CATGGTCTTACGTTCATAGTGCCATAACTCAGT
1 TATGGTCTTACATT-AGAATGCCATAGCCCAAC
* * * *
6485829 TATGGTCTTATCATCAGAATTCCACAGCCCAGC
1 TATGGTCTTA-CATTAGAATGCCATAGCCCAAC
6485862 TATGGTCTTACAT
1 TATGGTCTTACAT
6485875 ATAAACACTA
Statistics
Matches: 84, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
32 6 0.07
33 50 0.60
34 4 0.05
35 24 0.29
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (32 bp):
TATGGTCTTACATTAGAATGCCATAGCCCAAC
Found at i:6485890 original size:101 final size:101
Alignment explanation
Indices: 6485702--6485892 Score: 294
Period size: 101 Copynumber: 1.9 Consensus size: 101
6485692 AATTCGTCCT
* * *
6485702 TTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATTAGAATGCCATAGCCCAACTATGGT
1 TTACATTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATGGT
**
6485767 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
66 CTTACATATAAACACTACCATGGTCCAACCATGGTC
* * *
6485803 TTACGTTCATAGTGCCATAA-CTCAGTTATGGTCTTATCATCAGAATTCCACAGCCCAGCTATGG
1 TTACATTCATAGTGCCATAACCT-AGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATGG
6485867 TCTTACATATAAACACTACCATGGTC
65 TCTTACATATAAACACTACCATGGTC
6485893 TTATCCGTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
100 2 0.02
101 79 0.98
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (101 bp):
TTACATTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCACAGCCCAACTATGGT
CTTACATATAAACACTACCATGGTCCAACCATGGTC
Found at i:6505495 original size:2 final size:2
Alignment explanation
Indices: 6505488--6505520 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6505478 TTGTTATTAT
6505488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6505521 GTGCATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6510095 original size:31 final size:32
Alignment explanation
Indices: 6510031--6510095 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6510021 GGCAAATTAC
*
6510031 AAGAGTAATTGAATCCTAATAAAAATTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6510063 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6510094 AA
1 AA
6510096 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:6516273 original size:31 final size:32
Alignment explanation
Indices: 6516209--6516273 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6516199 GGCAAATTAC
*
6516209 AAGAGTAATTGAATCCTAATAAAAATTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6516241 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
6516272 AA
1 AA
6516274 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.38
32 20 0.62
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:6520588 original size:13 final size:13
Alignment explanation
Indices: 6520570--6520594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6520560 AATTGCTTAT
6520570 CAAATGCATATAC
1 CAAATGCATATAC
6520583 CAAATGCATATA
1 CAAATGCATATA
6520595 TATTTAATAT
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:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:6520880 original size:41 final size:42
Alignment explanation
Indices: 6520835--6520919 Score: 136
Period size: 41 Copynumber: 2.0 Consensus size: 42
6520825 CACCGACATT
* *
6520835 AAGCCTGCTAGACGTATAGTCTGAATAATTTCACTGGC-ATA
1 AAGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATA
*
6520876 AAGCCTGCTAGACATAAAGTCTGAATTATTTCACTGGCAATA
1 AAGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATA
6520918 AA
1 AA
6520920 TCAGATTAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 35 0.88
42 5 0.12
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (42 bp):
AAGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATA
Found at i:6522596 original size:27 final size:27
Alignment explanation
Indices: 6522531--6522597 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
6522521 TTTGTTTAAT
* * *
6522531 TATAATATTATAATATAATATATATAT
1 TATAATATTATAATATAATATAAAAAC
*
6522558 TATAACATTTATAAT-TAATATAAAAAC
1 TATAATA-TTATAATATAATATAAAAAC
6522585 TATATATATTATA
1 TATA-ATATTATA
6522598 CACATGCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
TATAATATTATAATATAATATAAAAAC
Found at i:6524161 original size:26 final size:29
Alignment explanation
Indices: 6524108--6524163 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
6524098 ATGTTTCCAT
* *
6524108 TGATGAATTTTGTGATTTTTGATGTTATA
1 TGATGAATTTTGTGAATGTTGATGTTATA
6524137 TGATGAA-TTTG-GAATGTTGAT-TTATA
1 TGATGAATTTTGTGAATGTTGATGTTATA
6524163 T
1 T
6524164 TTAAAAGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 8 0.32
28 4 0.16
29 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (29 bp):
TGATGAATTTTGTGAATGTTGATGTTATA
Found at i:6527904 original size:5 final size:5
Alignment explanation
Indices: 6527894--6527926 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
6527884 AAAACTCATA
6527894 AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
6527927 CTAGTGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:6534653 original size:6 final size:6
Alignment explanation
Indices: 6534642--6534677 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
6534632 CCATTATTAT
* *
6534642 TTGCTG TTGCTG TTGCTG TTGCTG CTGCTG CTGCTG
1 TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG TTGCTG
6534678 AAATGGTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.44
Consensus pattern (6 bp):
TTGCTG
Found at i:6551620 original size:18 final size:18
Alignment explanation
Indices: 6551597--6551633 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6551587 TATGTATAGT
6551597 TTAATCATTAA-ATTTTAA
1 TTAATCA-TAATATTTTAA
6551615 TTAATCATAATATTTTAA
1 TTAATCATAATATTTTAA
6551633 T
1 T
6551634 CACCAACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAATCATAATATTTTAA
Found at i:6564286 original size:45 final size:45
Alignment explanation
Indices: 6564155--6564288 Score: 198
Period size: 45 Copynumber: 3.0 Consensus size: 45
6564145 CATGTTTTCA
** * * *
6564155 CATGATGCCATAATGTCTTTCAGCTAT-AGTCTTAATTATTTATAT
1 CATGATGCCATAACATCTTTCAGCTATGA-TCTTACTCATTTTTAT
*
6564200 CATGATGCCATAGCATCTTTCAGCTATGATCTTACTCATTTTTAT
1 CATGATGCCATAACATCTTTCAGCTATGATCTTACTCATTTTTAT
6564245 CATGATGCCATAACATCTTTCAGCTATGATCTTACTCATTTTTA
1 CATGATGCCATAACATCTTTCAGCTATGATCTTACTCATTTTTA
6564289 GACGTATAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 80 0.99
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAGCTATGATCTTACTCATTTTTAT
Found at i:6575936 original size:16 final size:16
Alignment explanation
Indices: 6575911--6575941 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6575901 TTATATCAAA
*
6575911 ATTTGTTTAAAAAAAT
1 ATTTGATTAAAAAAAT
6575927 ATTTGATTAAAAAAA
1 ATTTGATTAAAAAAA
6575942 ATTATCGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTTGATTAAAAAAAT
Found at i:6575943 original size:31 final size:34
Alignment explanation
Indices: 6575881--6575944 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 34
6575871 TTAAGATAAA
**
6575881 GTTTACAAAAAATATATTAATTATATCAAAATTT
1 GTTTACAAAAAATATATTAATTATAAAAAAATTT
*
6575915 GTTTA-AAAAAATAT-TTGATTA-AAAAAAATT
1 GTTTACAAAAAATATATTAATTATAAAAAAATT
6575945 ATCGTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 7 0.26
32 6 0.22
33 9 0.33
34 5 0.19
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (34 bp):
GTTTACAAAAAATATATTAATTATAAAAAAATTT
Found at i:6577410 original size:20 final size:19
Alignment explanation
Indices: 6577385--6577449 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
6577375 TTAGTAACTC
6577385 AAAATATTATAAAAACTTAA
1 AAAATATTATAAAAA-TTAA
* *
6577405 AAAATA-CATAAAAGTTCAA
1 AAAATATTATAAAAATT-AA
* *
6577424 AAAAAATTATAAATATTAA
1 AAAATATTATAAAAATTAA
6577443 AATAATA
1 AA-AATA
6577450 CATGAAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 2 0.06
19 17 0.49
20 16 0.46
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (19 bp):
AAAATATTATAAAAATTAA
Found at i:6577433 original size:39 final size:40
Alignment explanation
Indices: 6577385--6577472 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
6577375 TTAGTAACTC
*
6577385 AAAATATTATAAAAACTTAAAA-AATACAT-AAAAGTT-CAA
1 AAAAAATTATAAAAA-TTAAAATAATACATGAAAA-TTACAA
* *
6577424 AAAAAATTATAAATATTAAAATAATACATGAAAATTATAA
1 AAAAAATTATAAAAATTAAAATAATACATGAAAATTACAA
6577464 AAAAAATTA
1 AAAAAATTA
6577473 AAATGTTGTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
38 6 0.14
39 22 0.51
40 15 0.35
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (40 bp):
AAAAAATTATAAAAATTAAAATAATACATGAAAATTACAA
Found at i:6586615 original size:68 final size:69
Alignment explanation
Indices: 6586501--6586634 Score: 198
Period size: 68 Copynumber: 2.0 Consensus size: 69
6586491 GCAAAAGTAA
* *
