Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01004818.1 Corchorus olitorius cultivar O-4 contig04835, 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, 736

Length: 1228
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31


Found at i:203 original size:22 final size:22

Alignment explanation


    Indices: 176--219  Score: 88
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        166 CCTAAACCAA

                                  
        176 CAAATAATCTATAGCGCCCTTC
          1 CAAATAATCTATAGCGCCCTTC

                                  
        198 CAAATAATCTATAGCGCCCTTC
          1 CAAATAATCTATAGCGCCCTTC

        220 GGCTCACCTT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.32, C:0.32, G:0.09, T:0.27


Consensus pattern (22 bp):   
CAAATAATCTATAGCGCCCTTC

Found at i:271 original size:30 final size:30

Alignment explanation


    Indices: 212--276  Score: 94
    Period size: 30  Copynumber: 2.2  Consensus size: 30

        202 TAATCTATAG

                *                  **     
        212 CGCCCTTCGGCTCACCTTCTTTGCCCCCTT
          1 CGCCTTTCGGCTCACCTTCTTTGAACCCTT

                                  *       
        242 CGCCTTTCGGCTCACCTTCTTTTAACCCTT
          1 CGCCTTTCGGCTCACCTTCTTTGAACCCTT

                 
        272 CGCCT
          1 CGCCT

        277 AAGGATAGAG


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  30   31  1.00

ACGTcount: A:0.06, C:0.46, G:0.12, T:0.35


Consensus pattern (30 bp):   
CGCCTTTCGGCTCACCTTCTTTGAACCCTT
Done.