Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007835.1 Hibiscus syriacus cultivar Beakdansim tig00110184_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: 115627
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Found at i:6655 original size:25 final size:25
Alignment explanation
Indices: 6598--6663 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
6588 CACTCAAAAG
*
6598 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
6623 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
6648 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
6664 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:8589 original size:183 final size:183
Alignment explanation
Indices: 8281--9348 Score: 1897
Period size: 183 Copynumber: 5.8 Consensus size: 183
8271 AATTACCGAC
*
8281 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
* *
8346 AAAAGTGTCGATATAGGCTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
8411 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
8464 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
* * * *
8529 TAAAGTGTTGAGATAGGTTGTAGACCTATTCGCGCATAAAACCGGTTTATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
*
8594 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCAAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
8647 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
*
8712 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCACATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
* * * *
8777 TATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
8830 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
8895 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
8960 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
9013 ACTTTTTTAAATCGTATCG--ACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
* * * * *
9076 TAAAGTGTTGAGATAGGTTGTAGACCTATTCGCGCATAAAACCGATATATTTATACCAGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
*
9141 TACAAAATTATCTATTACATTATAAATCTGTGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
9194 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
*
9259 AAAAGTGTCGATATAGGTTGTAGACCTATTCACGCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
* * * **
9324 TGCAAATTTACCTATTTTATTATAA
131 TACAAAATTATCTATTACATTATAA
9349 TATGTTGAAA
Statistics
Matches: 843, Mismatches: 40, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
181 175 0.21
183 668 0.79
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
Found at i:10775 original size:3 final size:3
Alignment explanation
Indices: 10767--10820 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
10757 ACTTGTTTGG
* * *
10767 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
10815 TTC ATC
1 ATC ATC
10821 GTCAGCTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:10784 original size:12 final size:12
Alignment explanation
Indices: 10767--10824 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
10757 ACTTGTTTGG
* *
10767 ATCATCATCTTC
1 ATCATCGTCATC
*
10779 ATCATCATCATC
1 ATCATCGTCATC
10791 ATCATCGTCATC
1 ATCATCGTCATC
10803 ATCATCGTCATC
1 ATCATCGTCATC
*
10815 TTCATCGTCA
1 ATCATCGTCA
10825 GCTTCATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (12 bp):
ATCATCGTCATC
Found at i:10790 original size:18 final size:18
Alignment explanation
Indices: 10767--10835 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
10757 ACTTGTTTGG
* *
10767 ATCATCATCTTCATCATC
1 ATCATCATCATCTTCATC
*
10785 ATCATCATCATCGTCATC
1 ATCATCATCATCTTCATC
*
10803 ATCATCGTCATCTTCATC
1 ATCATCATCATCTTCATC
* * *
10821 GTCAGCTTCATCTTC
1 ATCATCATCATCTTC
10836 TGCGACCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (18 bp):
ATCATCATCATCTTCATC
Found at i:10829 original size:12 final size:12
Alignment explanation
Indices: 10780--10832 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
10770 ATCATCTTCA
* *
10780 TCATCATCATCA
1 TCATCGTCATCT
*
10792 TCATCGTCATCA
1 TCATCGTCATCT
10804 TCATCGTCATCT
1 TCATCGTCATCT
*
10816 TCATCGTCAGCT
1 TCATCGTCATCT
