Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008383.1 Hibiscus syriacus cultivar Beakdansim tig00111145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85653
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:3621 original size:21 final size:20
Alignment explanation
Indices: 3594--3654 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
3584 ATTTTGGTGC
3594 AGAGGGAATCGATTCGCCCCT
1 AGAGGGAATCGATTC-CCCCT
* *
3615 TGAGGGAACCGATTCCCCCT
1 AGAGGGAATCGATTCCCCCT
* *
3635 ACAGGGGAATCGATACCCCC
1 AGA-GGGAATCGATTCCCCC
3655 CTGGGGTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (20 bp):
AGAGGGAATCGATTCCCCCT
Found at i:8822 original size:15 final size:15
Alignment explanation
Indices: 8800--8835 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
8790 TCAAACCTGG
8800 AATTAATTACATATT
1 AATTAATTACATATT
*
8815 ATTTAATTACATATT
1 AATTAATTACATATT
8830 AATTAA
1 AATTAA
8836 GAGGCATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTAATTACATATT
Found at i:8988 original size:10 final size:10
Alignment explanation
Indices: 8973--9003 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8963 GGGATATACG
*
8973 TGGGTCGGAT
1 TGGGTCAGAT
8983 TGGGTCAGAT
1 TGGGTCAGAT
8993 TGGGTCAGAT
1 TGGGTCAGAT
9003 T
1 T
9004 TTTGATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.10, G:0.42, T:0.32
Consensus pattern (10 bp):
TGGGTCAGAT
Found at i:11075 original size:12 final size:12
Alignment explanation
Indices: 11052--11089 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
11042 ATGAATATTA
11052 AAATTAAA-TTT
1 AAATTAAATTTT
11063 AAATTAAATTTT
1 AAATTAAATTTT
11075 AAA-TATAATTTT
1 AAATTA-AATTTT
11087 AAA
1 AAA
11090 AAATAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTAAATTTT
Found at i:27749 original size:48 final size:48
Alignment explanation
Indices: 27694--28665 Score: 730
Period size: 48 Copynumber: 20.3 Consensus size: 48
27684 CATATATAAA
** * * *
27694 TCTCCTCCACCACCAGTTTATTCCCCACCTCCTCCTTATGTTTACATG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * * * ** * *
27742 TCACCTCCTCCACCAAAGT--ATTCACCACCACCTCCTTACATTTATAAG
1 TCTCCTCCACCACC--AGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *
27790 --T-CTCCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * *
27835 TCTCCACCACCGCCAGTCCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
*
27883 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *** * * * * ** *
27931 TCACCTCCTCCACCAAAACATTCACCGCCACCTCCTTACATCTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * *
27979 TCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * * *
28027 TCACCTCCACCGCCAGTCCACTCCCCGCCTCCTCCTTATGTTTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * **** * ** * * ** * *
28075 TCACCTCCTCCACCAAAATATTCATCGCCACCTCCTTACATTTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * *
28123 TCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * * *
28171 TCTCCACCACCGCCAATCCACTCCCCACCTCCTCTTTATGTTTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *** * * * ** *
28219 TCACCTCCTCCACCAAAGCATTCACCGCCTCCTCCTTACATCTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *
28267 TCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * *
28315 TCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *** * * * ** *
28363 TCACCTCCTCCACCAAAGCATTCACCACCACCTCCTTACATCTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* ** * * *
28411 TCTCCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * * *
28459 TCTCCACCATCGCCAATCCACTCCCCACCTCCTCCTTATGTTTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *** * * * * ** *
28507 TCACCTCCTCCACCAAAGCATTCACCGCCTTCTCCTTACATCTATAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * *
28555 TCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* * * * *
28603 TCTCCACCACCGCCAGTCCACTCTCTACCTCCTCCTTATGTTTACAAG
1 TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
* *
28651 TCACCTCCTCCACCA
1 TCTCCTCCACCACCA
28666 AAGCATTCAC
Statistics
Matches: 706, Mismatches: 211, Indels: 14
0.76 0.23 0.02
Matches are distributed among these distances:
43 3 0.00
45 29 0.04
47 1 0.00
48 670 0.95
50 3 0.00
ACGTcount: A:0.23, C:0.45, G:0.06, T:0.25
Consensus pattern (48 bp):
TCTCCTCCACCACCAGTCCACTCCCCACCTCCTCCTTATGTCTACAAG
Found at i:27895 original size:27 final size:27
Alignment explanation
Indices: 27811--27897 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
27801 AGTTCACTCC
*
27811 CCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCATATGTCTACAAGTCT
* * *
27838 CCACCACCGCC--A-GTC--C-ACTCC
1 CCACCACCACCATATGTCTACAAGTCT
*
27859 CCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCATATGTCTACAAGTCT
*
27886 CCTCCACCACCA
1 CCACCACCACCA
27898 GTCCACTCCC
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
21 12 0.27
22 1 0.02
23 1 0.02
24 6 0.14
25 1 0.02
26 1 0.02
27 22 0.50
ACGTcount: A:0.24, C:0.49, G:0.07, T:0.20
Consensus pattern (27 bp):
CCACCACCACCATATGTCTACAAGTCT
Found at i:27913 original size:24 final size:24
Alignment explanation
Indices: 27791--27914 Score: 63
Period size: 24 Copynumber: 5.2 Consensus size: 24
27781 ATTTATAAGT
*
27791 CTCCACCACCAGTTCACTCCCCAC
1 CTCCACCACCAGTCCACTCCCCAC
* * **** *
27815 CTCCACCA-TATGTCTACAAGTCTC
1 CTCCACCACCA-GTCCACTCCCCAC
* *
27839 CACCACCGCCAGTCCACTCCCCAC
1 CTCCACCACCAGTCCACTCCCCAC
* * **** *
27863 CTCCACCA-TATGTCTACAAGTCTC
1 CTCCACCACCA-GTCCACTCCCCAC
27887 CTCCACCACCAGTCCACTCCCCAC
1 CTCCACCACCAGTCCACTCCCCAC
27911 CTCC
1 CTCC
27915 TCCTTATGTT
Statistics
Matches: 63, Mismatches: 33, Indels: 8
0.61 0.32 0.08
Matches are distributed among these distances:
23 2 0.03
24 59 0.94
25 2 0.03
ACGTcount: A:0.22, C:0.52, G:0.06, T:0.19
