Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014401.1 Corchorus capsularis cultivar CVL-1 contig14422, 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: 20365
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:1233 original size:152 final size:152

Alignment explanation


    Indices: 957--1261  Score: 547
    Period size: 152  Copynumber: 2.0  Consensus size: 152

        947 GTCTACAACA

                                                        *                    
        957 TTTATTTCTGTAACTTCTGCCATTTGGATGTATAACTTAATTTCTCTCTATTTACCATTTGTTCT
          1 TTTATTTCTGTAACTTCTGCCATTTGGATGTATAACTTAATTTCACTCTATTTACCATTTGTTCT

                                        * *                                  
       1022 TGTGGTTCTCATTTCTATGTATTACTTTGTGAAATCTGGCATTAATTAACTTGGGACTTTGGAGT
         66 TGTGGTTCTCATTTCTATGTATTACTTTCTAAAATCTGGCATTAATTAACTTGGGACTTTGGAGT

                *          *      
       1087 CAAAGTGTTGCTCCATAACGCC
        131 CAAAATGTTGCTCCACAACGCC

                              *                                              
       1109 TTTATTTCTGTAACTTCTTCCATTTGGATGTATAACTTAATTTCACTCTATTTACCATTTGTTCT
          1 TTTATTTCTGTAACTTCTGCCATTTGGATGTATAACTTAATTTCACTCTATTTACCATTTGTTCT

                                                       *                     
       1174 TGTGGTTCTCATTTCTATGTATTACTTTCTAAAATCTGGCATTTATTAACTTGGGACTTTGGAGT
         66 TGTGGTTCTCATTTCTATGTATTACTTTCTAAAATCTGGCATTAATTAACTTGGGACTTTGGAGT

                                  
       1239 CAAAATGTTGCTCCACAACGCC
        131 CAAAATGTTGCTCCACAACGCC

             
       1261 T
          1 T

       1262 ACTCTGGACC


Statistics
Matches: 146,  Mismatches: 7, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
 152  146  1.00

ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45


Consensus pattern (152 bp):   
TTTATTTCTGTAACTTCTGCCATTTGGATGTATAACTTAATTTCACTCTATTTACCATTTGTTCT
TGTGGTTCTCATTTCTATGTATTACTTTCTAAAATCTGGCATTAATTAACTTGGGACTTTGGAGT
CAAAATGTTGCTCCACAACGCC

Found at i:18983 original size:19 final size:21

Alignment explanation


    Indices: 18939--18981  Score: 61
    Period size: 20  Copynumber: 2.1  Consensus size: 21

      18929 AAATATTATA

                     *   *       
      18939 TTTATCTTATAATTGGTAGTT
          1 TTTATCTTAAAATGGGTAGTT

                                 
      18960 TTTATC-TAAAATGGGTAGTT
          1 TTTATCTTAAAATGGGTAGTT

              
      18980 TT
          1 TT

      18982 ATTTTATTTT


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  20   14  0.70
  21    6  0.30

ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53


Consensus pattern (21 bp):   
TTTATCTTAAAATGGGTAGTT
Done.