10828 TCATC
1 TCATC
10833 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.23, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:12631 original size:199 final size:199
Alignment explanation
Indices: 12291--13662 Score: 2645
Period size: 199 Copynumber: 6.9 Consensus size: 199
12281 TTTAAATTAG
* *
12291 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12356 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
12421 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
12486 CAAA
196 CAAA
12490 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12555 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
12620 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
12685 CAAA
196 CAAA
***
12689 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12754 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
12819 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
12884 CAAA
196 CAAA
12888 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
12953 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13018 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13083 CAAA
196 CAAA
*
13087 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13152 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13217 CGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
131 CGACACTTT-TTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
13282 ACAAA
195 ACAAA
***
13287 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13352 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13417 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
13482 CAAA
196 CAAA
13486 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
13551 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
13616 CGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 CGACACTTT-TTATATATGGATCGACACTTTATGGGTGCACCCTGTT
13663 GGCCATATTG
Statistics
Matches: 1157, Mismatches: 14, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
199 923 0.80
200 234 0.20
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
CAAA
Found at i:13827 original size:19 final size:19
Alignment explanation
Indices: 13781--13829 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
13771 TTATATTCAC
*
13781 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
13800 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
13819 ATACAAAATTA
1 ATACAAAATTA
13830 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:15659 original size:33 final size:33
Alignment explanation
Indices: 15622--15685 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
15612 TCTTAATATC
* *
15622 ACCCCTTAACACCCCAACTTCTTTCACCACTTT
1 ACCCCTCAACACCCCAACTTCATTCACCACTTT
* *
15655 ACCCCTCAACACCTCTACTTCATTCACCACT
1 ACCCCTCAACACCCCAACTTCATTCACCACT
15686 CCATCTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.47, G:0.00, T:0.28
Consensus pattern (33 bp):
ACCCCTCAACACCCCAACTTCATTCACCACTTT
Found at i:15758 original size:21 final size:21
Alignment explanation
Indices: 15718--15782 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
15708 CCCCTTATGC
* *
15718 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
15739 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
15760 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
15781 CT
1 CT
15783 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:18013 original size:17 final size:18
Alignment explanation
Indices: 17991--18033 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
17981 ATATATCCGG
17991 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
18008 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
18028 TATCAT
1 TATCAT
18034 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:18051 original size:20 final size:19
Alignment explanation
Indices: 17996--18042 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
17986 TCCGGTATCA
17996 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
18015 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
18036 TTTTACC
1 TTTTACC