Consensus pattern (24 bp):
CTCCACCACCAGTCCACTCCCCAC
Found at i:28214 original size:288 final size:288
Alignment explanation
Indices: 27827--29186 Score: 2135
Period size: 288 Copynumber: 4.8 Consensus size: 288
27817 CCACCATATG
* * * *
27827 TCTACAAGTCTCCACCACCGCCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCTCCA
1 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
27892 CCACCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAACATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
27957 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
131 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
* * * * *
28022 ACAAGTCACCTCCACCGCCAGTCCACTCCCCGCCTCCTCCTTATGTTTATAAGTCACCTCCTCCA
196 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
** * *
28087 CCAAAATATTCATCGCCACCTCCTTACA
261 CCAAAGCATTCACCACCACCTCCTTACA
*
28115 TTTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
28180 CCGCCAATCCACTCCCCACCTCCTCTTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
* *
28245 GCCTCCTCCTTACATCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCT
131 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
28310 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
196 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
28375 CCAAAGCATTCACCACCACCTCCTTACA
261 CCAAAGCATTCACCACCACCTCCTTACA
* *
28403 TCTATAAGTCTCCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
28468 TCGCCAATCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
** *
28533 GCCTTCTCCTTACATCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCT
131 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
*
28598 ACAAGTCTCCACCACCGCCAGTCCACTCTCTACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
196 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
* *
28663 CCAAAGCATTCACCACCACCACC--A-G
261 CCAAAGCATTCACCACCACCTCCTTACA
*
28688 T-T-T---T-T-----TCC-CCA---C-CT--CCA---CC---ATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* * *
28729 CCGCCAGTCTACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCTACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
* *
28794 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCATTCTCCACCTCCACCATATGTCT
131 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
28859 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
196 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
*
28924 CCAAAGCATTCACCGCCACCTCCTTACA
261 CCAAAGCATTCACCACCACCTCCTTACA
*
28952 TCTATAAGTCTCCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
*
29017 CCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
* * *
29082 ACCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCT
131 GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
* *
29147 ACAAGTCTCCACCACCGCCAGTCCATTCCCCACCTCCTCC
196 ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCC
29187 ACCAAAGCAT
Statistics
Matches: 990, Mismatches: 55, Indels: 54
0.90 0.05 0.05
Matches are distributed among these distances:
261 227 0.23
263 1 0.00
264 3 0.00
265 1 0.00
266 1 0.00
267 3 0.00
269 2 0.00
270 1 0.00
273 3 0.00
274 2 0.00
275 2 0.00
276 3 0.00
279 2 0.00
280 2 0.00
282 3 0.00
283 1 0.00
284 1 0.00
285 3 0.00
286 1 0.00
288 728 0.74
ACGTcount: A:0.24, C:0.45, G:0.07, T:0.24
Consensus pattern (288 bp):
TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
GCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCT
ACAAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCA
CCAAAGCATTCACCACCACCTCCTTACA
Found at i:28697 original size:117 final size:117
Alignment explanation
Indices: 28558--28799 Score: 412
Period size: 117 Copynumber: 2.1 Consensus size: 117
28548 CTATAAGTCT
28558 CCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
1 CCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
*
28623 CTCTCTACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCA
66 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCA
**** *
28675 CCACCACCACCAGTTTTTTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCTA
1 CCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
*
28740 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCTACCAAAGCATTCA
66 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCA
*
28792 CCGCCACC
1 CCACCACC
28800 TCCTTACATC
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.23, C:0.46, G:0.07, T:0.24
Consensus pattern (117 bp):
CCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCA
Found at i:28707 original size:144 final size:144
Alignment explanation
Indices: 27827--28682 Score: 1442
Period size: 144 Copynumber: 5.9 Consensus size: 144
27817 CCACCATATG
* * *
27827 TCTACAAGTCTCCACCACCGCCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCTCCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
27892 CCACCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAACATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
27957 GCCACCTCCTTACA
131 GCCACCTCCTTACA
* * *
27971 TCTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCACCTCCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* * ** *
28036 CCGCCAGTCCACTCCCCGCCTCCTCCTTATGTTTATAAGTCACCTCCTCCACCAAAATATTCATC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
28101 GCCACCTCCTTACA
131 GCCACCTCCTTACA
* *
28115 TTTATAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
28180 CCGCCAATCCACTCCCCACCTCCTCTTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
*
28245 GCCTCCTCCTTACA
131 GCCACCTCCTTACA
28259 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
*
28324 CCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
*
28389 ACCACCTCCTTACA
131 GCCACCTCCTTACA
** *
28403 TCTATAAGTCTCCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