6586501 TAGTTTTTGATGTATCAATTTATAGATAGATAAGTCAAATGCTAGTGTG-AAACAACTCTGGTGT
1 TAGTTTTTGATGCATCAATCTATAGATAGATAAGTCAAATGCTAGTGTGTAAACAACTCTGGTGT
6586565 TGTT
66 TGTT
* * * * *
6586569 TAGTTTTTGATGCATCAGTCTATCGATAGATAAGTCAAATGTTAGTGTGTGAACAACTCTGTTGT
1 TAGTTTTTGATGCATCAATCTATAGATAGATAAGTCAAATGCTAGTGTGTAAACAACTCTGGTGT
6586634 T
66 T
6586635 TTAACCAGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 44 0.76
69 14 0.24
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (69 bp):
TAGTTTTTGATGCATCAATCTATAGATAGATAAGTCAAATGCTAGTGTGTAAACAACTCTGGTGT
TGTT
Found at i:6599402 original size:14 final size:13
Alignment explanation
Indices: 6599385--6599414 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6599375 TCAGTTCTTA
6599385 TTATTATTATTATT
1 TTATTATTA-TATT
6599399 TTATTATTATATT
1 TTATTATTATATT
6599412 TTA
1 TTA
6599415 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:6599450 original size:27 final size:24
Alignment explanation
Indices: 6599393--6599450 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
6599383 TATTATTATT
6599393 ATTATTT-TATTATTATATTTTAA
1 ATTATTTATATTATTATATTTTAA
*
6599416 ATTTTTTATAATTATTAAGTATTTTAA
1 ATTATTTAT-ATTATT-A-TATTTTAA
*
6599443 GTTATTTA
1 ATTATTTA
6599451 GGAGTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 6 0.21
24 1 0.04
25 6 0.21
26 1 0.04
27 14 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
ATTATTTATATTATTATATTTTAA
Found at i:6602372 original size:21 final size:21
Alignment explanation
Indices: 6602347--6602390 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6602337 ATCTTCAAAG
6602347 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6602368 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6602389 AT
1 AT
6602391 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:6602396 original size:19 final size:19
Alignment explanation
Indices: 6602346--6602401 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
6602336 AATCTTCAAA
6602346 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6602365 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
6602386 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
6602402 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6602408 original size:22 final size:23
Alignment explanation
Indices: 6602359--6602424 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
6602349 ATGCAATCTT
*
6602359 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
6602380 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
6602402 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
6602425 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:6602434 original size:22 final size:23
Alignment explanation
Indices: 6602390--6602434 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6602380 AGATATGATA
*
6602390 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
6602413 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
6602435 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:6602621 original size:19 final size:21
Alignment explanation
Indices: 6602597--6602635 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6602587 GGCTTACTAT
*
6602597 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
6602616 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
6602636 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:6606746 original size:132 final size:130
Alignment explanation
Indices: 6606310--6606752 Score: 562
Period size: 132 Copynumber: 3.4 Consensus size: 130
6606300 GTGAAACACT
* * * * * ** *
6606310 AAGCCTTGTCTCCTTGAGCAACGGCGGAGTGGGTTGAGAACCGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGA-AA-ATTGGATCTTATCTCCCTAAGCAG
* *
6606375 TAGTGGAGTAGATCGAGGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64 TAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
6606440 CC
129 CC
* *
6606442 AAGCCTTGTCTCCTTGAGTAGCAGCGGAGTAGGTTGAAAATT-G----TA--TCCCTAAGTAGTA
1 AAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGGATCTTATCTCCCTAAGCAGTA
* * *
6606500 GTGGAGAAGATTGAAGACGACAAATCTTATCTTTCCAGGATAGTGGGAAGCAGATTTAAGCCACC
66 GTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
* *
6606565 AAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAG
1 AAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTG--GATCTTATCTCCCTAAGCAG
* *
6606630 TAGTGGAGCAGATCGAAGACGGCAAATCATATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
64 TAGTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCA
6606695 CC
129 CC
* *
6606697 AAGCCTTGTCTCCCTGAAGTTGCAGTGGAGT-GGATT-AAAACCTTGGATCTTATCTC
1 AAGCCTTGTCTCCCTG-AGTAGCAGCGGAGTAGG-TTGAAAA--TTGGATCTTATCTC
6606753 TCTGAAGTTG
Statistics
Matches: 273, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
123 111 0.41
125 2 0.01
126 1 0.00
129 1 0.00
130 3 0.01
131 2 0.01
132 137 0.50
133 13 0.05
134 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (130 bp):
AAGCCTTGTCTCCCTGAGTAGCAGCGGAGTAGGTTGAAAATTGGATCTTATCTCCCTAAGCAGTA
GTGGAGAAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCACC
Found at i:6606968 original size:44 final size:44
Alignment explanation
Indices: 6606705--6606975 Score: 182
Period size: 44 Copynumber: 6.2 Consensus size: 44
6606695 CCAAGCCTTG
** * ***
6606705 TCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTA
* * *** *
6606749 TCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC-TAG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTA
* *
6606789 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-AG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCACAGATCTTA
* * ** *
6606833 TC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCAAATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCACAGATCTTA
* * ** *
6606878 TCTCCCTGAGGTTGCAGTGGATCAGATTAAAGCCGACA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ACAGATCTTA
* *
6606922 TCTCCCTGAAGTTGCAGTCGAGCGGATTAAAATCACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTA
*
6606966 TCTCTCTGAA
1 TCTCCCTGAA
6606976 TTAAATATAC
Statistics
Matches: 174, Mismatches: 39, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
40 21 0.12
41 9 0.05
42 4 0.02
43 12 0.07
44 97 0.56
45 28 0.16
46 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTA
Found at i:6607158 original size:21 final size:21
Alignment explanation
Indices: 6607133--6607176 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6607123 ATCTTCGAAG
6607133 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6607154 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
6607175 AT
1 AT
6607177 GTAATCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:6607182 original size:19 final size:19
Alignment explanation
Indices: 6607132--6607184 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
6607122 AATCTTCGAA
6607132 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
6607151 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
6607172 GATATGTAATCTT
1 GATATGCAATCTT
6607185 TGAAGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 12 0.39
21 19 0.61
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:6607213 original size:22 final size:21
Alignment explanation
Indices: 6607134--6607213 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 21
6607124 TCTTCGAAGA
*
6607134 TATGCAATCTT-AGATATGAT
1 TATGTAATCTTGAGATATGAT
*
6607154 ATATGCAATCTT-AGATATGA-
1 -TATGTAATCTTGAGATATGAT
6607174 TATGTAATCTTTGAAGATATGAT
1 TATGTAATC-TTG-AGATATGAT
*
6607197 TTTGTAATCTTAGAGAT
1 TATGTAATCTT-GAGAT
6607214 TTAATTTGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.15
20 2 0.04
21 19 0.37
22 14 0.27
23 9 0.17
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (21 bp):
TATGTAATCTTGAGATATGAT
Found at i:6607220 original size:22 final size:23
Alignment explanation
Indices: 6607176--6607220 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6607166 AGATATGATA
* *
6607176 TGTAATCTTTGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
6607199 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
6607221 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:6607416 original size:19 final size:21
Alignment explanation
Indices: 6607392--6607430 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
6607382 GGCTTACTGT
*
6607392 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
6607411 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
6607431 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:6615025 original size:9 final size:9
Alignment explanation
Indices: 6615011--6615047 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
6615001 TATAGTTTGA
6615011 TATTCGAAT
1 TATTCGAAT
6615020 TATTCGAAT
1 TATTCGAAT
*
6615029 TATTCGAGT
