Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01018590.1 Corchorus olitorius cultivar O-4 contig18623, 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: 11721
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Found at i:6982 original size:21 final size:21
Alignment explanation
Indices: 6956--6997 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6946 AAAAATCAGA
6956 ACAACTCCTGCCCAGGACTTG
1 ACAACTCCTGCCCAGGACTTG
6977 ACAACTCCTGCCCAGGACTTG
1 ACAACTCCTGCCCAGGACTTG
6998 GTCTGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.38, G:0.19, T:0.19
Consensus pattern (21 bp):
ACAACTCCTGCCCAGGACTTG
Found at i:7026 original size:71 final size:72
Alignment explanation
Indices: 6905--7069 Score: 251
Period size: 71 Copynumber: 2.3 Consensus size: 72
6895 CTAAAAACAG
* * * *
6905 GACAAGTCCTGCCCAGGACCTGGTCTGTTGAAAGACGGAAGAAAAATCAGAACAACTCCTGCCCA
1 GACAACTCCTGCCCAGGACTTGGTCTGTTGAAAAACGGAAGAAAAATCAGAACAACTCCTGCCAA
6970 GGACTT-
66 GGACTTC
* * * *
6976 GACAACTCCTGCCCAGGACTTGGTCTGTTGAAAAACGGAAGAAAATTCAGAACAAGTCTTGTCAA
1 GACAACTCCTGCCCAGGACTTGGTCTGTTGAAAAACGGAAGAAAAATCAGAACAACTCCTGCCAA
7041 GGACTTC
66 GGACTTC
7048 GACAACTCCTGCCCAGGACTTG
1 GACAACTCCTGCCCAGGACTTG
7070 TTGCGGGAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
71 63 0.74
72 22 0.26
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (72 bp):
GACAACTCCTGCCCAGGACTTGGTCTGTTGAAAAACGGAAGAAAAATCAGAACAACTCCTGCCAA
GGACTTC
Done.