28468 TCGCCAATCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
**
28533 GCCTTCTCCTTACA
131 GCCACCTCCTTACA
28547 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
1 TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
* *
28612 CCGCCAGTCCACTCTCTACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
66 CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
*
28677 ACCACC
131 GCCACC
28683 ACCAGTTTTT
Statistics
Matches: 666, Mismatches: 46, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 666 1.00
ACGTcount: A:0.24, C:0.46, G:0.06, T:0.24
Consensus pattern (144 bp):
TCTATAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCACCATATGTCTACAAGTCTCCACCA
CCGCCAGTCCACTCCCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACC
GCCACCTCCTTACA
Found at i:28748 original size:48 final size:48
Alignment explanation
Indices: 28675--29186 Score: 401
Period size: 48 Copynumber: 10.7 Consensus size: 48
28665 AAAGCATTCA
* * * * *
28675 CCACCACCACCAGTTTTTTCCCCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * *
28723 CCACCACCGCCAGTCTACTCTCCACCTCCTCCTTATGTTTACAAGTCA
1 CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * * * * ** *
28771 CCTCCTCTACCAAAG-C-ATTCACCGCCACCTCCTTACATCTATAAGTCT
1 CCACCACCACC--AGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* *
28819 CCACCACCACCAGT-TCATTCTCCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCAGTCT-ATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * * *
28867 CCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCA
1 CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * * * ** *
28915 CCTCCTCCACCAAAG-C-ATTCACCGCCACCTCCTTACATCTATAAGTCT
1 CCACCACCACC--AGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * *
28963 CCACCACCACCAGT-TCATTCCCCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCAGTCT-ATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * * *
29011 CCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCA
1 CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * * ** *
29059 CCTCCTCCACCAAAG-C-ATTCACCACCACCTCCTTACATCTATAAGTCT
1 CCACCACCACC--AGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * * *
29107 CCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCTACAAGTCT
1 CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
* * *
29155 CCACCACCGCCAGTCCATTCCCCACCTCCTCC
1 CCACCACCACCAGTCTATTCTCCACCTCCTCC
29187 ACCAAAGCAT
Statistics
Matches: 353, Mismatches: 95, Indels: 32
0.74 0.20 0.07
Matches are distributed among these distances:
46 6 0.02
48 338 0.96
49 3 0.01
50 6 0.02
ACGTcount: A:0.23, C:0.45, G:0.07, T:0.25
Consensus pattern (48 bp):
CCACCACCACCAGTCTATTCTCCACCTCCTCCTTATGTCTACAAGTCT
Found at i:28772 original size:96 final size:96
Alignment explanation
Indices: 28672--29186 Score: 442
Period size: 96 Copynumber: 5.4 Consensus size: 96
28662 ACCAAAGCAT
*** * * *
28672 TCACCACCACCACCAGTTTTTTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGT
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACCAGT
* *
28737 CTACTCTCCACCTCCTCCTTATGTTTACAAG
66 CTATTCTCCACCTCCTCCTTATGTCTACAAG
* * * *** * * * ** *
28768 TCACCTCCTCTACCAAAGCATTCACCGCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGT
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACCAGT
* *
28833 -TCATTCTCCACCTCCACCATATGTCTACAAG
66 CT-ATTCTCCACCTCCTCCTTATGTCTACAAG
* * * * * * * *
28864 TCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAA
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACC--A
* * * ** *
28929 G-C-ATTCACCGCCACCTCCTTACATCTATAAG
64 GTCTATTCTCCACCTCCTCCTTATGTCTACAAG
* * * * *
28960 TCTCCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGT
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACCAGT
* * *
29025 CCACTCTCCACCTCCTCCTTATGTTTACAAG
66 CTATTCTCCACCTCCTCCTTATGTCTACAAG
* * *** * * ** *
29056 TCACCTCCTCCACCAAAGCATTCACCACCACCTCCTTACATCTATAAGTCTCCACCACCACCAGT
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACCAGT
* * * *
29121 TTATTCCCCACCTCCACCATATGTCTACAAG
66 CTATTCTCCACCTCCTCCTTATGTCTACAAG
* *
29152 TCTCCACCACCGCCAGTCCATTCCCCACCTCCTCC
1 TCACCACCACCACCAGTCCATTCCCCACCTCCTCC
29187 ACCAAAGCAT
Statistics
Matches: 316, Mismatches: 97, Indels: 12
0.74 0.23 0.03
Matches are distributed among these distances:
94 2 0.01
95 2 0.01
96 310 0.98
98 2 0.01
ACGTcount: A:0.23, C:0.45, G:0.07, T:0.25
Consensus pattern (96 bp):
TCACCACCACCACCAGTCCATTCCCCACCTCCTCCTTATGTCTACAAGTCTCCACCACCACCAGT
CTATTCTCCACCTCCTCCTTATGTCTACAAG
Found at i:29231 original size:144 final size:144
Alignment explanation
Indices: 28675--29186 Score: 943
Period size: 144 Copynumber: 3.6 Consensus size: 144
28665 AAAGCATTCA
** *
28675 CCACCACCACCAGTTTTTTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCTA
1 CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
*
28740 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCTACCAAAGCATTCACCGCCACCTCCTT
66 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCGCCACCTCCTT
28805 ACATCTATAAGTCT
131 ACATCTATAAGTCT
*
28819 CCACCACCACCAGTTCATTCTCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
1 CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
28884 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCGCCACCTCCTT
66 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCGCCACCTCCTT
28949 ACATCTATAAGTCT
131 ACATCTATAAGTCT
28963 CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
1 CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
*
29028 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCACCACCTCCTT
66 CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCGCCACCTCCTT
29093 ACATCTATAAGTCT
