Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015049.1 Corchorus olitorius cultivar O-4 contig15082, 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: 2841
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30


Found at i:1273 original size:33 final size:33

Alignment explanation


    Indices: 1236--1298  Score: 83
    Period size: 33  Copynumber: 1.9  Consensus size: 33

       1226 ATGGATCGGC

                       *                      
       1236 CACCCGAGCCATCTGC-CTGGCCACCAGCGCTAT
          1 CACCCGAGCCACCTGCTC-GGCCACCAGCGCTAT

                  *                *      
       1269 CACCCGCGCCACCTGCTCGGCCATCAGCGC
          1 CACCCGAGCCACCTGCTCGGCCACCAGCGC

       1299 ACCACGCCCG


Statistics
Matches: 26,  Mismatches: 3, Indels: 2
        0.84            0.10        0.06

Matches are distributed among these distances:
  33   25  0.96
  34    1  0.04

ACGTcount: A:0.16, C:0.49, G:0.22, T:0.13


Consensus pattern (33 bp):   
CACCCGAGCCACCTGCTCGGCCACCAGCGCTAT

Found at i:1478 original size:21 final size:21

Alignment explanation


    Indices: 1414--1481  Score: 73
    Period size: 21  Copynumber: 3.2  Consensus size: 21

       1404 CCACTACCAA

                 *         *      
       1414 GCCACTACCGGCCATTCACCGT
          1 GCCACCACCGGCCATGC-CCGT

                       ** *  *   
       1436 GCCACCACCGGTTAAGCTCGT
          1 GCCACCACCGGCCATGCCCGT

                                 
       1457 GCCACCACCGGCCATGCCCGT
          1 GCCACCACCGGCCATGCCCGT

                
       1478 GCCA
          1 GCCA

       1482 TCGCCACACC


Statistics
Matches: 36,  Mismatches: 10, Indels: 1
        0.77            0.21        0.02

Matches are distributed among these distances:
  21   24  0.67
  22   12  0.33

ACGTcount: A:0.18, C:0.46, G:0.22, T:0.15


Consensus pattern (21 bp):   
GCCACCACCGGCCATGCCCGT
Done.