Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008474.1 Corchorus olitorius cultivar O-4 contig08501, 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: 10502
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:12 original size:2 final size:2

Alignment explanation


    Indices: 6--41  Score: 72
    Period size: 2  Copynumber: 18.0  Consensus size: 2

          1 CATAC

                                                                 
          6 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

         42 CAACAAGTTG


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   34  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:3030 original size:14 final size:15

Alignment explanation


    Indices: 3002--3033  Score: 57
    Period size: 14  Copynumber: 2.2  Consensus size: 15

       2992 TTGTATAAAG

                           
       3002 AAATCCAAGACAAGC
          1 AAATCCAAGACAAGC

                           
       3017 AAATCCAA-ACAAGC
          1 AAATCCAAGACAAGC

               
       3031 AAA
          1 AAA

       3034 GGTAAAAATA


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    9  0.53
  15    8  0.47

ACGTcount: A:0.59, C:0.25, G:0.09, T:0.06


Consensus pattern (15 bp):   
AAATCCAAGACAAGC

Found at i:7831 original size:6 final size:6

Alignment explanation


    Indices: 7822--7846  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       7812 ATGATGATTA

                                         
       7822 TGGTGT TGGTGT TGGTGT TGGTGT T
          1 TGGTGT TGGTGT TGGTGT TGGTGT T

       7847 CGTCGGTTGA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52


Consensus pattern (6 bp):   
TGGTGT

Done.