Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010406.1 Corchorus olitorius cultivar O-4 contig10438, 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: 2234
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.35


Found at i:340 original size:15 final size:16

Alignment explanation


    Indices: 317--350  Score: 52
    Period size: 15  Copynumber: 2.2  Consensus size: 16

        307 TCAACTATAA

                *           
        317 ATCCTCATATC-ATAT
          1 ATCCACATATCGATAT

                            
        332 ATCCACATATCGATAT
          1 ATCCACATATCGATAT

               
        348 ATC
          1 ATC

        351 TTTACTTGTA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  15   10  0.59
  16    7  0.41

ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35


Consensus pattern (16 bp):   
ATCCACATATCGATAT

Found at i:1286 original size:2 final size:2

Alignment explanation


    Indices: 1279--1307  Score: 58
    Period size: 2  Copynumber: 14.5  Consensus size: 2

       1269 TTGTGATCAT

                                                       
       1279 TA TA 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 TA TA T

       1308 GTGTGTGTTT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.