Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01000386.1 Corchorus olitorius cultivar O-4 contig00386, 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, 917
Length: 1529
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.35
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:799 original size:58 final size:58
Alignment explanation
Indices: 736--853 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
726 ATTAAACTCG
736 GTAATATTATACCTTCTCATCCTTTGTTTTTCTTTTACTTGAACTTATTTTTCATGCT
1 GTAATATTATACCTTCTCATCCTTTGTTTTTCTTTTACTTGAACTTATTTTTCATGCT
794 GTAATATTATACCTTCTCATCCTTTGTTTTTCTTTTACTTGAACTTATTTTTCATGCT
1 GTAATATTATACCTTCTCATCCTTTGTTTTTCTTTTACTTGAACTTATTTTTCATGCT
852 GT
1 GT
854 CTTTTAACTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.19, C:0.19, G:0.08, T:0.55
Consensus pattern (58 bp):
GTAATATTATACCTTCTCATCCTTTGTTTTTCTTTTACTTGAACTTATTTTTCATGCT
Found at i:1255 original size:68 final size:68
Alignment explanation
Indices: 1183--1319 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
1173 ACGAACATGT
* *
1183 CCTTTTCTTTCTTTTTTTTTTGGTACATAGGGAATATCACTCTACAATTAAAGGGGAGGAAGGGA
1 CCTTTTCTTTCTTTTTTTTTTGGTACATAGGGAACATCACTCTACAACTAAAGGGGAGGAAGGGA
1248 GGG
66 GGG
*
1251 CCTTTTCTTTCTTTTTTTTTTGGTACATTGGGAACATCACTCTACAACTAAAGGGGAGGAAGGGA
1 CCTTTTCTTTCTTTTTTTTTTGGTACATAGGGAACATCACTCTACAACTAAAGGGGAGGAAGGGA
1316 GGG
66 GGG
1319 C
1 C
1320 AAGGATTCGA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (68 bp):
CCTTTTCTTTCTTTTTTTTTTGGTACATAGGGAACATCACTCTACAACTAAAGGGGAGGAAGGGA
GGG
Done.