Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014508.1 Corchorus olitorius cultivar O-4 contig14541, 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: 12832
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34


Found at i:10454 original size:33 final size:33

Alignment explanation


    Indices: 10417--10506  Score: 117
    Period size: 33  Copynumber: 2.7  Consensus size: 33

      10407 CATCTAATGT

                                    *        
      10417 TAATGTTAACATTTACAGAAATCTTCCATCACC
          1 TAATGTTAACATTTACAGAAATCTACCATCACC

                          *           *      
      10450 TAATGTTAACATTTCCAGAAATCTACTATCACC
          1 TAATGTTAACATTTACAGAAATCTACCATCACC

                *  *      **        
      10483 TAATTTTTACATTTGTAGAAATCT
          1 TAATGTTAACATTTACAGAAATCT

      10507 GCATTTCCAA


Statistics
Matches: 50,  Mismatches: 7, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   50  1.00

ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38


Consensus pattern (33 bp):   
TAATGTTAACATTTACAGAAATCTACCATCACC

Found at i:10992 original size:30 final size:30

Alignment explanation


    Indices: 10958--11090  Score: 205
    Period size: 30  Copynumber: 4.4  Consensus size: 30

      10948 CCTCCTTGGT

                                          
      10958 GGACCTTTGGTTGGTGCAGTGGCTTGTGCA
          1 GGACCTTTGGTTGGTGCAGTGGCTTGTGCA

                                          
      10988 GGACCTTTGGTTGGTGCAGTGGCTTGTGCA
          1 GGACCTTTGGTTGGTGCAGTGGCTTGTGCA

                      *            *       
      11018 GGACCTTTGGCTGGTGCAGTGGAGTT-TGCA
          1 GGACCTTTGGTTGGTGCAGTGG-CTTGTGCA

                     *   *              * 
      11048 GGACCTTTGCTTGATGCAGTGGCTTGTGTA
          1 GGACCTTTGGTTGGTGCAGTGGCTTGTGCA

                         
      11078 GGACCTTTGGTTG
          1 GGACCTTTGGTTG

      11091 CTTGATTTTG


Statistics
Matches: 93,  Mismatches: 8, Indels: 4
        0.89            0.08        0.04

Matches are distributed among these distances:
  29    2  0.02
  30   89  0.96
  31    2  0.02

ACGTcount: A:0.11, C:0.17, G:0.38, T:0.34


Consensus pattern (30 bp):   
GGACCTTTGGTTGGTGCAGTGGCTTGTGCA

Done.