18043 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:18189 original size:20 final size:20
Alignment explanation
Indices: 18163--18208 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
18153 CACTTTTAAA
18163 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
18182 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
18203 TTTACC
1 TTTACC
18209 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:19789 original size:24 final size:24
Alignment explanation
Indices: 19762--19813 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
19752 ACCTCACTCT
19762 TAATTA-GTATTAAAAATTATAATA
1 TAATTATGTATTAAAAA-TATAATA
*
19786 TAATTATTTATTAAAAATATAATA
1 TAATTATGTATTAAAAATATAATA
19810 -AATT
1 TAATT
19814 TAATAACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 4 0.15
24 13 0.50
25 9 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATTATGTATTAAAAATATAATA
Found at i:23240 original size:6 final size:6
Alignment explanation
Indices: 23229--24100 Score: 1744
Period size: 6 Copynumber: 145.3 Consensus size: 6
23219 ATATTATTAC
23229 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23277 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23325 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23373 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23421 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23469 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23517 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23565 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23613 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23661 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23709 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23757 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23805 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23853 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23901 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23949 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
23997 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
24045 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
24093 TTGTAA TT
1 TTGTAA TT
24101 ATAAAGATGT
Statistics
Matches: 866, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 866 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
TTGTAA
Found at i:28577 original size:46 final size:46
Alignment explanation
Indices: 28506--28597 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
28496 GATTTAGAAG
* *
28506 TTAGTTTAGATTTAAACTTGTTTCCATTGTTGTCGTTTCTGCTGGT
1 TTAGTTTAGATTTAAACTTGCTTCCATTGCTGTCGTTTCTGCTGGT
28552 TTAGTTTAGATTTAAACTTGCTTCCATTGCTGTCGTTTCTGCTGGT
1 TTAGTTTAGATTTAAACTTGCTTCCATTGCTGTCGTTTCTGCTGGT
28598 GTTTTTAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.15, C:0.15, G:0.20, T:0.50
Consensus pattern (46 bp):
TTAGTTTAGATTTAAACTTGCTTCCATTGCTGTCGTTTCTGCTGGT
Found at i:29700 original size:14 final size:14
Alignment explanation
Indices: 29681--29711 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
29671 CATACATTTT
*
29681 AAAAATTATAAACG
1 AAAAATTACAAACG
29695 AAAAATTACAAACG
1 AAAAATTACAAACG
29709 AAA
1 AAA
29712 GAAGAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (14 bp):
AAAAATTACAAACG
Found at i:38924 original size:55 final size:55
Alignment explanation
Indices: 38865--39318 Score: 239
Period size: 51 Copynumber: 8.6 Consensus size: 55
38855 AATGACGAGC
38865 CTGCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATAAAAC-GTGT
1 CTGCTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAACAG-GT
* * * * *
38920 CTGCTCTCTATTCATTCAGAGAGTATAAGATTTGAACAATCTTTAATAAAACAGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATC-TTCATAAAACAGGT
* * * *
38976 CCGCTCTCTCTTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCA-ATAAACAGGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTCATA-AAACAGGT
* * * *
39031 CTGCTCCCTATTCTTTCAGGGAGTATAGGACT----CAATCTTCA-ACGAACTA-GT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAAC-AGGT
