Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01015259.1 Corchorus capsularis cultivar CVL-1 contig15280, 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: 8698
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:896 original size:9 final size:8

Alignment explanation


    Indices: 862--895  Score: 50
    Period size: 8  Copynumber: 4.1  Consensus size: 8

        852 GAATCGGCTA

                    
        862 TGAATTTT
          1 TGAATTTT

                    *
        870 TGAAGTTTC
          1 TGAA-TTTT

                    
        879 TGAATTTT
          1 TGAATTTT

                    
        887 TGAATTTT
          1 TGAATTTT

             
        895 T
          1 T

        896 TTTTAAGAAG


Statistics
Matches: 23,  Mismatches: 2, Indels: 2
        0.85            0.07        0.07

Matches are distributed among these distances:
   8   16  0.70
   9    7  0.30

ACGTcount: A:0.24, C:0.03, G:0.15, T:0.59


Consensus pattern (8 bp):   
TGAATTTT

Found at i:1976 original size:33 final size:33

Alignment explanation


    Indices: 1872--1979  Score: 110
    Period size: 33  Copynumber: 3.3  Consensus size: 33

       1862 GCGTCAAGCG

                               *   *    *     
       1872 ATGGCCGGTTG-TGGCCGGACATGTCCATGTCGC
          1 ATGGCCGG-TGATGGCCGGGCATCTCCAAGTCGC

            *                        **      
       1905 GTGGCCGGTGATGGCCGGGCATCTCTGAGTCGC
          1 ATGGCCGGTGATGGCCGGGCATCTCCAAGTCGC

            *         *         *         *  
       1938 GTGGCCGGTGTTGGCCGGGCTTCTCCAAGTGGC
          1 ATGGCCGGTGATGGCCGGGCATCTCCAAGTCGC

                     
       1971 ATGGCCGGT
          1 ATGGCCGGT

       1980 CACTCGCGCC


Statistics
Matches: 62,  Mismatches: 12, Indels: 2
        0.82            0.16        0.03

Matches are distributed among these distances:
  32    2  0.03
  33   60  0.97

ACGTcount: A:0.09, C:0.27, G:0.41, T:0.23


Consensus pattern (33 bp):   
ATGGCCGGTGATGGCCGGGCATCTCCAAGTCGC
Done.