131 ACATCTATAAGTCT
*
29107 CCACCACCACCAGTTTATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
1 CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
* *
29172 TTCCCCACCTCCTCC
66 CTCTCCACCTCCTCC
29187 ACCAAAGCAT
Statistics
Matches: 358, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 358 1.00
ACGTcount: A:0.23, C:0.45, G:0.07, T:0.25
Consensus pattern (144 bp):
CCACCACCACCAGTTCATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCA
CTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACCAAAGCATTCACCGCCACCTCCTT
ACATCTATAAGTCT
Found at i:29231 original size:216 final size:216
Alignment explanation
Indices: 29005--29399 Score: 569
Period size: 216 Copynumber: 1.8 Consensus size: 216
28995 ATATGTCTAC
* * * * *
29005 AAGTCTCCACCACCGCCAGTCCACTCTCCACCTCCTCCTTATGTTTACAAGTCACCTCCTCCACC
1 AAGTCTCCACCACCGCCAGTCCACTCCCCACCTCCTCCATATATCTACAAGTCACCTCCACCACC
* * * * *
29070 AAAGCATTCACCACCACCTCCTTACATCTATAAGTCTCCACCACCACC-AGTTTATTCCCCACCT
66 AAACCATTCACCACCACCACCTTACATCTACAAGTCTCCACCACCACCGA-TTCACTCCCCACCT
* *
29134 CCACCATATG-TCTACAAGTCTCCACCACCGCCAGTCCATTCCCCACCTCCTCCACCAAAGCATT
130 CCACCATATGCT-TACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCACCAAAGCATT
29198 CACCGCCACCTCCTTACATTTAT
194 CACCGCCACCTCCTTACATTTAT
* * *
29221 AAGTCTCCACCACCGCCAGTTCACTCCCCACCTTCTCCATATATCTATAAGTCACCTCCACCACC
1 AAGTCTCCACCACCGCCAGTCCACTCCCCACCTCCTCCATATATCTACAAGTCACCTCCACCACC
*** * *
29286 CGTCCATTCACCACCCCCACCTTACATTTACAAGTCTCCACCACCACCGATTCACTCCCCACCTC
66 AAACCATTCACCACCACCACCTTACATCTACAAGTCTCCACCACCACCGATTCACTCCCCACCTC
*
29351 CACCATATGCTTACAAGTCTCCACCACCACCGGTCCACTCCCCACCTCC
131 CACCATATGCTTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCC
29400 ACCATATGTT
Statistics
Matches: 156, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
216 154 0.99
217 2 0.01
ACGTcount: A:0.24, C:0.47, G:0.06, T:0.23
Consensus pattern (216 bp):
AAGTCTCCACCACCGCCAGTCCACTCCCCACCTCCTCCATATATCTACAAGTCACCTCCACCACC
AAACCATTCACCACCACCACCTTACATCTACAAGTCTCCACCACCACCGATTCACTCCCCACCTC
CACCATATGCTTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCACCAAAGCATTCA
CCGCCACCTCCTTACATTTAT
Found at i:29277 original size:96 final size:96
Alignment explanation
Indices: 29194--29619 Score: 460
Period size: 96 Copynumber: 4.4 Consensus size: 96
29184 TCCACCAAAG
* * * * * * * *
29194 CATTCACCGCCACCTCCTTACATTTATAAGTCTCCACCACCGCCAGTTCACTCCCCACCTTCTCC
1 CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACC
* *
29259 ATATATCTATAAGTCACCTCCACCACCCGTC
66 ATATATCTACAAGTCACCTCCACCACCAGTC
* *
29290 CATTCACCACCCCCACCTTACATTTACAAGTCTCCACCACCACC-GATTCACTCCCCACCTCCAC
1 CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCACCAG-TTCACTCCCCACCTCCAC
* * * *
29354 CATAT-GCTTACAAGTCTCCACCACCACCGGTC
65 CATATATC-TACAAGTCACCTCCACCACCAGTC
* * **
29386 CACTCCCCACCTCCACCATATGTTTACAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACC
1 CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACC
* * *
29451 ATATGTCTACAAGTCACCTCCACCACCGGTT
66 ATATATCTACAAGTCACCTCCACCACCAGTC
** * * * *
29482 CATTCACCACCTCCACCATATGTCTACAAGTCTCCACCACCACCAATACACTCCCCACCTCCTCC
1 CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACC
* * *
29547 CTATATCTATAAGTCACCTCCACCACCAGTA
66 ATATATCTACAAGTCACCTCCACCACCAGTC
* * * * * * * *
29578 CACTCTCCACCTCCTCCTTATATCTACAAGTCACCTCCACCA
1 CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCA
29620 TCACATCCTA
Statistics
Matches: 286, Mismatches: 40, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
95 2 0.01
96 282 0.99
97 2 0.01
ACGTcount: A:0.25, C:0.46, G:0.06, T:0.23
Consensus pattern (96 bp):
CATTCACCACCTCCACCATACATTTACAAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACC
ATATATCTACAAGTCACCTCCACCACCAGTC
Found at i:29282 original size:48 final size:48
Alignment explanation
Indices: 29221--29619 Score: 415
Period size: 48 Copynumber: 8.3 Consensus size: 48
29211 TTACATTTAT
* * * *
29221 AAGTCTCCACCACCGCCAGTTCACTCCCCACCTTCTCCATATATCTAT
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
* * * * * * * * * *
29269 AAGTCACCTCCACCACCCGTCCATTCACCACCCCCACCTTACATTTAC
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
*
29317 AAGTCTCCACCACCACC-GATTCACTCCCCACCTCCACCATAT-GCTTAC
1 AAGTCTCCACCACCACCAG-TTCACTCCCCACCTCCACCATATATC-TAC
* * * *
29365 AAGTCTCCACCACCACCGGTCCACTCCCCACCTCCACCATATGTTTAC
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
*
29413 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATGTCTAC
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
* * * * * *
29461 AAGTCACCTCCACCACCGGTTCATTCACCACCTCCACCATATGTCTAC
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
* * * * *
29509 AAGTCTCCACCACCACCAATACACTCCCCACCTCCTCCCTATATCTAT
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
* * * * * *
29557 AAGTCACCTCCACCACCAGTACACTCTCCACCTCCTCCTTATATCTAC
1 AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
* *
29605 AAGTCACCTCCACCA
1 AAGTCTCCACCACCA
29620 TCACATCCTA
Statistics
Matches: 295, Mismatches: 52, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.00
48 293 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.47, G:0.06, T:0.22
Consensus pattern (48 bp):
AAGTCTCCACCACCACCAGTTCACTCCCCACCTCCACCATATATCTAC
Found at i:29327 original size:120 final size:120
Alignment explanation
Indices: 29057--29300 Score: 362
Period size: 120 Copynumber: 2.0 Consensus size: 120
29047 GTTTACAAGT
*
29057 CACCTCCTCCACCAAAGCATTCACCACCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTT
1 CACCTCCTCCACCAAAGCATTCACCGCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTT
* * * * * *
29122 TATTCCCCACCTCCACCATATGTCTACAAGTCTCCACCACCGCCAGTCCATTCCC