1 TATTCGAAT
*
6615038 TATTTGAAT
1 TATTCGAAT
6615047 T
1 T
6615048 CGAAAACCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6623190 original size:6 final size:6
Alignment explanation
Indices: 6623179--6623208 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
6623169 AAAAAGTGAC
6623179 TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA
1 TAGGGA TAGGGA TAGGGA TAGGGA TAGGGA
6623209 AAGATGATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.50, T:0.17
Consensus pattern (6 bp):
TAGGGA
Found at i:6639243 original size:65 final size:65
Alignment explanation
Indices: 6639174--6639298 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
6639164 TGTTGTTGGT
* *
6639174 ATATTGTTGCTTATGTTGTTATACATGGCTG-CTTGTATACATGGCTAACCAACTTATGTTTTGT
1 ATATTGTTGCTTATGTTGTTATACATGCCTGTC-GGTATACATGGCTAACCAACTTATGTTTTGT
6639238 A
65 A
* *
6639239 ATATTGTTGTTTATGTTGTTATACATGCCTGTCGGTATACATGGCTAACCAGCTTATGTT
1 ATATTGTTGCTTATGTTGTTATACATGCCTGTCGGTATACATGGCTAACCAACTTATGTT
6639299 GTTACTTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 54 0.98
66 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (65 bp):
ATATTGTTGCTTATGTTGTTATACATGCCTGTCGGTATACATGGCTAACCAACTTATGTTTTGTA
Found at i:6640057 original size:21 final size:21
Alignment explanation
Indices: 6640026--6640097 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
6640016 GAGTTAAGGC
*
6640026 AACCTCCTGCTAAGTTGGGGT
1 AACCTCTTGCTAAGTTGGGGT
* *
6640047 ATA-CTCTTGCTGATTTGGGGT
1 A-ACCTCTTGCTAAGTTGGGGT
* *
6640068 AACCTGTTGCTAAGTTGGGGC
1 AACCTCTTGCTAAGTTGGGGT
*
6640089 AACCACTTG
1 AACCTCTTG
6640098 GTTGTGAACA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (21 bp):
AACCTCTTGCTAAGTTGGGGT
Found at i:6640943 original size:82 final size:82
Alignment explanation
Indices: 6640848--6641164 Score: 455
Period size: 82 Copynumber: 3.9 Consensus size: 82
6640838 CACACACACG
* * *
6640848 CACACACACCTAAAAAATAGTCATTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
1 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
*
6640913 CCACCAAAAATCATATA
66 CCACCAACAATCATATA
6640930 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
1 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
6640995 CCACCAACAATCATATA
66 CCACCAACAATCATATA
6641012 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
1 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
*
6641077 CCACCAACAATCATACA
66 CCACCAACAATCATATA
* * * * * * * * * *
6641094 CAGACA-A-AT-TAAAA-AA-CACTACATGCATATTAAAAAACAATCAACAGCATGTGACTAGCC
1 CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
*
6641154 TCACCAACAAT
66 CCACCAACAAT
6641165 TAGACATAGA
Statistics
Matches: 219, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
77 47 0.21
78 2 0.01
79 4 0.02
80 1 0.00
81 1 0.00
82 164 0.75
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (82 bp):
CACACATACCTAAAAAATAATCACTGCATGCATATTAAAAAATAGTCAACAACATATGACCATCC
CCACCAACAATCATATA
Found at i:6641180 original size:77 final size:77
Alignment explanation
Indices: 6640874--6641207 Score: 281
Period size: 82 Copynumber: 4.2 Consensus size: 77
6640864 ATAGTCATTG
* * * * * * * *
6640874 CATGCATATTAAAAAATAGTCAACAACATATGACCATCCCCACCAAAAATCATATACACACATAC
1 CATGCATATTAAAAAACAATCAACAACATATGACCAGCCCCACCAACAATC--AGACACAGAAAA
* * *
6640939 CTAAAAAATAATCACTG
64 AT-TAAAA-AA-CACTA
* * * * * * *
6640956 CATGCATATTAAAAAATAGTCAACAACATATGACCATCCCCACCAACAATCATATACACACATAC
1 CATGCATATTAAAAAACAATCAACAACATATGACCAGCCCCACCAACAATC--AGACACAGAAAA
* * *
6641021 CTAAAAAATAATCACTG
64 AT-TAAAA-AA-CACTA
* * * * *
6641038 CATGCATATTAAAAAATAGTCAACAACATATGACCATCCCCACCAACAATCATACACAGACAAAT
1 CATGCATATTAAAAAACAATCAACAACATATGACCAGCCCCACCAACAATCAGACACAGAAAAAT
6641103 TAAAAAACACTA
66 TAAAAAACACTA
* * * * * *
6641115 CATGCATATTAAAAAACAATCAACAGCATGTGACTAGCCTCACCAACAATTAGACATAGAAAAAT
1 CATGCATATTAAAAAACAATCAACAACATATGACCAGCCCCACCAACAATCAGACACAGAAAAAT
*
6641180 TAAAAAACGCTA
66 TAAAAAACACTA
6641192 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
6641208 ACTCACTAAA
Statistics
Matches: 233, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
77 85 0.36
78 2 0.01
79 4 0.02
80 10 0.04
82 132 0.57
ACGTcount: A:0.49, C:0.24, G:0.06, T:0.20
Consensus pattern (77 bp):
CATGCATATTAAAAAACAATCAACAACATATGACCAGCCCCACCAACAATCAGACACAGAAAAAT
TAAAAAACACTA
Found at i:6643978 original size:30 final size:31
Alignment explanation
Indices: 6643933--6643992 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
6643923 TCAGTGACTA
*
6643933 TTTTGTCACTTTTTTATAACGTT-AGTGATTG
1 TTTTGTCACTTTTTTA-AAAGTTGAGTGATTG
6643964 TTTTGTCA-TTTTTTAAAAGTTGAGTGATT
1 TTTTGTCACTTTTTTAAAAGTTGAGTGATT
6643993 AAAATTAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 5 0.19
30 14 0.52
31 8 0.30
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.55
Consensus pattern (31 bp):
TTTTGTCACTTTTTTAAAAGTTGAGTGATTG
Found at i:6644078 original size:21 final size:22
Alignment explanation
Indices: 6644038--6644078 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6644028 GTAATTTACT
* *
6644038 TTAAAATGTTTTGAAAGTTGGA
1 TTAAAATATGTTGAAAGTTGGA
6644060 TTAAAATATGTTG-AAGTTG
1 TTAAAATATGTTGAAAGTTG
6644079 AAGGCATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (22 bp):
TTAAAATATGTTGAAAGTTGGA
Found at i:6653517 original size:54 final size:54
Alignment explanation
Indices: 6653445--6653593 Score: 228
Period size: 54 Copynumber: 2.8 Consensus size: 54
6653435 GTCAATAAAG
* *
6653445 GACCAAAATACCCCCATAGGGTAAAATGACTGAAATA-CCCTCATAGGGTAAAAT
1 GACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCT-ATAAGGTAAAAT
* * * *
6653499 GACCAAAATTCCCTCATAGGGTAAAATAACCGAAATGCCCCTATAAGGTAAAAT
1 GACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAGGTAAAAT
6653553 GACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCC
1 GACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCC
6653594 CAGAGGACAA
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 80 0.95
55 4 0.05
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (54 bp):
GACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCTATAAGGTAAAAT
Found at i:6653606 original size:81 final size:81
Alignment explanation
Indices: 6653450--6653606 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
6653440 TAAAGGACCA
* ** * *
6653450 AAATACCCCCATAGGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACCAAAATTCCCTCA
1 AAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
* **
6653515 TAGGGTAAAATAACCG
66 GAGGACAAAATAACCG
* * **
6653531 AAATGCCCCTATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCCA
1 AAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
6653596 GAGGACAAAAT
66 GAGGACAAAAT
6653607 GATTATTATA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (81 bp):
AAATACCCCCATAAGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGACCAAAATACCCCCA
GAGGACAAAATAACCG
Found at i:6653608 original size:27 final size:27
Alignment explanation
Indices: 6653445--6653595 Score: 185
Period size: 27 Copynumber: 5.6 Consensus size: 27
6653435 GTCAATAAAG
*
6653445 GACCAAAATACCCCCATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* *
6653472 GACTGAAATACCCTCATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * *
6653499 GACCAAAATTCCCTCATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* * * *
6653526 AACCGAAATGCCCCTATAAGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
* *
6653553 GACCAAAATACCCTCATAGGGTAAAAT
1 GACCGAAATACCCCCATAGGGTAAAAT
*
6653580 GACTGAAATACCCCCA
1 GACCGAAATACCCCCA
6653596 GAGGACAAAA
Statistics
Matches: 103, Mismatches: 21, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (27 bp):
GACCGAAATACCCCCATAGGGTAAAAT
Found at i:6653809 original size:26 final size:26
Alignment explanation
Indices: 6653773--6653865 Score: 141
Period size: 26 Copynumber: 3.6 Consensus size: 26
6653763 TAGAGGAAGT
6653773 ATACTATTACTGGCAACTTTGCTGCG
1 ATACTATTACTGGCAACTTTGCTGCG
* *
6653799 ATACTGTTACTGGCAACTTTGCTGTG
1 ATACTATTACTGGCAACTTTGCTGCG
* *
6653825 ATACTGTTACTGGCAACTTTGCTGCA
1 ATACTATTACTGGCAACTTTGCTGCG
*
6653851 ATACTACTACTGGCA
1 ATACTATTACTGGCA
6653866 GTTGTACAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (26 bp):
ATACTATTACTGGCAACTTTGCTGCG
Found at i:6655248 original size:17 final size:18
Alignment explanation
Indices: 6655219--6655255 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6655209 TTTTTTTTAT
6655219 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
6655237 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
6655254 TT
1 TT
6655256 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:6659545 original size:41 final size:41
Alignment explanation
