Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007763.1 Corchorus olitorius cultivar O-4 contig07789, 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, 604

Length: 1008
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41


Found at i:415 original size:1 final size:1

Alignment explanation


    Indices: 405--474  Score: 50
    Period size: 1  Copynumber: 70.0  Consensus size: 1

        395 CAGCTACCGG

                 *     *     *      *      *      *      *      * *    *     
        405 TTTTTGTTTTTATTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTGTTTTTTGTCTTTTATTTTT
          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT

                 
        470 TTTTT
          1 TTTTT

        475 ACGAAAGCTA


Statistics
Matches: 49,  Mismatches: 20, Indels: 0
        0.71            0.29        0.00

Matches are distributed among these distances:
   1   49  1.00

ACGTcount: A:0.03, C:0.01, G:0.10, T:0.86


Consensus pattern (1 bp):   
T

Found at i:415 original size:7 final size:7

Alignment explanation


    Indices: 405--474  Score: 92
    Period size: 7  Copynumber: 10.4  Consensus size: 7

        395 CAGCTACCGG

                   
        405 TTTTTG-
          1 TTTTTGT

                  *
        411 TTTTT-A
          1 TTTTTGT

                   
        417 TTTTTGT
          1 TTTTTGT

                   
        424 TTTTTGT
          1 TTTTTGT

                   
        431 TTTTTGT
          1 TTTTTGT

                   
        438 TTTTTGT
          1 TTTTTGT

                   
        445 TTTTTGT
          1 TTTTTGT

                   
        452 TTTTTGT
          1 TTTTTGT

            *    * 
        459 CTTTTAT
          1 TTTTTGT

                   
        466 TTTTT-T
          1 TTTTTGT

               
        472 TTT
          1 TTT

        475 ACGAAAGCTA


Statistics
Matches: 58,  Mismatches: 4, Indels: 4
        0.88            0.06        0.06

Matches are distributed among these distances:
   6   14  0.24
   7   44  0.76

ACGTcount: A:0.03, C:0.01, G:0.10, T:0.86


Consensus pattern (7 bp):   
TTTTTGT

Done.