Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022869.1 Corchorus olitorius cultivar O-4 contig22902, 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: 10837
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31


Found at i:970 original size:15 final size:16

Alignment explanation


    Indices: 950--979  Score: 53
    Period size: 16  Copynumber: 1.9  Consensus size: 16

        940 TGTAAGTTTA

                            
        950 TCAAAA-ATCAATTTT
          1 TCAAAAGATCAATTTT

                           
        965 TCAAAAGATCAATTT
          1 TCAAAAGATCAATTT

        980 GAATTCACAC


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    6  0.43
  16    8  0.57

ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37


Consensus pattern (16 bp):   
TCAAAAGATCAATTTT

Found at i:1914 original size:11 final size:11

Alignment explanation


    Indices: 1898--1922  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       1888 GGGGAATAAT

                       
       1898 CAATCCAAAAA
          1 CAATCCAAAAA

                       
       1909 CAATCCAAAAA
          1 CAATCCAAAAA

               
       1920 CAA
          1 CAA

       1923 ACAATTTTCT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.64, C:0.28, G:0.00, T:0.08


Consensus pattern (11 bp):   
CAATCCAAAAA

Found at i:3104 original size:22 final size:22

Alignment explanation


    Indices: 3079--3126  Score: 60
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       3069 CGGCCTGGCG

                *                 
       3079 CGGGGCATGGCCGAGTCATGAC
          1 CGGGACATGGCCGAGTCATGAC

                 *      *       * 
       3101 CGGGATATGGCCTAGTCATGTC
          1 CGGGACATGGCCGAGTCATGAC

                
       3123 CGGG
          1 CGGG

       3127 TGCCACCGAG


Statistics
Matches: 22,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.17, C:0.25, G:0.40, T:0.19


Consensus pattern (22 bp):   
CGGGACATGGCCGAGTCATGAC

Found at i:9815 original size:14 final size:14

Alignment explanation


    Indices: 9792--9821  Score: 51
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       9782 ACCATGTTTA

                 *        
       9792 AAAATCAAAACTTG
          1 AAAATAAAAACTTG

                          
       9806 AAAATAAAAACTTG
          1 AAAATAAAAACTTG

              
       9820 AA
          1 AA

       9822 TTTTCTTTCT


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

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20


Consensus pattern (14 bp):   
AAAATAAAAACTTG
Done.