Indices: 6659499--6659641 Score: 105
Period size: 42 Copynumber: 3.5 Consensus size: 41
6659489 CTCATATCAA
* *
6659499 AAAATGGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAATG
1 AAAATGGAAGAAAAAGAAAAATCAAAATAAAAATCAAAATG
** * * **
6659540 AAAAT-GAA-AAAATCAAAAATTAAAATTAAAAA-AAGAAAAC
1 AAAATGGAAGAAAAAGAAAAATCAAAA-TAAAAATCA-AAATG
* * * *
6659580 AAAA-AGAAAAAAAAGAAAAAATCTAGATAAAAAATCAAAATG
1 AAAATGGAAGAAAAAG-AAAAATCAAAAT-AAAAATCAAAATG
*
6659622 AAAAGGGAAGAAAAAGAAAA
1 AAAATGGAAGAAAAAGAAAA
6659642 GGAGAGGCCA
Statistics
Matches: 76, Mismatches: 18, Indels: 15
0.70 0.17 0.14
Matches are distributed among these distances:
39 15 0.20
40 17 0.22
41 10 0.13
42 24 0.32
43 10 0.13
ACGTcount: A:0.72, C:0.05, G:0.12, T:0.11
Consensus pattern (41 bp):
AAAATGGAAGAAAAAGAAAAATCAAAATAAAAATCAAAATG
Found at i:6659578 original size:21 final size:20
Alignment explanation
Indices: 6659534--6659599 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
6659524 AATCAAAGTC
* **
6659534 AAAATGAAAATGAAAAAATCA
1 AAAAT-AAAATAAAAAAAAGA
*
6659555 AAAATTAAAATTAAAAAAAGA
1 AAAA-TAAAATAAAAAAAAGA
*
6659576 AAACA-AAAAGAAAAAAAAGA
1 AAA-ATAAAATAAAAAAAAGA
6659596 AAAA
1 AAAA
6659600 ATCTAGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.42
21 19 0.50
22 2 0.05
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (20 bp):
AAAATAAAATAAAAAAAAGA
Found at i:6659585 original size:11 final size:10
Alignment explanation
Indices: 6659567--6659600 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
6659557 AATTAAAATT
6659567 AAAAAAAGAA
1 AAAAAAAGAA
6659577 AACAAAAAG-A
1 AA-AAAAAGAA
6659587 AAAAAAAGAA
1 AAAAAAAGAA
6659597 AAAA
1 AAAA
6659601 TCTAGATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 6 0.27
10 10 0.45
11 6 0.27
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:6659592 original size:9 final size:9
Alignment explanation
Indices: 6659567--6659600 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
6659557 AATTAAAATT
6659567 AAAAAAAGAA
1 AAAAAAAG-A
6659577 AACAAAAAGA
1 AA-AAAAAGA
6659587 AAAAAAAGA
1 AAAAAAAGA
6659596 AAAAA
1 AAAAA
6659601 TCTAGATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 12 0.52
10 5 0.22
11 6 0.26
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:6660116 original size:39 final size:39
Alignment explanation
Indices: 6660073--6660154 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
6660063 TTGGTTTGCG
*
6660073 GGGTTTAGGTAGTTTTACCTATTGAAATCCTTTCTCTCC
1 GGGTTTAGATAGTTTTACCTATTGAAATCCTTTCTCTCC
6660112 GGGTTTAGATAGTTTTACCTATTGAAATCCTTTCTCTCC
1 GGGTTTAGATAGTTTTACCTATTGAAATCCTTTCTCTCC
6660151 GGGT
1 GGGT
6660155 ACTAGTTGAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (39 bp):
GGGTTTAGATAGTTTTACCTATTGAAATCCTTTCTCTCC
Found at i:6660546 original size:7 final size:7
Alignment explanation
Indices: 6660529--6660561 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6660519 AAAAAGGGGC
6660529 AAATG-A
1 AAATGAA
6660535 AAATGAA
1 AAATGAA
6660542 AAATGAAA
1 AAATG-AA
6660550 AAATGAA
1 AAATGAA
6660557 AAATG
1 AAATG
6660562 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 5 0.20
7 13 0.52
8 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATGAA
Found at i:6662132 original size:175 final size:175
Alignment explanation
Indices: 6661744--6662654 Score: 1345
Period size: 175 Copynumber: 5.2 Consensus size: 175
6661734 GTTCATTATA
* * * * *
6661744 CAGGTCTTATTTCCCTGAGATTACGGTGGAGCAGACCGAAGAATTACAGATCTTATCTCCTTGAG
1 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** *
6661809 ATTACAGCGGAGCAGATTGAAATTAGTAATCCTATCTCACTGAGATTACAGTGGAGCGGA-T---
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
6661870 -TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * *
6661914 CAGGTCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTCATCTCCCTGAG
1 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * *
6661979 ATTACAGTGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
6662044 ATTAAA-GATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAT
131 A-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
6662089 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACTGAAGAATTTCAGAT-TTCATCTCCCTGA
1 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTT-ATCTCCCTGA
*
6662153 GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAA
65 GATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
* * * ** * *
6662218 GATAAATGATCTTATCTCTCTAAAGTTACAACAGAGCAGATCGCTT
130 AATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * *
6662264 CAGGTCTTATCTCCCTAAGATTACAGTGGGGCAGACCAAAAAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * *
6662329 ATTACAGCGGAGCAGATTGAAGCTAGTAATCATATCTCTCTGAGATTATAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
6662394 ATAAAGGATCTTATCCCTCTGAAGTTACAGTAGAGTAGATCGCAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * *
6662439 CAGGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTTCCTGAG
1 CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
6662504 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * *
6662569 ATAAAGGATCTTATCTCTCTAAAGTTACAGTAAAGTAGATCGTAT
131 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * *
6662614 CAGATCTTATCTCCTTAAGCAGT--AGTGGAGCAGATCGAAGA
1 CAGGTCTTATCTCCCTAAG-ATTACAGTGGAGCAGACCGAAGA
6662655 TGGCGGAATT
Statistics
Matches: 671, Mismatches: 60, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
170 115 0.17
171 1 0.00
174 20 0.03
175 527 0.79
176 8 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (175 bp):
CAGGTCTTATCTCCCTAAGATTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:6662588 original size:44 final size:43
Alignment explanation
Indices: 6661744--6662585 Score: 370
Period size: 44 Copynumber: 19.3 Consensus size: 43
6661734 GTTCATTATA
* * **
6661744 CAGG-TCTTATTTCCCTGAGATTACGGTGGAGCAGACCGAAGAATT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-T
* * *
6661789 ACA-GATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAAT
1 -CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * * *
6661832 TAGTAATCCTATCTCACTGAGATTACAGTGGAGCGGATT--AA-
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * ***
6661873 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* **
6661914 CAGG-TCTTATCTCCTTGAGATTACAGTGGAGCAGACCGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
6661960 CA-GATCTCATCTCCCTGAGATTACAGTGGAGCAGATTGAAGT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * * *
6662002 TAGTAATCCTATCTCCCTGAGATTACAGCGGAGCGGATTAAAATT
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-T
* * * * * * ***
6662047 AAAGATCTTATCTCTCTGA-AGTTATAGTAGAGTAGA-TCGCAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* *
6662089 CAGG-TCTTATCTCCCTAAGATTACAGTGGAGCAGACTGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
6662135 CA-GAT-TTCATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTT-ATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *
6662176 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAGAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * * *** ****
6662221 AAATGATCTTATCTCTCT-AAAGTTACAACAGAGCAGA-TCGCTT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * **
6662264 CAGG-TCTTATCTCCCTAAGATTACAGTGGGGCAGACCAAAAAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA--TTAAAA--T
* * *
6662310 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * * *
6662351 CTAGTAATCATATCTCTCTGAGATTATAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * ***
6662396 AAAGGATCTTATC-CCTCTGA-AGTTACAGTAGAGTAGA-TCGCAT
1 -CAGGATCTTATCTCC-CTGAGA-TTACAGTGGAGCAGATTAAAAT
* **
6662439 CAGG-TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAAAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA--TTAAAA--T
* * * *
6662485 CA-GATCTTATCTTCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * *
6662526 CTAGTAATCCTATCTCTCTGAGATTACAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
*
6662571 AAAGGATCTTATCTC
1 -CAGGATCTTATCTC
6662586 TCTAAAGTTA
Statistics
Matches: 581, Mismatches: 154, Indels: 124
0.68 0.18 0.14
Matches are distributed among these distances:
38 2 0.00
39 25 0.04
40 3 0.01
41 99 0.17
42 26 0.04
43 19 0.03
44 232 0.40
45 23 0.04
46 152 0.26
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
Found at i:6664355 original size:17 final size:18
Alignment explanation
Indices: 6664326--6664362 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6664316 CTTTTTTTAT
6664326 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
6664344 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
6664361 TT
1 TT
6664363 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:6665763 original size:21 final size:21