* * * * **
39082 CCGCTCCCTATTCTTTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACAGGT
* * * * **
39133 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACAGGT
* * * * **
39184 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACAGGT
* * * * **
39235 CCGCTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCA-ACGAACTTGT
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACAGGT
* * *
39286 CCGCTCCCTATTCATTCAGAGAGTATAGGACTC
1 CTGCTCCCTATTCCTTCAGAGAGTATAAGACTC
39319 AATCTTCAAC
Statistics
Matches: 365, Mismatches: 25, Indels: 21
0.89 0.06 0.05
Matches are distributed among these distances:
51 245 0.67
52 1 0.00
54 1 0.00
55 72 0.20
56 45 0.12
57 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (55 bp):
CTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACAGGT
Found at i:38994 original size:56 final size:56
Alignment explanation
Indices: 38865--39063 Score: 219
Period size: 55 Copynumber: 3.6 Consensus size: 56
38855 AATGACGAGC
* *
38865 CTGCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATC-TTCATAAAAC-GTGT
1 CTGCTCTCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTTAATAAAACAG-GT
* * *
38920 CTGCTCTCTATTCATTCAGAGAGTATAAGATTTGAACAATCTTTAATAAAACAGGT
1 CTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACAGGT
* * * *
38976 CCGCTCTCTCTTCCTTCAGAGAGTAT-AGAACTCGAAAAATCTTCAAT-AAACAGGT
1 CTGCTCTCTATTCCTTCAGAGAGTATAAG-ACTCGAACAATCTTTAATAAAACAGGT
* * * *
39031 CTGCTCCCTATTCTTTCAGGGAGTATAGGACTC
1 CTGCTCTCTATTCCTTCAGAGAGTATAAGACTC
39064 AATCTTCAAC
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
55 70 0.58
56 50 0.41
57 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (56 bp):
CTGCTCTCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTTAATAAAACAGGT
Found at i:39088 original size:51 final size:51
Alignment explanation
Indices: 38974--39332 Score: 565
Period size: 51 Copynumber: 7.0 Consensus size: 51
38964 AATAAAACAG
* * * * ** **
38974 GTCCGCTCTCTCTTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAG
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC----AATCTTCAACGAACTT
* * * *
39029 GTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCAATCTTCAACGAACTA
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
*
39080 GTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
39131 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
39182 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
39233 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
39284 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
39333 GAATTTGCTT
Statistics
Matches: 290, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
51 261 0.90
55 29 0.10
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (51 bp):
GTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
Found at i:40673 original size:27 final size:26
Alignment explanation
Indices: 40643--40764 Score: 101
Period size: 26 Copynumber: 4.6 Consensus size: 26
40633 TTGAACCCTC
40643 CTTTTATTTCTCTTTTTTCATTTTTCT
1 CTTTT-TTTCTCTTTTTTCATTTTTCT
*
40670 CTTTTTATTC-CTTTTTCCATTTTTTCT
1 CTTTTT-TTCTCTTTTTTCA-TTTTTCT
*
40697 CTTTTTTT-T-TTCTTTTCGTTTTTTCCAT
1 CTTTTTTTCTCTT-TTTTC-ATTTTT-C-T
*
40725 CATTTTTTCT-TTTTTCTCATTTTT-T
1 CTTTTTTTCTCTTTTT-TCATTTTTCT
*
40750 CTTCTTTTCTCTTTT
1 CTTTTTTTCTCTTTT
40765 ATTTCTTCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
25 11 0.14
26 24 0.31
27 22 0.28
28 16 0.21
29 5 0.06
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.74
Consensus pattern (26 bp):
CTTTTTTTCTCTTTTTTCATTTTTCT
Found at i:40686 original size:18 final size:16
Alignment explanation
Indices: 40649--40764 Score: 63
Period size: 17 Copynumber: 6.6 Consensus size: 16
40639 CCTCCTTTTA
40649 TTTCTCTTTTTTCATT
1 TTTCTCTTTTTTCATT
*
40665 TTTCTCTTTTTATTCCTT
1 TTTCTC-TTTT-TTCATT
*
40683 TTTC-CATTTTTTCTCTT
1 TTTCTC-TTTTTTC-ATT
* * *
40700 TTTTTTTTCTTTTCGTTT
1 TTTCTCTT-TTTTC-ATT
*
40718 TTTCCATCATTTTTTCTTT
1 TTT-C-TC-TTTTTTCATT
*
40737 TTTCTCATTTTTTCTTCT
1 TTTCTC-TTTTTTCAT-T
40755 TTTCTCTTTT