66 CACTCCCCACCTCCACCATATATCTACAAGTCACCACCACCACCAGTCCATTCAC
* *
29177 CACCTCCTCCACCAAAGCATTCACCGCCACCTCCTTACATTTATAAGTCTCCACCACCGCCAGTT
1 CACCTCCTCCACCAAAGCATTCACCGCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTT
* * * * *
29242 CACTCCCCACCTTCTCCATATATCTATAAGTCACCTCCACCACCCGTCCATTCAC
66 CACTCCCCACCTCCACCATATATCTACAAGTCACCACCACCACCAGTCCATTCAC
29297 CACC
1 CACC
29301 CCCACCTTAC
Statistics
Matches: 110, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.25, C:0.47, G:0.06, T:0.23
Consensus pattern (120 bp):
CACCTCCTCCACCAAAGCATTCACCGCCACCTCCTTACATCTATAAGTCTCCACCACCACCAGTT
CACTCCCCACCTCCACCATATATCTACAAGTCACCACCACCACCAGTCCATTCAC
Found at i:29468 original size:24 final size:24
Alignment explanation
Indices: 29441--29523 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
29431 GTTCACTCCC
29441 CACCTCCACCATATGTCTACAAGT
1 CACCTCCACCATATGTCTACAAGT
*** * *
29465 CACCTCCACCACCGGTTCATTC-A-C
1 CACCTCCACCATATG-TC-TACAAGT
29489 CACCTCCACCATATGTCTACAAGT
1 CACCTCCACCATATGTCTACAAGT
* *
29513 CTCCACCACCA
1 CACCTCCACCA
29524 CCAATACACT
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
22 2 0.05
23 3 0.07
24 33 0.77
25 3 0.07
26 2 0.05
ACGTcount: A:0.27, C:0.45, G:0.07, T:0.22
Consensus pattern (24 bp):
CACCTCCACCATATGTCTACAAGT
Found at i:29635 original size:144 final size:141
Alignment explanation
Indices: 29221--29628 Score: 458
Period size: 144 Copynumber: 2.8 Consensus size: 141
29211 TTACATTTAT
* * *
29221 AAGTCTCCACCACCGCCAGTTCACTCCCCACCTTCTCCATATATCTATAAGTCACCTCCACCACC
1 AAGTCTCCACCACCACCAGTACACTCCCCACCTCCTCCATATATCTATAAGTCACCTCCACCACC
* * * * * * * * *
29286 CGTCCATTCACCACCCCCACCTTACATTTACAAGTCTCCACCACCACCGATTCACTCCCCACCTC
66 AGTACACTCACCACCTCCACCTTATATCTACAAGTCACCTCCACCACC-A-TC-CTCACCACCTC
29351 CACCATATGCTTAC
128 CACCATATGCTTAC
* * * * * * * *
29365 AAGTCTCCACCACCACCGGTCCACTCCCCACCTCCACCATATGTTTACAAGTCTCCACCACCACC
1 AAGTCTCCACCACCACCAGTACACTCCCCACCTCCTCCATATATCTATAAGTCACCTCCACCACC
* * * * * *
29430 AGTTCACTCCCCACCTCCACCATATGTCTACAAGTCACCTCCACCACCGGTTCATTCACCACCTC
66 AGTACACTCACCACCTCCACCTTATATCTACAAGTCACCTCCACCACC--ATC-CTCACCACCTC
29495 CACCATATG-TCTAC
128 CACCATATGCT-TAC
* *
29509 AAGTCTCCACCACCACCAATACACTCCCCACCTCCTCCCTATATCTATAAGTCACCTCCACCACC
1 AAGTCTCCACCACCACCAGTACACTCCCCACCTCCTCCATATATCTATAAGTCACCTCCACCACC
* *
29574 AGTACACTCTCCACCTCCTCCTTATATCTACAAGTCACCTCCACCATCACATCCT
66 AGTACACTCACCACCTCCACCTTATATCTACAAGTCACCTCCACCA-C-CATCCT
29629 AAACCACATC
Statistics
Matches: 219, Mismatches: 41, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
143 2 0.01
144 214 0.98
145 2 0.01
146 1 0.00
ACGTcount: A:0.25, C:0.47, G:0.06, T:0.23
Consensus pattern (141 bp):
AAGTCTCCACCACCACCAGTACACTCCCCACCTCCTCCATATATCTATAAGTCACCTCCACCACC
AGTACACTCACCACCTCCACCTTATATCTACAAGTCACCTCCACCACCATCCTCACCACCTCCAC
CATATGCTTAC
Found at i:29646 original size:6 final size:6
Alignment explanation
Indices: 29635--29675 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
29625 TCCTAAACCA
* * *
29635 CATCCT CATCCT CATCCT CATCCT AAGCCT CATCCC CATCC
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCCT CATCC
29676 CCTGCACCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.20, C:0.51, G:0.02, T:0.27
Consensus pattern (6 bp):
CATCCT
Found at i:33018 original size:12 final size:13
Alignment explanation
Indices: 32992--33035 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
32982 GGCATCTCCG
32992 GCCGTCGTGCGCC
1 GCCGTCGTGCGCC
33005 GCCGTCGT-CGCC
1 GCCGTCGTGCGCC
*
33017 GCCGT-GAGCGCC
1 GCCGTCGTGCGCC
*
33029 ACCGTCG
1 GCCGTCG
33036 ACGGCGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 17 0.63
13 9 0.33
ACGTcount: A:0.05, C:0.45, G:0.36, T:0.14
Consensus pattern (13 bp):
GCCGTCGTGCGCC
Found at i:33389 original size:19 final size:19
Alignment explanation
Indices: 33343--33389 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
33333 CATTAATTTG
*
33343 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
33363 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
33383 TATATTT
1 TATATTT
33390 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:39054 original size:12 final size:12
Alignment explanation
Indices: 39019--39054 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
39009 GAGCAAAGAG
39019 CAAAGAGAAAAAT
1 CAAAGA-AAAAAT
*
39032 CAAAGCAAAAAT
1 CAAAGAAAAAAT
39044 CAAAGAAAAAA
1 CAAAGAAAAAA
39055 AGAGAAAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (12 bp):
CAAAGAAAAAAT
Found at i:40926 original size:105 final size:102
Alignment explanation
Indices: 40781--41023 Score: 285
Period size: 105 Copynumber: 2.3 Consensus size: 102
40771 ATTTTGAGAA
* * *
40781 TTTTAAAACAAATTGTGTTTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATT
1 TTTTAAAACAAATT-TGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATT
*
40846 CAC-TAAAAACAAAATTAATCTCACCTT-AGATTCTTGTTTC
65 CACAT-AAAACAAAATTAATCTCA-CTTGAGA-TCGT-TTTC
* * *
40886 TTTTAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTT
1 TTTTAAAACAAATTT-GTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATT
* * *
40951 CACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTC
65 CACATAAAACAAAATTAATCTCACTTGAGATCGTTTTC
** *
40989 -TCAAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 TTTTAAAACAAA-TTTGTCTCGCTTGAGACATTTTC
41024 TCTAAAAAAT
Statistics
Matches: 120, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
102 27 0.22
103 7 0.06
104 7 0.06
105 78 0.65
106 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (102 bp):
TTTTAAAACAAATTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTC
ACATAAAACAAAATTAATCTCACTTGAGATCGTTTTC
Found at i:41014 original size:36 final size:33
Alignment explanation
