Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006108.1 Corchorus olitorius cultivar O-4 contig06133, 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, 640

Length: 1067
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30


Found at i:569 original size:14 final size:15

Alignment explanation


    Indices: 550--579  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        540 CAATCAAAGC

                           
        550 AATAAT-CAAGGAAA
          1 AATAATGCAAGGAAA

                           
        564 AATAATGCAAGGAAA
          1 AATAATGCAAGGAAA

             
        579 A
          1 A

        580 TTAAAAAGAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    6  0.40
  15    9  0.60

ACGTcount: A:0.63, C:0.07, G:0.17, T:0.13


Consensus pattern (15 bp):   
AATAATGCAAGGAAA

Found at i:955 original size:21 final size:21

Alignment explanation


    Indices: 931--1003  Score: 65
    Period size: 21  Copynumber: 3.4  Consensus size: 21

        921 GGCTTGGAAT

                      *          
        931 GGTGATGGCATGGGCATGGCC
          1 GGTGATGGCACGGGCATGGCC

                *          * **  
        952 GGTGGTGGCACGGGCTTAACC
          1 GGTGATGGCACGGGCATGGCC

                *          *      
        973 GGTGGTGGCACGGTGAATGGCC
          1 GGTGATGGCACGG-GCATGGCC

               *     
        995 GGTAATGGC
          1 GGTGATGGC

       1004 TTGGTAGTGG


Statistics
Matches: 40,  Mismatches: 11, Indels: 1
        0.77            0.21        0.02

Matches are distributed among these distances:
  21   29  0.73
  22   11  0.28

ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19


Consensus pattern (21 bp):   
GGTGATGGCACGGGCATGGCC
Done.