Alignment explanation
Indices: 6665701--6665752 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
6665691 ATCCCTACAT
*
6665701 GGTGTGTTGGTGGTACGGAGA
1 GGTGTGTTGGTGGTACGGGGA
6665722 GGTGTGTTGGTGGTACGGGGA
1 GGTGTGTTGGTGGTACGGGGA
6665743 GGTGTGTTGG
1 GGTGTGTTGG
6665753 CTGGATTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.04, G:0.56, T:0.31
Consensus pattern (21 bp):
GGTGTGTTGGTGGTACGGGGA
Found at i:6674746 original size:20 final size:20
Alignment explanation
Indices: 6674697--6674747 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6674687 CGCGCTTGTA
6674697 CATGATTTGCACTTCGGTGCC
1 CATGA-TTGCACTTCGGTGCC
* *
6674718 TATGTTTGCACTTCGGTGCC
1 CATGATTGCACTTCGGTGCC
*
6674738 CCTGATTGCA
1 CATGATTGCA
6674748 TATTTGTGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.14, C:0.27, G:0.24, T:0.35
Consensus pattern (20 bp):
CATGATTGCACTTCGGTGCC
Found at i:6679489 original size:2 final size:2
Alignment explanation
Indices: 6679477--6679509 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
6679467 TTAATTGTGC
*
6679477 AT AT GT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6679510 TATTTTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6679502 original size:15 final size:15
Alignment explanation
Indices: 6679482--6679512 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6679472 TGTGCATATG
6679482 TATATATATATATTA
1 TATATATATATATTA
6679497 TATATATATATATTA
1 TATATATATATATTA
6679512 T
1 T
6679513 TTTTTGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATATATATATATTA
Found at i:6684102 original size:31 final size:29
Alignment explanation
Indices: 6684038--6684103 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
6684028 AACAACTCAG
* * *
6684038 TGACTAAAATGTAACATTTTAAACATAAG
1 TGACTAAAATGTAACATTGTAAACAAAAA
*
6684067 TGACTAAAATGTAATATAATGTAAACAAAAA
1 TGACTAAAATGTAACAT--TGTAAACAAAAA
6684098 TGACTA
1 TGACTA
6684104 TTTTGATAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 16 0.52
31 15 0.48
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.29
Consensus pattern (29 bp):
TGACTAAAATGTAACATTGTAAACAAAAA
Found at i:6692419 original size:23 final size:22
Alignment explanation
Indices: 6692376--6692420 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6692366 CAAAGACGAA
* *
6692376 AAAAATGTAATTTAATTCTTTT
1 AAAAATGTAAATTAATACTTTT
*
6692398 AAAATTGTAAATTATATACTTTT
1 AAAAATGTAAATTA-ATACTTTT
6692421 TGAACTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
AAAAATGTAAATTAATACTTTT
Found at i:6707063 original size:52 final size:53
Alignment explanation
Indices: 6707006--6707126 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 53
6706996 AAATGATATT
*
6707006 ATATTAATATTAAATACATAAAAT-ATATTATTCACTATTAA-AT-TTTTTAATA
1 ATATTAATATTAAATA-ATAAAATGATATTATTCA-TATTAATATATTATTAATA
* * * * *
6707058 ATATTAGTTTTTAAATATTAAAATGATATTATTTATATTAATATAATTATTATTA
1 ATATTA-ATATTAAATAATAAAATGATATTATTCATATTAATAT-ATTATTAATA
6707113 ATATTCAATATTAA
1 ATATT-AATATTAA
6707127 TATTTTAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
52 18 0.33
53 19 0.35
55 17 0.31
56 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (53 bp):
ATATTAATATTAAATAATAAAATGATATTATTCATATTAATATATTATTAATA
Found at i:6707125 original size:80 final size:83
Alignment explanation
Indices: 6706989--6707152 Score: 196
Period size: 80 Copynumber: 2.0 Consensus size: 83
6706979 TCCATATAGC
* * * *
6706989 AATATTTAAATGATATTATATTAATATTAAATACATAAAATATATTATTCACTATTAAATTTTTT
1 AATATTAAAATGATATTATATTAATATTAAATACATAAAATATAATATTCAATATT-AATATTTT
*
6707054 A-ATAATATTAGTTT-TTA
65 AGATAATAATAGTTTATTA
* *
6707071 AATATTAAAATGATATTAT-TT-ATATTAATATA-AT-TATTATTAATATTCAATATTAATATTT
1 AATATTAAAATGATATTATATTAATATTAA-ATACATAAAATA-TAATATTCAATATTAATATTT
6707132 TAGATAATAATAGTTTATTA
64 TAGATAATAATAGTTTATTA
6707152 A
1 A
6707153 TATCAAAGTA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
79 11 0.15
80 33 0.46
81 9 0.13
82 18 0.25
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (83 bp):
AATATTAAAATGATATTATATTAATATTAAATACATAAAATATAATATTCAATATTAATATTTTA
GATAATAATAGTTTATTA
Found at i:6714977 original size:15 final size:15
Alignment explanation
Indices: 6714957--6714985 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6714947 GAGCACGATT
6714957 TTGGTCACTTTTGGC
1 TTGGTCACTTTTGGC
6714972 TTGGTCACTTTTGG
1 TTGGTCACTTTTGG
6714986 GTACACACGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.48
Consensus pattern (15 bp):
TTGGTCACTTTTGGC
Found at i:6717668 original size:16 final size:17
Alignment explanation
Indices: 6717641--6717673 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6717631 TCAAATGAAT
6717641 AAAAACTCTATTATTAA
1 AAAAACTCTATTATTAA
*
6717658 AAAAACT-TATTTTTAA
1 AAAAACTCTATTATTAA
6717674 TGTCAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAACTCTATTATTAA
Found at i:6717793 original size:20 final size:20
Alignment explanation
Indices: 6717768--6717822 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
6717758 ATAGATAGGT
6717768 AAAATTTAAAAAAAACACTA
1 AAAATTTAAAAAAAACACTA
** **
6717788 AAAATTCTACCAAAAATTCTA
1 AAAATT-TAAAAAAAACACTA
*
6717809 AAATTTTAAAAAAA
1 AAAATTTAAAAAAA
6717823 TTGAAATCAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATTTAAAAAAAACACTA
Found at i:6719275 original size:13 final size:14
Alignment explanation
Indices: 6719259--6719287 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6719249 TTAATATAAC
6719259 TATATTTTA-TATT
1 TATATTTTATTATT
6719272 TATATTTTATTATT
1 TATATTTTATTATT
6719286 TA
1 TA
6719288 ATATATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATATTTTATTATT
Found at i:6733272 original size:29 final size:29
Alignment explanation
Indices: 6733236--6733303 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
6733226 GGTTTTTTTA
* *
6733236 ATAAAAATAATATTAAAAATAAATTAATT
1 ATAAAAATAAGATGAAAAATAAATTAATT
* * *
6733265 ATAAAAATAGGGTGAGAAATAAATTAATT
1 ATAAAAATAAGATGAAAAATAAATTAATT
*
6733294 ACAAAAATAA
1 ATAAAAATAA
6733304 AATGTTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (29 bp):
ATAAAAATAAGATGAAAAATAAATTAATT
Found at i:6733522 original size:28 final size:28
Alignment explanation
Indices: 6733487--6733560 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
6733477 TGATTTTAGA
6733487 CATTAAATGTAGGGAAAATACATTAAGG
1 CATTAAATGTAGGGAAAATACATTAAGG
* * **
6733515 CATTAAATGTAAGGAAACTGTATTAAGG
1 CATTAAATGTAGGGAAAATACATTAAGG
*
6733543 CATTAAATGTAGAGAAAA
1 CATTAAATGTAGGGAAAA
6733561 GGTTATTTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (28 bp):
CATTAAATGTAGGGAAAATACATTAAGG
Found at i:6742556 original size:88 final size:88
Alignment explanation
Indices: 6742395--6743586 Score: 1838
Period size: 88 Copynumber: 13.6 Consensus size: 88
6742385 AACAGATCAG
* * * *
6742395 TGAAGATAGCAGATCTTACCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCTTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* *
6742459 TCCCCCGGTTATAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* *
6742483 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
6742548 CTCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
6742571 TGAAGATAGCAGATCTTACCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTTGCTT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
6742636 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* *
6742659 TGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTT-ACT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
6742723 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
6742746 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
6742811 CCCTCGGTTGTAGTGGAGCAAGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
6742834 TGAAGATAGCAGATCTTGCTTTCCTGCATCGACGGTGAAGTATATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
6742899 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * * *
6742922 TGAAGATAGCAGGTCTTGCCTTCCTACATCGGCAGTAAAGCAGATCGAAGACATAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
6742987 CCCTTGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
6743010 TGAAGATAGCAGATCTTGCCTTCCTACATCGACGGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
6743075 CCCTCGGTTATAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* *
6743098 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
6743163 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
6743186 TGAAGATAGCAGGTCTTG-CTTCCTGCATCGATAGTGAAGCAGATCGAAAACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
6743250 CTCTCAGTTATAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * *
6743273 TGAATG-TAGCATATCTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAGCCTTGCC
1 TGAA-GATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* *
6743337 TCCCTCAGTTGTAGTGCAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* *
6743361 TGAAGATAGCAGATCTTACCTT-CTGGCATCGACAGTGAAGCAGATTGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
6743425 TCCCTCGGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* *
6743449 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
6743514 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
*
6743537 TGAAGATAGCA-AGTCTTGCCTTTCTGCATCGACAGTGAAGCAGATCGAAG
1 TGAAGATAGCAGA-TCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
6743587 CCAATAGTCC
Statistics
Matches: 1007, Mismatches: 89, Indels: 16
0.91 0.08 0.01
Matches are distributed among these distances:
87 161 0.16
88 843 0.84
89 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:6743052 original size:351 final size:352
Alignment explanation
Indices: 6742395--6743586 Score: 1840
Period size: 351 Copynumber: 3.4 Consensus size: 352
6742385 AACAGATCAG
* * * *
6742395 TGAAGATAGCAGATCTTACCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCTTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* * * *
6742459 TCCCCCGGTTATAGTGGAGCAGGTTGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGC
65 TCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTGCATCGACAGTGAAGC
* *
6742524 AGATTGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTA
130 AGATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* * *
6742589 CCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTTGCTTCCCTCGGTTGTAGTGGAG
195 CCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAG
*
6742654 CAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCT
260 CAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCT
*
6742719 T-ACTCCCTCGGTTGTAGTGGAGCAGGT
325 TGCCTCCCTCGGTTGTAGTGGAGCAGGT
* * *
6742746 TGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATTGAAGACACAAGTCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* * *
6742811 CCCTCGGTTGTAGTGGAGCAAGTTGAAGATAGCAGATCTTGCTTTCCTGCATCGACGGTGAAGTA
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTGCATCGACAGTGAAGCA
* * * *
6742876 TATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGGTCTTGC
131 GATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
* * * * *
6742941 CTTCCTACATCGGCAGTAAAGCAGATCGAAGACATAAGCCTTGCCTCCCTTGGTTGTAGTGGAGC
196 CTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGC
* * *
6743006 AGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACGGCGAAGCAGATCGAAGACACAAGCCTT
261 AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTT
*
6743071 GCCTCCCTCGGTTATAGTGGAGCAGGT
326 GCCTCCCTCGGTTGTAGTGGAGCAGGT
* *
6743098 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* *
6743163 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTGC-TTCCTGCATCGATAGTGAAGCA
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTGCATCGACAGTGAAGCA
* * * *
6743227 GATCGAAAACACAAGCCTTGCCTCTCTCAGTTATAGTGGAGCAGGTTGAATG-TAGCATATCTTG
131 GATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAA-GATAGCAGATCTTG
* * * *
6743291 CCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGCAG
195 CCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAG
* *
6743356 CAGGTTGAAGATAGCAGATCTTACCTT-CTGGCATCGACAGTGAAGCAGATTGAAGACACAAGCC
260 CAGGTTGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGTGAAGCAGATCGAAGACACAAGCC
6743420 TTGCCTCCCTCGGTTGTAGTGGAGCAGGT
324 TTGCCTCCCTCGGTTGTAGTGGAGCAGGT
* *
6743449 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGTAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
6743514 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCA-AGTCTTGCCTTT-CTGCATCGACAGTGAAG
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGA-TCTTG-CTTTCCTGCATCGACAGTGAAG
6743577 CAGATCGAAG
129 CAGATCGAAG
6743587 CCAATAGTCC
Statistics
Matches: 762, Mismatches: 72, Indels: 13
0.90 0.09 0.02
Matches are distributed among these distances:
350 2 0.00
351 606 0.80
352 152 0.20
353 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (352 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCTTTCCTGCATCGACAGTGAAGCA
GATCGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
CTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGC
AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTT
GCCTCCCTCGGTTGTAGTGGAGCAGGT
Found at i:6743213 original size:439 final size:439
Alignment explanation
Indices: 6742395--6743582 Score: 1864
Period size: 439 Copynumber: 2.7 Consensus size: 439
6742385 AACAGATCAG
* * * *
6742395 TGAAGATAGCAGATCTTACCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCTTTACC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* * *
6742459 TCCCCCGGTTATAGTGGAGCAGGTTGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGC
65 TCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGC
* *
6742524 AGATTGAAGACACAAGCCTTGCCTCTCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTA
130 AGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTG
* *
6742589 CCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTTGCTTCCCTCGGTTGTAGTGGAG
195 CCTTCCTGCATCGACGGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAG
* *
6742654 CAGGTTGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCT
260 CAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCT
*
6742719 TACTCCCTCGGTTGTAGTGGAGCAGGTTGAAGGTAGCAGATCTTGCCTTCCTGCATCGACAGTGA
325 TACTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGA
* * * * *
6742784 AGCAGATTGAAGACACAAGTCTTGCCTCCCTCGGTTGTAGTGGAGCAAGT
390 AGCAGATCGAAAACACAAGCCTTGCCTCCCTCAGTTATAGTGGAGCAAGT
* * * *
6742834 TGAAGATAGCAGATCTTGCTTTCCTGCATCGACGGTGAAGTATATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
* * * * *
6742899 CCCTCGGTTGTAGTGGAGTAGGTTGAAGATAGCAGGTCTTGCCTTCCTACATCGGCAGTAAAGCA
66 CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCA
* * *
6742964 GATCGAAGACATAAGCCTTGCCTCCCTTGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
131 GATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
* * *
6743029 CTTCCTACATCGACGGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTATAGTGGAGC
196 CTTCCTGCATCGACGGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGC
*
6743094 AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACGGTGAAGCAGATCAAAGACACAAGCCTT
261 AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTT
* * *
6743159 GCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGGTCTTG-CTTCCTGCATCGATAGTGA
326 -ACTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGA
* *
6743223 AGCAGATCGAAAACACAAGCCTTGCCTCTCTCAGTTATAGTGGAGCAGGT
390 AGCAGATCGAAAACACAAGCCTTGCCTCCCTCAGTTATAGTGGAGCAAGT
* * *
6743273 TGAATG-TAGCATATCTTGCCTTCCTGCATTGACAGTGAAGCAGATTGAAGACACAAGCCTTGCC
1 TGAA-GATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* * *
6743337 TCCCTCAGTTGTAGTGCAGCAGGTTGAAGATAGCAGATCTTACCTT-CTGGCATCGACAGTGAAG
65 TCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGTGAAG
6743401 CAGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
129 CAGATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTT
*
6743466 GCCTTCCTGCATCGACGGTGAAGTAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGA
194 GCCTTCCTGCATCGACGGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGA
*
6743531 GCAGGTTGAAGATAGCA-AGTCTTGCCTTTCTGCATCGACAGTGAAGCAGATC
259 GCAGGTTGAAGATAGCAGA-TCTTGCCTTCCTGCATCGACAGTGAAGCAGATC
6743583 GAAGCCAATA
Statistics
Matches: 680, Mismatches: 64, Indels: 10
0.90 0.08 0.01
Matches are distributed among these distances:
438 3 0.00
439 634 0.93
440 43 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (439 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCA
GATTGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGC
CTTCCTGCATCGACGGTGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGC
AGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCAAAGACACAAGCCTT
ACTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAA
GCAGATCGAAAACACAAGCCTTGCCTCCCTCAGTTATAGTGGAGCAAGT
Found at i:6753318 original size:25 final size:25
Alignment explanation
Indices: 6753290--6753340 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
6753280 GGGTGATTCA
6753290 AATTTATTATACATATACAAATAGC
1 AATTTATTATACATATACAAATAGC
6753315 AATTTATTATACATATACAAATAGC
1 AATTTATTATACATATACAAATAGC
6753340 A
1 A
6753341 TCAAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTATTATACATATACAAATAGC
Found at i:6759635 original size:61 final size:61
Alignment explanation
Indices: 6759531--6759652 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 61
6759521 TATAAAAAGT
** *
6759531 TCAACAAATTTAGTCCTCAATATTTACAAAATTTGTCATTTTTAGTTTGAATTCTAAAAAA