1 TTTCTCTTTT
40765 ATTTCTTCTT
Statistics
Matches: 83, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
16 9 0.11
17 33 0.40
18 27 0.33
19 6 0.07
20 6 0.07
21 2 0.02
ACGTcount: A:0.05, C:0.20, G:0.01, T:0.74
Consensus pattern (16 bp):
TTTCTCTTTTTTCATT
Found at i:40720 original size:45 final size:43
Alignment explanation
Indices: 40649--40767 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 43
40639 CCTCCTTTTA
* *
40649 TTTCTC-TTTTTTCAT-TTTTCTCTTTTTATTCCTTTTTCCATTT
1 TTTCTCATTTTTTCTTCTTTTCT-TTTTTATTCATTTTTCC-TTT
* * *
40692 TTTCTCTTTTTTTTTTCTTTTCGTTTTTTCCA-TCATTTTTTCTTT
1 TTTCTCATTTTTTCTTCTTTTC-TTTTTT--ATTCATTTTTCCTTT
*
40737 TTTCTCATTTTTTCTTCTTTTCTCTTTTATT
1 TTTCTCATTTTTTCTTCTTTTCTTTTTTATT
40768 TCTTCTTCAA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
42 1 0.02
43 7 0.11
44 12 0.19
45 33 0.52
46 9 0.14
47 1 0.02
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (43 bp):
TTTCTCATTTTTTCTTCTTTTCTTTTTTATTCATTTTTCCTTT
Found at i:40769 original size:19 final size:18
Alignment explanation
Indices: 40649--40774 Score: 86
Period size: 18 Copynumber: 7.1 Consensus size: 18
40639 CCTCCTTTTA
*
40649 TTTCTC-TTTTTTCAT-T
1 TTTCTCATTTTTTCTTCT
* *
40665 TTTCTCTTTTTATTCCT-T
1 TTTCTCATTTT-TTCTTCT
40683 TTTC-CATTTTTTC-TCT
1 TTTCTCATTTTTTCTTCT
* **
40699 TTTTTTTTTCTTTTCGTT-T
1 TTTCTCATT-TTTTC-TTCT
40718 TTTCCATCATTTTTTCTT-T
1 TTT-C-TCATTTTTTCTTCT
40737 TTTCTCATTTTTTCTTCT
1 TTTCTCATTTTTTCTTCT
*
40755 TTTCTCTTTTATTTCTTCT
1 TTTCTCATTT-TTTCTTCT
40774 T
1 T
40775 CAAGCAAAAT
Statistics
Matches: 90, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
15 1 0.01
16 13 0.14
17 23 0.26
18 25 0.28
19 19 0.21
20 6 0.07
21 3 0.03
ACGTcount: A:0.06, C:0.20, G:0.01, T:0.74
Consensus pattern (18 bp):
TTTCTCATTTTTTCTTCT
Found at i:48502 original size:20 final size:20
Alignment explanation
Indices: 48477--48514 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
48467 GACTGCCAAT
*
48477 GAACCGGCTGAAAACCGGTA
1 GAACCGACTGAAAACCGGTA
48497 GAACCGACTGAAAACCGG
1 GAACCGACTGAAAACCGG
48515 CAAAACCGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.29, T:0.08
Consensus pattern (20 bp):
GAACCGACTGAAAACCGGTA
Found at i:48521 original size:20 final size:20
Alignment explanation
Indices: 48478--48522 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
48468 ACTGCCAATG
* * *
48478 AACCGGCTGAAAACCGGTAG
1 AACCGACTGAAAACCGGCAA
48498 AACCGACTGAAAACCGGCAA
1 AACCGACTGAAAACCGGCAA
48518 AACCG
1 AACCG
48523 GTTTGAACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.29, G:0.24, T:0.07
Consensus pattern (20 bp):
AACCGACTGAAAACCGGCAA
Found at i:55628 original size:72 final size:72
Alignment explanation
Indices: 55511--55661 Score: 284
Period size: 72 Copynumber: 2.1 Consensus size: 72
55501 GATATTAACC
55511 CTTGGGAAATCTTAGAGAGATTCTTGATTATTCATGACATTGGAGTCACATCCCCACCCTAACAC
1 CTTGGGAAATCTTAGAGAGATTCTTGATTATTCATGACATTGGAGTCACATCCCCACCCTAACAC
*
55576 ATCAACT
66 ACCAACT
*
55583 CTTGGGAAATCTTAGAGAGATTCTTGATTATTCATGACATTGGAGTCGCATCCCCACCCTAACAC
1 CTTGGGAAATCTTAGAGAGATTCTTGATTATTCATGACATTGGAGTCACATCCCCACCCTAACAC
55648 ACCAACT
66 ACCAACT
55655 CTTGGGA
1 CTTGGGA
55662 TAATTCATGT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (72 bp):
CTTGGGAAATCTTAGAGAGATTCTTGATTATTCATGACATTGGAGTCACATCCCCACCCTAACAC
ACCAACT
Found at i:75309 original size:21 final size:22
Alignment explanation
Indices: 75271--75325 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
75261 GTTTCATCTT
75271 TAGAGTAGAGATAAAGATGTTG
1 TAGAGTAGAGATAAAGATGTTG
*
75293 TAGAGTA-AGATAGAGATGTTG
1 TAGAGTAGAGATAAAGATGTTG
75314 TAGAGTAGAGAT
1 TAGAGTAGAGAT
75326 GGGAGTTGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TAGAGTAGAGATAAAGATGTTG
Found at i:76062 original size:10 final size:10
Alignment explanation
Indices: 76047--76089 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 10
76037 GAATAGATGT
76047 AAACGAACAC
1 AAACGAACAC
76057 AAACGAACAAAC
1 AAACGAAC--AC
76069 TTAAACGAACAC
1 --AAACGAACAC
76081 AAACGAACA
1 AAACGAACA
