Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007404.1 Corchorus olitorius cultivar O-4 contig07429, 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, 928

Length: 1548
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35


Found at i:128 original size:58 final size:58

Alignment explanation


    Indices: 1--225  Score: 396
    Period size: 58  Copynumber: 3.9  Consensus size: 58

                *                                       *     *        
          1 GAATCGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTTAAATCAAGAAGATATTTT
          1 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGA-TTTTAAAACAAGATGATATTTT

                             *                                        
         60 GAATTGAAAACTCTCTAGCAGAGACCTCGAACAGGATTTTAAAACAAGATGATATTTT
          1 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAACAAGATGATATTTT

                                            *                         
        118 GAATTGAAAACTCTCTAACAGAGACCTCGAACCGGATTTTAAAACAAGATGATATTTT
          1 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAACAAGATGATATTTT

                                                              
        176 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAACAAGAT
          1 GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAACAAGAT

        226 AATGCAATCT


Statistics
Matches: 159,  Mismatches: 7, Indels: 1
        0.95            0.04        0.01

Matches are distributed among these distances:
  58  125  0.79
  59   34  0.21

ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26


Consensus pattern (58 bp):   
GAATTGAAAACTCTCTAACAGAGACCTCGAACAGGATTTTAAAACAAGATGATATTTT

Found at i:1129 original size:36 final size:36

Alignment explanation


    Indices: 1024--1129  Score: 131
    Period size: 36  Copynumber: 2.9  Consensus size: 36

       1014 ATCTTTTATG

                  *   *             *        * *
       1024 ACCTCTCTCTGTTTTAGGTCCAGTCTTTCTTTTCCG
          1 ACCTCTTTCTATTTTAGGTCCAGTTTTTCTTTTTCA

                                 *      *       
       1060 ACCTCTTTCTATTTTAGGTCCTGTTTTTGTTTTTCA
          1 ACCTCTTTCTATTTTAGGTCCAGTTTTTCTTTTTCA

                              *         *     
       1096 ACCTCTTTCTATTTTAGGCCCAGTTTTTTTTTTT
          1 ACCTCTTTCTATTTTAGGTCCAGTTTTTCTTTTT

       1130 TTTTTCAAAA


Statistics
Matches: 60,  Mismatches: 10, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  36   60  1.00

ACGTcount: A:0.10, C:0.24, G:0.11, T:0.55


Consensus pattern (36 bp):   
ACCTCTTTCTATTTTAGGTCCAGTTTTTCTTTTTCA
Done.