1 TCAACAAATTTAGTCCTCAATATTTACAAAATTTGTCATTTTTAACTTGAATCCTAAAAAA
* * ** *
6759592 TCAATAAATTTA-TCCCTCAATGTTTACAATTTTTTTTCA-TTTTAACTTGAATCCTAAAAAA
1 TCAACAAATTTAGT-CCTCAATATTTACAA-AATTTGTCATTTTTAACTTGAATCCTAAAAAA
6759653 GTTAATTCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
60 1 0.02
61 44 0.86
62 6 0.12
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.43
Consensus pattern (61 bp):
TCAACAAATTTAGTCCTCAATATTTACAAAATTTGTCATTTTTAACTTGAATCCTAAAAAA
Found at i:6762651 original size:6 final size:6
Alignment explanation
Indices: 6762640--6762667 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6762630 TGGAAGGGAC
6762640 GGAGAA GGAGAA GGAGAA GGAGAA GGAG
1 GGAGAA GGAGAA GGAGAA GGAGAA GGAG
6762668 CAGAAGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GGAGAA
Found at i:6766057 original size:31 final size:31
Alignment explanation
Indices: 6765991--6766076 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 31
6765981 AATTCAACTC
*
6765991 TTTTTGAAATTTGATGGTCAAATTTGATTCA
1 TTTTTAAAATTTGATGGTCAAATTTGATTCA
*
6766022 -TTTTAAAAGTTTGATGGTCAAA-TT-CTTCTA
1 TTTTTAAAA-TTTGATGGTCAAATTTGATTC-A
*
6766052 TTTTTAAAATGTTGA-GATCAAATTT
1 TTTTTAAAAT-TTGATGGTCAAATTT
6766077 AGCTCCAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 3 0.06
30 17 0.36
31 27 0.57
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (31 bp):
TTTTTAAAATTTGATGGTCAAATTTGATTCA
Found at i:6767606 original size:104 final size:102
Alignment explanation
Indices: 6767423--6767629 Score: 342
Period size: 104 Copynumber: 2.0 Consensus size: 102
6767413 AGAGTGTCAC
*
6767423 ATCATTGAACTTTAATTATTTTTCGAAGTTGAAAGAGTAAAATAAATCTAATTGTCAACTTCAAA
1 ATCATTGAACTTTAATTATTTTTCGAAGTTCAAAGAGTAAAATAAATCTAATTGTCAACTTCAAA
*
6767488 TACTAAAGTGGATAAAAGAATATATAGGTACCAAACTAG
66 TACTAAAGTAGATAAAAG-A-ATATAGGTACCAAACTAG
* * * *
6767527 ATCATTGAATTTTGATTATTTTTCGAAGTTCAAAGATTAAAATGAATCTAATTGTCAACTTCAAA
1 ATCATTGAACTTTAATTATTTTTCGAAGTTCAAAGAGTAAAATAAATCTAATTGTCAACTTCAAA
6767592 TACTAAAGTAGATAAAAGAATATAGGTACCAAACTAG
66 TACTAAAGTAGATAAAAGAATATAGGTACCAAACTAG
6767629 A
1 A
6767630 CTTATGATGG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 19 0.20
103 1 0.01
104 77 0.79
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (102 bp):
ATCATTGAACTTTAATTATTTTTCGAAGTTCAAAGAGTAAAATAAATCTAATTGTCAACTTCAAA
TACTAAAGTAGATAAAAGAATATAGGTACCAAACTAG
Found at i:6772663 original size:91 final size:91
Alignment explanation
Indices: 6772554--6772721 Score: 248
Period size: 91 Copynumber: 1.8 Consensus size: 91
6772544 AAAAAATATT
* * * *
6772554 AAATTATATATCACTATTAAATTATATTTAAT-ATTAATTATTTTAAATTGTATAAATTCATATA
1 AAATTATATATCACTATTAAATTATATGTAATAATT-ATTATTTTAAATTATACAAATTCATAAA
6772618 AGAAAATTTATTATCAAGAATTTTATG
65 AGAAAATTTATTATCAAGAATTTTATG
* *
6772645 AAATTATATATTATTATTAAATTATATGTAATAATTATTATTTTAAATTATACAAATTCATAAAA
1 AAATTATATATCACTATTAAATTATATGTAATAATTATTATTTTAAATTATACAAATTCATAAAA
* *
6772710 TATAATTTATTA
66 GAAAATTTATTA
6772722 GTTATAATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
91 65 0.96
92 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCACTATTAAATTATATGTAATAATTATTATTTTAAATTATACAAATTCATAAAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:6772852 original size:119 final size:120
Alignment explanation
Indices: 6772737--6773028 Score: 491
Period size: 120 Copynumber: 2.4 Consensus size: 120
6772727 AATTATTTTA
* * * *
6772737 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
6772800 TTATAGCATCATATATTATGATTTGAG-AAATTCATATAAGAATATTAATTATTAAG
64 TTACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
6772856 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
6772921 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
6772976 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
6773029 TAAATATGAT
Statistics
Matches: 164, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
118 5 0.03
119 75 0.46
120 84 0.51
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGCATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:6772896 original size:15 final size:15
Alignment explanation
Indices: 6772861--6772912 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6772851 TTAAGAATTT
*
6772861 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6772875 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6772889 TATTTAATAATAAT-
1 TATTTAATTATAATA
6772903 TATGTTAATT
1 TAT-TTAATT
6772913 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6773011 original size:16 final size:16
Alignment explanation
Indices: 6772990--6773031 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6772980 TTATTAAATT
*
6772990 ATATATTTTAATTATA
1 ATATATTTTAATAATA
6773006 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
6773021 AT-TATGTTTAA
1 ATATAT-TTTAA
6773032 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:6773016 original size:15 final size:15
Alignment explanation
Indices: 6772981--6773022 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6772971 TTAAGAATTT
*
6772981 TATTAAATTAT-ATA
1 TATTTAATTATAATA
6772995 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
6773009 TATTTAATAATAAT
1 TATTTAATTATAAT
6773023 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:6773144 original size:157 final size:162
Alignment explanation
Indices: 6772965--6773290 Score: 554
Period size: 166 Copynumber: 2.0 Consensus size: 162
6772955 ATAAGAATAT
6772965 TAATTATTAAGAATTTTATTAAATTATATA-T-TT-TAAT-TA-TAATATATTTAATAATAATTA
1 TAATTATTAAGAATTTTATTAAATTATATATTATTATAATATATTAATATATTTAATAATAATTA
*
6773025 TGTTTAAATATGATTAAATTATTTATCATTGATATTAATAATCTTATTAAAATTTAAATAACAAT
66 TGTTTAAATATGATTAAATTATTTATCATTGATAATAATAATCTTATTAAAATTTAAATAACAAT
*
6773090 AACAATAATCATTTACCAAAACAAATTTCTGC
131 AACAATAATCATTTACCAAAACAAATTTATGC
6773122 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATATATTTAATAATA
1 TAATTATTAAGAATTTTATTAAATTATATA--TT-ATTATAATATA-TTAATATATTTAATAATA
*
6773187 ATTATGTTTAAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAA
62 ATTATGTTTAAATATGATTAAATTATTTATCATTGATAATAATAATCTTATTAAAATTTAAATAA
6773252 CAATAACAATAATCATTTACCAAAACAAATTTATGC
127 CAATAACAATAATCATTTACCAAAACAAATTTATGC
6773288 TAA
1 TAA
6773291 GGGTATTCTA
Statistics
Matches: 157, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
157 30 0.19
160 1 0.01
162 2 0.01
163 4 0.03
164 2 0.01
166 118 0.75
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.45
Consensus pattern (162 bp):
TAATTATTAAGAATTTTATTAAATTATATATTATTATAATATATTAATATATTTAATAATAATTA
TGTTTAAATATGATTAAATTATTTATCATTGATAATAATAATCTTATTAAAATTTAAATAACAAT
AACAATAATCATTTACCAAAACAAATTTATGC
Found at i:6773179 original size:25 final size:26
Alignment explanation
Indices: 6773147--6773201 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
6773137 TTATTAAATT
*
6773147 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
6773172 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
6773197 A-ATAT
1 ATATAT
6773202 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:6776817 original size:16 final size:17
Alignment explanation
Indices: 6776786--6776818 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6776776 AAATCATTAT
6776786 TTATAAATGCAATAAATC
1 TTATAAAT-CAATAAATC
6776804 TTATAAAT-AATAAAT
1 TTATAAATCAATAAAT
6776819 AATATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
TTATAAATCAATAAATC
Found at i:6782759 original size:32 final size:32
Alignment explanation
Indices: 6782723--6783090 Score: 411
Period size: 32 Copynumber: 11.5 Consensus size: 32
6782713 TATATAAATT
* *
6782723 CATATACAAATCAATTCGGCAACATAAGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
*
6782755 CATATACAATTCAATTCGGAAATATATAGGTATA
1 CATATACAATTCAATTCGGCAATATA-A-GTATA
* *
6782789 CATATACAATTCAATACGAC-A-ATAAGTGCATA
1 CATATACAATTCAATTCGGCAATATAAGT--ATA
*
6782821 CCTATACAATTCAATTCGGCAATATAAGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
* ***
6782853 CATATACAATTCAATTCGACAATAGGTGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
*
6782885 CCTATACAATTCAATTCGGCAATATAAGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
* * ***
6782917 CATATACAATTCAATTTGACAATAGGTGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
* * * ***
6782949 CCTATACAATTCAATTTGACAATAGGTGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
*
6782981 CCTATACAATTCAATTCGGCAATATAAGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
***
6783013 CATATACAATTCAATTCGGCAATAGGTGTATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
* *
6783045 CCTATACAATTTAATTCGGCAATAT-A-TATA
1 CATATACAATTCAATTCGGCAATATAAGTATA
*
6783075 CATATACAAATCAATT
1 CATATACAATTCAATT
