Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018203.1 Corchorus olitorius cultivar O-4 contig18236, 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: 3344
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31


Found at i:2989 original size:30 final size:29

Alignment explanation


    Indices: 2955--3076  Score: 118
    Period size: 30  Copynumber: 4.1  Consensus size: 29

       2945 TTAATTGACC

                        *                 
       2955 TTTTGCAAATCTTGGGGGCATTTTGGTCAT
          1 TTTTGCAAATC-CGGGGGCATTTTGGTCAT

                  **          *           
       2985 TTTTGCGTATCCGGGGGGTATTTTGGTCAT
          1 TTTTGCAAATCC-GGGGGCATTTTGGTCAT

                * **    **         *     
       3015 TTTTACCCATCCAAGGGCATTTTAGTCAT
          1 TTTTGCAAATCCGGGGGCATTTTGGTCAT

                            *             
       3044 TTTTGCACAATCCGGGTGCATTTTGGTCAT
          1 TTTTGCA-AATCCGGGGGCATTTTGGTCAT

               
       3074 TTT
          1 TTT

       3077 GGTTTTATTT


Statistics
Matches: 72,  Mismatches: 18, Indels: 4
        0.77            0.19        0.04

Matches are distributed among these distances:
  29   18  0.25
  30   54  0.75

ACGTcount: A:0.16, C:0.17, G:0.24, T:0.43


Consensus pattern (29 bp):   
TTTTGCAAATCCGGGGGCATTTTGGTCAT

Found at i:3000 original size:29 final size:29

Alignment explanation


    Indices: 2968--3076  Score: 119
    Period size: 30  Copynumber: 3.7  Consensus size: 29

       2958 TGCAAATCTT

                                   **    
       2968 GGGGGCATTTTGGTCATTTTTGCGTATCC
          1 GGGGGCATTTTGGTCATTTTTGCCAATCC

                  *               *  *    
       2997 GGGGGGTATTTTGGTCATTTTTACCCATCC
          1 -GGGGGCATTTTGGTCATTTTTGCCAATCC

            **         *                  
       3027 AAGGGCATTTTAGTCATTTTTGCACAATCC
          1 GGGGGCATTTTGGTCATTTTTGC-CAATCC

               *                
       3057 GGGTGCATTTTGGTCATTTT
          1 GGGGGCATTTTGGTCATTTT

       3077 GGTTTTATTT


Statistics
Matches: 64,  Mismatches: 14, Indels: 2
        0.80            0.17        0.03

Matches are distributed among these distances:
  29   18  0.28
  30   46  0.72

ACGTcount: A:0.16, C:0.17, G:0.26, T:0.41


Consensus pattern (29 bp):   
GGGGGCATTTTGGTCATTTTTGCCAATCC
Done.