Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009738.1 Corchorus capsularis cultivar CVL-1 contig09759, 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: 2387
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34


Found at i:1757 original size:21 final size:21

Alignment explanation


    Indices: 1731--1775  Score: 72
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       1721 CAAATCTGGA

                                 
       1731 TTGCTAAACACCGCCCCATTT
          1 TTGCTAAACACCGCCCCATTT

                  **             
       1752 TTGCTATTCACCGCCCCATTT
          1 TTGCTAAACACCGCCCCATTT

               
       1773 TTG
          1 TTG

       1776 ACGTTTTTTT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.18, C:0.36, G:0.11, T:0.36


Consensus pattern (21 bp):   
TTGCTAAACACCGCCCCATTT

Found at i:2342 original size:33 final size:33

Alignment explanation


    Indices: 2300--2384  Score: 125
    Period size: 33  Copynumber: 2.6  Consensus size: 33

       2290 TAGTACCGGT

                              *   *          
       2300 GCCGCCCCAGGGGGGCGGTCTATCCATGGTAGG
          1 GCCGCCCCAGGGGGGCGGCCTAGCCATGGTAGG

                        *                   *
       2333 GCCGCCCCAGGGAGGCGGCCTAGCCATGGTAGT
          1 GCCGCCCCAGGGGGGCGGCCTAGCCATGGTAGG

                       *       
       2366 GCCGCCCCAGGAGGGCGGC
          1 GCCGCCCCAGGGGGGCGGC

       2385 TTG


Statistics
Matches: 46,  Mismatches: 6, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   46  1.00

ACGTcount: A:0.13, C:0.34, G:0.42, T:0.11


Consensus pattern (33 bp):   
GCCGCCCCAGGGGGGCGGCCTAGCCATGGTAGG
Done.