6783091 AGACAATACA
Statistics
Matches: 288, Mismatches: 42, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
30 19 0.07
31 1 0.00
32 237 0.82
33 3 0.01
34 28 0.10
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (32 bp):
CATATACAATTCAATTCGGCAATATAAGTATA
Found at i:6788006 original size:22 final size:22
Alignment explanation
Indices: 6787981--6788024 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
6787971 TCTCGAAACT
*
6787981 TCTTTGATGCTGATTGAAATGA
1 TCTTTGATGCTGACTGAAATGA
6788003 TCTTTGATGCTGACTGAAATGA
1 TCTTTGATGCTGACTGAAATGA
6788025 CTTACTCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
TCTTTGATGCTGACTGAAATGA
Found at i:6789464 original size:32 final size:32
Alignment explanation
Indices: 6789428--6790107 Score: 650
Period size: 32 Copynumber: 20.8 Consensus size: 32
6789418 CAATATATAA
* *
6789428 ATACATATACAAATCAATTCGGCAACATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
6789460 ATACATATACAATTCAATTCGACAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
6789492 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
6789524 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
6789556 ATACATATACAATTCAATTCGACAATAGGTGTATACCT
1 ATACATATACAATTCAATTCGGCAATA----TA-A-GT
* * * ***
6789594 ATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
1 ATA-CA-TATACA-ATTCAATT-----CGGCAATATAAGT
* *
6789634 ATACCTATACAATTCAATTCGGAAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
6789666 ATACATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
6789698 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* ***
6789730 ATACATACACAATTCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
6789762 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * ***
6789794 ATACATATACAATTCGATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
*
6789826 ATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* *
6789858 ATACATATACAATTCAATTCGACAATA-AGGTGT
1 ATACATATACAATTCAATTCGGCAATATA--AGT
6789891 ATATC-TATACAATTCAATTCGGCAATATAAGT
1 ATA-CATATACAATTCAATTCGGCAATATAAGT
* * ***
6789923 ATAGATATACAATTCAATTCGACAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * *
6789955 ATACCTATACAATTTAATTCGGCAATACAAGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
***
6789987 ATACATATACAATTCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
* * ***
6790019 ATACCTATACAATTCAATTAGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATATAAGT
**
6790051 ATATC-TATACAATTCAATTCGAAAATAT-A-T
1 ATA-CATATACAATTCAATTCGGCAATATAAGT
* * *
6790081 ATACGTATACAAATCAATTCGACAATA
1 ATACATATACAATTCAATTCGGCAATA
6790108 CATAAAATAT
Statistics
Matches: 535, Mismatches: 92, Indels: 44
0.80 0.14 0.07
Matches are distributed among these distances:
29 1 0.00
30 24 0.04
31 1 0.00
32 434 0.81
33 27 0.05
34 2 0.00
36 2 0.00
37 8 0.01
38 10 0.02
39 1 0.00
40 10 0.02
41 7 0.01
46 8 0.01
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATATAAGT
Found at i:6789541 original size:96 final size:96
Alignment explanation
Indices: 6789428--6790107 Score: 776
Period size: 96 Copynumber: 6.9 Consensus size: 96
6789418 CAATATATAA
* * *
6789428 ATACATATACAAATCAATTCGGCAACATAAGTATACATATACAATTCAATTCGACAATATAAGTA
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATAAGTA
6789493 TACATATACAATTCAATTCGACAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
6789524 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGTA
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGAC----------
6789589 TACCTATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
56 -A---ATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
* ***
6789634 ATACCTATACAATTCAATTCGGAAATATAAGTATACATATACAATTCAATTCGACAATAGGTGTA
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATAAGTA
* * ***
6789699 TACCTATACAATTCAATTCGGCAATATAAGT
66 TACATATACAATTCAATTCGACAATAGGTGT
* * *** * *
6789730 ATACATACACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTA
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATAAGTA
*
6789795 TACATATACAATTCGATTCGACAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
*
6789826 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATA-AGGTG
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATA--AG
* ***
6789890 TATATC-TATACAATTCAATTCGGCAATATAAGT
64 TATA-CATATACAATTCAATTCGACAATAGGTGT
** * *** * * * *
6789923 ATAGATATACAATTCAATTCGACAATAGGTGTATACCTATACAATTTAATTCGGCAATACAAGTA
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATAAGTA
*
6789988 TACATATACAATTCAATTCGGCAATAGGTGT
66 TACATATACAATTCAATTCGACAATAGGTGT
* *** *
6790019 ATACCTATACAATTCAATTAGGCAATAGGTGTATATC-TATACAATTCAATTCGAAAATAT-A-T
1 ATACCTATACAATTCAATTCGGCAATATAAGTATA-CATATACAATTCAATTCGACAATATAAGT
* *
6790081 ATACGTATACAAATCAATTCGACAATA
65 ATACATATACAATTCAATTCGACAATA
6790108 CATAAAATAT
Statistics
Matches: 498, Mismatches: 66, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
94 25 0.05
95 3 0.01
96 294 0.59
97 78 0.16
98 2 0.00
99 1 0.00
107 1 0.00
110 94 0.19
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (96 bp):
ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATATAAGTA
TACATATACAATTCAATTCGACAATAGGTGT
Found at i:6789583 original size:64 final size:64
Alignment explanation
Indices: 6789428--6790107 Score: 727
Period size: 64 Copynumber: 10.4 Consensus size: 64
6789418 CAATATATAA
* * * ***
6789428 ATACATATACAAATCAATTCGGCAACATAAGTATACATATACAATTCAATTCGACAATATAAGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
* * *** * * ***
6789492 ATACATATACAATTCAATTCGACAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
* * *** * * * * *
6789556 ATACATATACAATTCAATTCGACAATAGGTGTATACCTATATAAGTATACATATACAATTCAATT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAA-T-T-CA-ATTCGA--CAATA
* ***
6789621 CGACA
60 GGTGT
** * * *
6789626 ATAGGTGTATACCTATACAATTCAATTCGGAAATATAAGTATACATATACAATTCAATTCGACAA
1 ATA--CCTATA-CAATTC-----AATTCGGCAATATAAGTATACATATACAATTCAATTCGACAA
6789691 TAGGTGT
58 TAGGTGT
* *
6789698 ATACCTATACAATTCAATTCGGCAATATAAGTATACATACACAATTCAATTCGGCAATAGGTGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
*
6789762 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCGATTCGACAATAGGTGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
6789826 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAAGGTGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAAT-AGGTGT
* *
6789891 ATATCTATACAATTCAATTCGGCAATATAAGTATAGATATACAATTCAATTCGACAATAGGTGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
* * *
6789955 ATACCTATACAATTTAATTCGGCAATACAAGTATACATATACAATTCAATTCGGCAATAGGTGT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
* *** * *
6790019 ATACCTATACAATTCAATTAGGCAATAGGTGTATATC-TATACAATTCAATTCGAAAATA--TAT
1 ATACCTATACAATTCAATTCGGCAATATAAGTATA-CATATACAATTCAATTCGACAATAGGTGT
* * *
6790081 ATACGTATACAAATCAATTCGACAATA
1 ATACCTATACAATTCAATTCGGCAATA
6790108 CATAAAATAT
Statistics
Matches: 535, Mismatches: 65, Indels: 34
0.84 0.10 0.05
Matches are distributed among these distances:
62 25 0.05
64 378 0.71
65 64 0.12
66 1 0.00
67 2 0.00
68 3 0.01
69 4 0.01
70 12 0.02
72 12 0.02
73 4 0.01
74 4 0.01
75 2 0.00
76 1 0.00
77 1 0.00
78 22 0.04
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (64 bp):
ATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTGT
Found at i:6789601 original size:46 final size:46
Alignment explanation
Indices: 6789548--6789642 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
6789538 CAATTCGGCA
6789548 ATATAAGTATACATATACAATTCAATTCGACAATAGGTGTATACCT
1 ATATAAGTATACATATACAATTCAATTCGACAATAGGTGTATACCT
6789594 ATATAAGTATACATATACAATTCAATTCGACAATAGGTGTATACCT
1 ATATAAGTATACATATACAATTCAATTCGACAATAGGTGTATACCT
6789640 ATA
1 ATA
6789643 CAATTCAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (46 bp):
ATATAAGTATACATATACAATTCAATTCGACAATAGGTGTATACCT
Found at i:6789668 original size:78 final size:78
Alignment explanation
Indices: 6789522--6789674 Score: 200
Period size: 78 Copynumber: 2.0 Consensus size: 78
6789512 GACAATAGGT
* * * **
6789522 GTATACCTATACAATTCAATTCGGCAATATAAGTATACATATACAATTCAATTCGACAATAGGTG
1 GTATACATATACAATTCAATTCGACAATAGAAGTATACATATACAATTCAATTCGACAATAGAAG
*
6789587 TATACCTATATAA
66 TATACATATATAA
** * *
6789600 GTATACATATACAATTCAATTCGACAATAGGTGTATACCTATACAATTCAATTCGGA-AATATAA
1 GTATACATATACAATTCAATTCGACAATAGAAGTATACATATACAATTCAATTC-GACAATAGAA
6789664 GTATACATATA
65 GTATACATATA
6789675 CAATTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
78 62 0.97
79 2 0.03
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (78 bp):
GTATACATATACAATTCAATTCGACAATAGAAGTATACATATACAATTCAATTCGACAATAGAAG
TATACATATATAA
Done.