Indices: 40969--41088 Score: 96
Period size: 37 Copynumber: 3.4 Consensus size: 33
40959 ACAAAGTTGA
40969 TCTCACTTGAGATCGTTTTCTCAAAAACAAACTTTG
1 TCTCACTTGAGA-C-TTTTCT-AAAAACAAACTTTG
* * *
41005 TCTCGCTTGAGACAATTTCTCTAAAAAATAAATTTTG
1 TCTCACTTGAGAC--TTT-TCT-AAAAACAAACTTTG
* * * *
41042 TCTCATTTGAGACTATATCTTAAAGCAAACTTTG
1 TCTCACTTGAGACT-TTTCTAAAAACAAACTTTG
*
41076 TCTCGCTTGAGAC
1 TCTCACTTGAGAC
41089 ATCATTTTCT
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
34 21 0.31
35 5 0.07
36 15 0.22
37 26 0.39
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (33 bp):
TCTCACTTGAGACTTTTCTAAAAACAAACTTTG
Found at i:41086 original size:34 final size:36
Alignment explanation
Indices: 40987--41089 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 36
40977 GAGATCGTTT
*
40987 TCTC-AAAAACAAACTTTGTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAACTTTGTCTCGCTTGAGACAATA
* * ** *
41022 TCTCTAAAAAATAAATTTTGTCTCATTTGAGACTATA
1 TCTCT-AAAAACAAACTTTGTCTCGCTTGAGACAATA
*
41059 TCT-T-AAAGCAAACTTTGTCTCGCTTGAGACA
1 TCTCTAAAAACAAACTTTGTCTCGCTTGAGACA
41090 TCATTTTCTC
Statistics
Matches: 54, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
34 21 0.39
35 4 0.07
36 1 0.02
37 28 0.52
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCTAAAAACAAACTTTGTCTCGCTTGAGACAATA
Found at i:41409 original size:28 final size:27
Alignment explanation
Indices: 41332--41436 Score: 131
Period size: 27 Copynumber: 3.8 Consensus size: 27
41322 AAGACAATTT
41332 CTTTTGAGGAAAAATCTTTGAGTTTGTTC
1 CTTTTGA--AAAAATCTTTGAGTTTGTTC
* *
41361 CTCTTGAAAAAATCTTGGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
41388 CTTTTGAATAAAATCTTTGAG-TTGTTT
1 CTTTTGAA-AAAATCTTTGAGTTTGTTC
*
41415 CTTTTGAAAAAAAACTTTGAGT
1 CTTTTG-AAAAAATCTTTGAGT
41437 CTATTTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
27 48 0.72
28 13 0.19
29 6 0.09
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (27 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:41448 original size:55 final size:55
Alignment explanation
Indices: 41342--41450 Score: 130
Period size: 55 Copynumber: 2.0 Consensus size: 55
41332 CTTTTGAGGA
* * * *
41342 AAAATCTTTGAGTTTGTTCCTCTTGAAAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAATCTTTGAGTTTGTTCCTCTTGAAAAAAACTTGGAGTCTATTCATTTTGAAT
* * * *
41397 AAAATCTTTGAG-TTGTTTCTTTTGAAAAAAAACTTTGAGTCTATTTATTTTGAA
1 AAAATCTTTGAGTTTGTTCCTCTTG-AAAAAAACTTGGAGTCTATTCATTTTGAA
41451 ACAAAGTTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
54 10 0.22
55 35 0.78
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (55 bp):
AAAATCTTTGAGTTTGTTCCTCTTGAAAAAAACTTGGAGTCTATTCATTTTGAAT
Found at i:41461 original size:28 final size:27
Alignment explanation
Indices: 41389--41451 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
41379 AGTTTGTTCC
* * * *
41389 TTTTGAATAAAATCTTTGAGTTGTTTC
1 TTTTGAAAAAAAACTTTGAGTTATTTA
41416 TTTTGAAAAAAAACTTTGAGTCTATTTA
1 TTTTGAAAAAAAACTTTGAGT-TATTTA
41444 TTTTGAAA
1 TTTTGAAA
41452 CAAAGTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (27 bp):
TTTTGAAAAAAAACTTTGAGTTATTTA
Found at i:41523 original size:52 final size:53
Alignment explanation
Indices: 41445--41549 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 53
41435 GTCTATTTAT
*
41445 TTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTGAG
1 TTTGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
41497 TTTGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
1 TTTGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
41550 ATTGTTTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 38 0.75
53 13 0.25
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (53 bp):
TTTGAAACAAAGTGTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTGAG
Found at i:41573 original size:29 final size:30
Alignment explanation
Indices: 41537--41599 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
41527 AATTTCGTGA
*
41537 AAAAATCTTTGAGATTGTTT-TTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
41566 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
41596 AAAA
1 AAAA
41600 TTTTGTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:42120 original size:31 final size:30
Alignment explanation
Indices: 42044--42128 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 30
42034 ATTTTGACTC
* *
42044 CTTTGAGGCAGTTTCTCTAGAAATACAAAAT
1 CTTTGAGTC-GTTTCTCTTGAAATACAAAAT
*
42075 CTTTGAGTTTGTTTCTCTTGAAATA-AAACCAT
1 CTTTGAG-TCGTTTCTCTTGAAATACAAA--AT
*
42107 CTTTGAGTCGTTTCCCTTGAAA
1 CTTTGAGTCGTTTCTCTTGAAA
42129 CGAATTTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
30 3 0.07
31 34 0.74
32 9 0.20
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (30 bp):
CTTTGAGTCGTTTCTCTTGAAATACAAAAT
Found at i:42555 original size:66 final size:65
Alignment explanation
Indices: 42470--42651 Score: 190
Period size: 66 Copynumber: 2.8 Consensus size: 65
42460 CAAAACAAAC
*
42470 ATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGAGACAGTTTCCCATGAAACACC
1 ATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTC-TTTGAGACAGTTTCCCATGAAACACC
42535 G
65 G
* * * * * * * *
42536 ATCTTTGAGAACGTTTCCCTTAAAAAACAAATTTTGTCTCGGTTGAGACA-ATTCCCTTTAAACG
1 ATCTTTGAGATCGTTTCCCTT--GAAACGAATTTTGTCTC-TTTGAGACAGTTTCCCATGAAACA
42600 CCG
63 CCG
* * *
42603 -TCTTTG-GGTTGTTTCCTTTGAAACGAATTTTGTCTCTTTCGAGACAGTT
1 ATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTTT-GAGACAGTT
42652 GCTTTTGAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
62 2 0.02
63 21 0.22
64 1 0.01
65 9 0.10
66 26 0.28
67 13 0.14
68 22 0.23
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (65 bp):
ATCTTTGAGATCGTTTCCCTTGAAACGAATTTTGTCTCTTTGAGACAGTTTCCCATGAAACACCG