76090 AACTTAAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 17 0.59
12 4 0.14
14 8 0.28
ACGTcount: A:0.60, C:0.26, G:0.09, T:0.05
Consensus pattern (10 bp):
AAACGAACAC
Found at i:76073 original size:24 final size:24
Alignment explanation
Indices: 76046--76106 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
76036 CGAATAGATG
76046 TAAACGAACACAAACGAACAAACT
1 TAAACGAACACAAACGAACAAACT
76070 TAAACGAACACAAACGAACAAACT
1 TAAACGAACACAAACGAACAAACT
76094 TAAACGAACACAA
1 TAAACGAACACAA
76107 TAAACGAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.59, C:0.25, G:0.08, T:0.08
Consensus pattern (24 bp):
TAAACGAACACAAACGAACAAACT
Found at i:76076 original size:14 final size:13
Alignment explanation
Indices: 76046--76116 Score: 66
Period size: 14 Copynumber: 5.8 Consensus size: 13
76036 CGAATAGATG
76046 TAAACGAAC--AC
1 TAAACGAACAAAC
76057 -AAACGAACAAAC
1 TAAACGAACAAAC
76069 TTAAACGAAC--AC
1 -TAAACGAACAAAC
76081 -AAACGAACAAAC
1 TAAACGAACAAAC
76093 TTAAACGAACACAA-
1 -TAAACGAACA-AAC
76107 TAAACGAACA
1 TAAACGAACA
76117 TAAATGAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
10 16 0.31
12 6 0.12
13 10 0.20
14 17 0.33
15 2 0.04
ACGTcount: A:0.59, C:0.24, G:0.08, T:0.08
Consensus pattern (13 bp):
TAAACGAACAAAC
Found at i:78219 original size:2 final size:2
Alignment explanation
Indices: 78212--78236 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
78202 TTTAAGACCC
78212 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 T
78237 GCGTTACTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:82760 original size:24 final size:26
Alignment explanation
Indices: 82733--82789 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
82723 ATATATATAT
*
82733 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
82757 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
82781 ATATATATA
1 ATA-ATATA
82790 CCCGGCCCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 18 0.67
25 1 0.04
26 1 0.04
27 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:82775 original size:19 final size:19
Alignment explanation
Indices: 82751--82789 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
82741 AATAAATTTA
82751 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
82770 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
82789 A
1 A
82790 CCCGGCCCGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:82835 original size:12 final size:12
Alignment explanation
Indices: 82787--82840 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
82777 TTAAATATAT
*
82787 ATACCCGGCCCG
1 ATACCCGGCCCA
*
82799 ATTCCCGGCCCA
1 ATACCCGGCCCA
**
82811 ATA-CCAACCCA
1 ATACCCGGCCCA
82822 ATACCCGGCCCA
1 ATACCCGGCCCA
82834 ATACCCG
1 ATACCCG
82841 TTTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.26, C:0.48, G:0.15, T:0.11
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:83541 original size:76 final size:76
Alignment explanation
Indices: 83408--83554 Score: 210
Period size: 76 Copynumber: 1.9 Consensus size: 76
83398 GGGTAGTATG
* * *
83408 CCTGAAATCTAATTTTTTTTATGTTAGTTGTTTATTTTATTAAATGTGTCTATCCTAAAATTTTA
1 CCTGAAATCTAATTTTTTTTATGTTAGTCGTTTATTTTACTAAATGTGTCTACCCTAAAATTTTA
83473 TTTGTGTTCAT
66 TTTGTGTTCAT
*
83484 CCTGAAATCT-ATATTTTTTTATGTTAGTCGTTTATTTTACTGAA-GATG-CATACCCTAAAATT
1 CCTGAAATCTAAT-TTTTTTTATGTTAGTCGTTTATTTTACTAAATG-TGTC-TACCCTAAAATT
83546 TTATTTGTG
63 TTATTTGTG
83555 CCCACCTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
75 4 0.06
76 60 0.94
ACGTcount: A:0.26, C:0.11, G:0.12, T:0.52
Consensus pattern (76 bp):
CCTGAAATCTAATTTTTTTTATGTTAGTCGTTTATTTTACTAAATGTGTCTACCCTAAAATTTTA
TTTGTGTTCAT
Found at i:111083 original size:16 final size:16
Alignment explanation
Indices: 111053--111083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111043 TAATATTGAA
*
111053 ACTTGAACTCGAAAAG
1 ACTTGAACTCAAAAAG
111069 ACTTGAACTCAAAAA
1 ACTTGAACTCAAAAA
111084 AAATTTAGAA
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:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Done.