Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01005662.1 Corchorus olitorius cultivar O-4 contig05686, 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, 672
Length: 1120
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Found at i:840 original size:22 final size:21
Alignment explanation
Indices: 798--902 Score: 192
Period size: 22 Copynumber: 4.9 Consensus size: 21
788 GCTATAAGTC
798 AACTCTTGTCTATCTTTTTCT
1 AACTCTTGTCTATCTTTTTCT
819 AACTCTTGTCTATCTTTTTTCT
1 AACTCTTGTCTATC-TTTTTCT
841 AACTCTTGTCTATCTTTTTCT
1 AACTCTTGTCTATCTTTTTCT
862 AACTCTTGTTCTATCTTTTTCT
1 AACTCTTG-TCTATCTTTTTCT
884 AACTCTTGTCTATCTTTTT
1 AACTCTTGTCTATCTTTTT
903 GTAGGAAGTA
Statistics
Matches: 82, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
21 40 0.49
22 42 0.51
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (21 bp):
AACTCTTGTCTATCTTTTTCT
Found at i:859 original size:43 final size:43
Alignment explanation
Indices: 798--902 Score: 194
Period size: 43 Copynumber: 2.4 Consensus size: 43
788 GCTATAAGTC
798 AACTCTTGTCTATCTTTTTCTAACTCTTG-TCTATCTTTTTTCT
1 AACTCTTGTCTATCTTTTTCTAACTCTTGTTCTATC-TTTTTCT
841 AACTCTTGTCTATCTTTTTCTAACTCTTGTTCTATCTTTTTCT
1 AACTCTTGTCTATCTTTTTCTAACTCTTGTTCTATCTTTTTCT
884 AACTCTTGTCTATCTTTTT
1 AACTCTTGTCTATCTTTTT
903 GTAGGAAGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 55 0.90
44 6 0.10
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (43 bp):
AACTCTTGTCTATCTTTTTCTAACTCTTGTTCTATCTTTTTCT
Done.