Found at i:42700 original size:28 final size:28
Alignment explanation
Indices: 42653--42749 Score: 99
Period size: 28 Copynumber: 3.4 Consensus size: 28
42643 GAGACAGTTG
42653 CTTTTGAAACACATTATCTTTGAG-CTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTC-TGTTT
*
42684 -TTCTTGAAACACATCTTTGAGTCTGTTT
1 CTT-TTGAAACAAATCTTTGAGTCTGTTT
* *
42712 CTTTTGAAACAAATCTTTGAATCGGTTT
1 CTTTTGAAACAAATCTTTGAGTCTGTTT
*
42740 CTCTTGAAAC
1 CTTTTGAAAC
42750 CATAATCCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
28 45 0.78
29 3 0.05
30 2 0.03
31 8 0.14
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTCTGTTT
Found at i:42830 original size:40 final size:40
Alignment explanation
Indices: 42768--43014 Score: 187
Period size: 40 Copynumber: 5.8 Consensus size: 40
42758 CTAAAGATGG
*
42768 CCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCT-GA
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCA-CCCCTAGA
* * *
42808 CCAGACC-TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAACCGTGTCACCCCTAG---A
*
42851 CCAGCCGTCCTCATCACGTAGGAACCAAGTTATCACCACTCCTAAAGA
1 CCAGCCGTCCTCATCACGTAGGAACC--G-TGTCA-C-C-CCT--AGA
* *
42899 TGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGA
1 ---CCAGCCGTCCTCATCACGTAGGAACCGTGTCACCCCTAGA
*
42942 CCAGACC-TCCTCATCACGTA-GAAGCCGTGTCACCCTTAGATAA
1 CCAG-CCGTCCTCATCACGTAGGAA-CCGTGTCACCCCTAG---A
* *
42985 CCAGCCATCCTCATCATGTAGGAACCGTGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGT
43015 TATCACCTTT
Statistics
Matches: 168, Mismatches: 15, Indels: 45
0.74 0.07 0.20
Matches are distributed among these distances:
39 6 0.04
40 58 0.35
41 3 0.02
42 4 0.02
43 48 0.29
44 3 0.02
45 4 0.02
46 5 0.03
48 6 0.04
49 3 0.02
51 28 0.17
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.21
Consensus pattern (40 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCACCCCTAGA
Found at i:42997 original size:134 final size:134
Alignment explanation
Indices: 42757--43021 Score: 442
Period size: 134 Copynumber: 2.0 Consensus size: 134
42747 AACCATAATC
*
42757 CCTAAAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCAT
1 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCAT
* *
42822 CACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCAC
66 CACGTAGAAGCCGTGTCAACCATAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCAC
42887 CACT
131 CACT
42891 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCAT-CCCTCGACCAGACCTCCTCA
1 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCT-GACCAGACCTCCTCA
* * * **
42955 TCACGTAGAAGCCGTGTCACCCTTAGATAACCAGCCATCCTCATCATGTAGGAACCGTGTTATCA
65 TCACGTAGAAGCCGTGTCAACCATAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCA
43020 CC
130 CC
43022 TTTAGATGGC
Statistics
Matches: 122, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
133 4 0.03
134 118 0.97
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (134 bp):
CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCAT
CACGTAGAAGCCGTGTCAACCATAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCAC
CACT
Found at i:43111 original size:130 final size:132
Alignment explanation
Indices: 42758--43107 Score: 415
Period size: 134 Copynumber: 2.7 Consensus size: 132
42748 ACCATAATCC
* * *
42758 CTAAAGATGGCCAGTCGTCCTCATCACGTAGGAACCGTGTCATCCCCTGACCAGACCTCCTCATC
1 CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTTGACCAGACCTCCTCATC
* * *
42823 ACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCAAGTTATCACC
66 ACGTAGGAACCGTGTC-ACCTTAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCACC
42888 ACT
130 ACT
* * *
42891 CCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCTCGACCAGACCTCCTCAT
1 -CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTTGACCAGACCTCCTCAT
* **
42956 CACGTA-GAAGCCGTGTCACCCTTAGATAACCAGCCATCCTCATCATGTAGGAACCGTGTTATCA
65 CACGTAGGAA-CCGTGTCA-CCTTAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCA
43020 -C-CT
128 CCACT
* * * * * **
43023 -T-TAGATGGCCAAGAAC-TCTTCATCATGTATGAGCAGTGTCATCCCTTGACCAGATTTCCTCA
1 CTAAAGATGGCC-AG-ACGTCCTCATCACGTAGGAACAGTGTCATCCCTTGACCAGACCTCCTCA
* *
43085 TCATGTAGGAACCTTGTCACCTT
64 TCACGTAGGAACCGTGTCACCTT
43108 TAGACGACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
129 12 0.06
130 54 0.28
131 4 0.02
132 2 0.01
133 4 0.02
134 114 0.60
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (132 bp):
CTAAAGATGGCCAGACGTCCTCATCACGTAGGAACAGTGTCATCCCTTGACCAGACCTCCTCATC
ACGTAGGAACCGTGTCACCTTAGATAACCAGCCATCCTCATCACGTAGGAACCAAGTTATCACCA
CT
Found at i:43142 original size:83 final size:85
Alignment explanation
Indices: 42992--43150 Score: 232
Period size: 83 Copynumber: 1.9 Consensus size: 85
42982 TAACCAGCCA
* * *
42992 TCCTCATCATGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCTTCATCATGTATGAGC
1 TCCTCATCATGTAGGAACC--GTTATCACCTTTAGACGACCAAGAACTCTTCATCACGTATGAGC
43057 AGTGTCATCCCTTGACCAGATT
64 AGTGTCATCCCTTGACCAGATT
* *
43079 TCCTCATCATGTAGGAACC-TTGTCACCTTTAGACGACC-CGAACTCTTCATCACGTATGAGCAG
1 TCCTCATCATGTAGGAACCGTTATCACCTTTAGACGACCAAGAACTCTTCATCACGTATGAGCAG
*
43142 TGTCGTCCC
66 TGTCATCCC
43151 CACCAACACG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
83 31 0.47
84 16 0.24
87 19 0.29
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (85 bp):
TCCTCATCATGTAGGAACCGTTATCACCTTTAGACGACCAAGAACTCTTCATCACGTATGAGCAG
TGTCATCCCTTGACCAGATT
Found at i:44070 original size:12 final size:13
Alignment explanation
Indices: 44044--44087 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
44034 GGCATCTCCG
44044 GCCGTCGTGCGCC
1 GCCGTCGTGCGCC
44057 GCCGTCGT-CGCC
1 GCCGTCGTGCGCC
*
44069 GCCGT-GAGCGCC
1 GCCGTCGTGCGCC
*
44081 ACCGTCG
1 GCCGTCG
44088 ACGGCGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 17 0.63
