Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005286.1 Corchorus capsularis cultivar CVL-1 contig05304, 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: 2143
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33


Found at i:207 original size:27 final size:27

Alignment explanation


    Indices: 177--251  Score: 105
    Period size: 27  Copynumber: 2.8  Consensus size: 27

        167 AGTAGACTTA

                   * *      *          
        177 AAATGACTAGAATGCCGCTGAACATGC
          1 AAATGACCAAAATGCCCCTGAACATGC

                                   *   
        204 AAATGACCAAAATGCCCCTGAACTTGC
          1 AAATGACCAAAATGCCCCTGAACATGC

                          *      
        231 AAATGACCAAAATGTCCCTGA
          1 AAATGACCAAAATGCCCCTGA

        252 CACCGAACAT


Statistics
Matches: 43,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  27   43  1.00

ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19


Consensus pattern (27 bp):   
AAATGACCAAAATGCCCCTGAACATGC

Found at i:1448 original size:44 final size:45

Alignment explanation


    Indices: 1351--1450  Score: 139
    Period size: 44  Copynumber: 2.2  Consensus size: 45

       1341 CTAAACCCCT

                   *    *                                
       1351 CCTTTTTATTTATTTGTCTTTTTCCGACCTCTTTCTATTTTAGGC
          1 CCTTTTTTTTTACTTGTCTTTTTCCGACCTCTTTCTATTTTAGGC

             ***                    *                    
       1396 CAAGTTTTTTTACTT-TCTTTTTCTGACCTCTTTCTATTTTAGGC
          1 CCTTTTTTTTTACTTGTCTTTTTCCGACCTCTTTCTATTTTAGGC

                       
       1440 CCTTTTTTTTT
          1 CCTTTTTTTTT

       1451 TTTAGCTTCC


Statistics
Matches: 46,  Mismatches: 9, Indels: 1
        0.82            0.16        0.02

Matches are distributed among these distances:
  44   36  0.78
  45   10  0.22

ACGTcount: A:0.11, C:0.21, G:0.08, T:0.60


Consensus pattern (45 bp):   
CCTTTTTTTTTACTTGTCTTTTTCCGACCTCTTTCTATTTTAGGC
Done.