13 9 0.33
ACGTcount: A:0.05, C:0.45, G:0.36, T:0.14
Consensus pattern (13 bp):
GCCGTCGTGCGCC
Found at i:44441 original size:19 final size:19
Alignment explanation
Indices: 44395--44441 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
44385 CATTAATTTG
*
44395 TATATTATGTTTGCTGATAT
1 TATATT-TGGTTGCTGATAT
44415 TATAATTTGGTTG-TGATATT
1 TAT-ATTTGGTTGCTGATA-T
44435 TATATTT
1 TATATTT
44442 ATTTCGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.26, C:0.02, G:0.15, T:0.57
Consensus pattern (19 bp):
TATATTTGGTTGCTGATAT
Found at i:53454 original size:120 final size:119
Alignment explanation
Indices: 53242--53479 Score: 467
Period size: 120 Copynumber: 2.0 Consensus size: 119
53232 CAAAAAAGAT
53242 GCTTAAGACTTTAGTACTATCATAACTAAATCCTTAAAATGAAACATAACACAACTATATTAATC
1 GCTTAAGACTTTAGTACTATCATAACTAAATCCTTAAAATGAAACATAACACAACTATATTAATC
53307 AGCAATATGCAGCTAGAAAATATCTCATAAGTGGCCCACTTTCCATAATCGCGG
66 AGCAATATGCAGCTAGAAAATATCTCATAAGTGGCCCACTTTCCATAATCGCGG
53361 GCTTAAGACTTTAGTACTATCATAACTAAATCCTTAAAAATGAAACATAACACAACTATATTAAT
1 GCTTAAGACTTTAGTACTATCATAACTAAATCCTT-AAAATGAAACATAACACAACTATATTAAT
53426 CAGCAATATGCAGCTAGAAAATATCTCATAAGTGGCCCACTTTCCATAATCGCG
65 CAGCAATATGCAGCTAGAAAATATCTCATAAGTGGCCCACTTTCCATAATCGCG
53480 AATCCTGATA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 35 0.30
120 83 0.70
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (119 bp):
GCTTAAGACTTTAGTACTATCATAACTAAATCCTTAAAATGAAACATAACACAACTATATTAATC
AGCAATATGCAGCTAGAAAATATCTCATAAGTGGCCCACTTTCCATAATCGCGG
Found at i:55978 original size:17 final size:17
Alignment explanation
Indices: 55953--55986 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55943 CTTTATCTCA
*
55953 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
55970 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
55987 TTATTTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:61882 original size:15 final size:16
Alignment explanation
Indices: 61854--61887 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
61844 GTATAAATCA
61854 CTACTAGAAAAAAACC
1 CTACTAGAAAAAAACC
*
61870 CTACTAGAAAAAACCC
1 CTACTAGAAAAAAACC
61886 CT
1 CT
61888 TTAATAACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.29, G:0.06, T:0.15
Consensus pattern (16 bp):
CTACTAGAAAAAAACC
Found at i:62012 original size:13 final size:13
Alignment explanation
Indices: 61994--62048 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
61984 TGTGTCATAA
*
61994 ATTTATGACGCGC
1 ATTTATGACGCAC
62007 ATTTATGACAG-AC
1 ATTTATGAC-GCAC
* *
62020 ATTTATGACACGC
1 ATTTATGACGCAC
62033 ATTTATGACGCAC
1 ATTTATGACGCAC
62046 ATT
1 ATT
62049 GCACGTCATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 34 0.97
14 1 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:65643 original size:21 final size:21
Alignment explanation
Indices: 65617--65661 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
65607 GATTTCTGGG
* *
65617 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
65638 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
65659 CAA
1 CAA
65662 ACGAACAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:67539 original size:23 final size:23
Alignment explanation
Indices: 67495--67539 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
67485 ATCATTATAT
*
67495 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
67518 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
67540 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:71966 original size:18 final size:18
Alignment explanation
Indices: 71943--71987 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
71933 AACATTCCTA
71943 GTAATCTTATTC-TAGCCG
1 GTAATCTTATTCAT-GCCG
* *
71961 GTAATCCTATTCATGTCG
1 GTAATCTTATTCATGCCG
71979 GTAATCTTA
1 GTAATCTTA
71988 CATTCCGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (18 bp):
GTAATCTTATTCATGCCG
Found at i:75056 original size:31 final size:31
Alignment explanation
Indices: 75021--75085 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
75011 AATACGAATG
75021 TTCATTTATAAAGTTAGAAATATTAATTTAA
1 TTCATTTATAAAGTTAGAAATATTAATTTAA
75052 TTCATTTATAAAGTTAGAAATATTAATTTAA
1 TTCATTTATAAAGTTAGAAATATTAATTTAA
75083 TTC
1 TTC
75086 TAGAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (31 bp):
TTCATTTATAAAGTTAGAAATATTAATTTAA
Found at i:77962 original size:32 final size:31
Alignment explanation
Indices: 77862--77982 Score: 170
Period size: 31 Copynumber: 3.9 Consensus size: 31
77852 GAAGGACCTA
* *
77862 TCCATATGTTCCAAAGAACATATGTAAACTG
1 TCCATATGTCCCAAAGAACATAGGTAAACTG
* *
77893 TTCATATGTCCCGAAGAACATAGGTAAACTG
1 TCCATATGTCCCAAAGAACATAGGTAAACTG
* *
77924 TCCATATGTCCCGAAGAACATAGGTAATCCTG
1 TCCATATGTCCCAAAGAACATAGGTAA-ACTG
*
77956 TCCATATGTCCCAAAGGACATAGGTAA
1 TCCATATGTCCCAAAGAACATAGGTAA
77983 CCCTCGACTC
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 53 0.65
32 28 0.35
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (31 bp):
TCCATATGTCCCAAAGAACATAGGTAAACTG
Found at i:77980 original size:63 final size:62
Alignment explanation
Indices: 77862--77982 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 62
77852 GAAGGACCTA
* * * *
77862 TCCATATGTTCCAAAGAACATATGTAAACTGTTCATATGTCCCGAAGAACATAGGTAAACTG
1 TCCATATGTCCCAAAGAACATAGGTAAACTGTCCATATGTCCCAAAGAACATAGGTAAACTG
* * *
77924 TCCATATGTCCCGAAGAACATAGGTAATCCTGTCCATATGTCCCAAAGGACATAGGTAA
1 TCCATATGTCCCAAAGAACATAGGTAA-ACTGTCCATATGTCCCAAAGAACATAGGTAA
77983 CCCTCGACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
62 24 0.47
63 27 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (62 bp):
TCCATATGTCCCAAAGAACATAGGTAAACTGTCCATATGTCCCAAAGAACATAGGTAAACTG
Done.