Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022898.1 Corchorus olitorius cultivar O-4 contig22931, 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: 6636
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33


Found at i:5197 original size:11 final size:11

Alignment explanation


    Indices: 5181--5217  Score: 58
    Period size: 11  Copynumber: 3.4  Consensus size: 11

       5171 TAATATATGT

                       
       5181 TATATGTTATA
          1 TATATGTTATA

                        
       5192 TATATG-TATTA
          1 TATATGTTA-TA

                       
       5203 TATATGTTATA
          1 TATATGTTATA

                
       5214 TATA
          1 TATA

       5218 CAAAGCAAAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 4
        0.86            0.00        0.14

Matches are distributed among these distances:
  10    2  0.08
  11   20  0.83
  12    2  0.08

ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54


Consensus pattern (11 bp):   
TATATGTTATA

Found at i:5953 original size:32 final size:32

Alignment explanation


    Indices: 5916--6036  Score: 136
    Period size: 32  Copynumber: 3.8  Consensus size: 32

       5906 TTTGATCGGA

                                             
       5916 AGACGCCGCTAAATAAGGGCGTTTTGTT-TATT
          1 AGACGCCGCTAAATAAGGGCGTTTTGTTCT-TT

                            *      *      * 
       5948 AGACGCCGCTAAATAAAGGCGTTATGTTCTCT
          1 AGACGCCGCTAAATAAGGGCGTTTTGTTCTTT

             * *      *   **                
       5980 AAATGCCGCTGAATTGGGGCGTTTTGTTCTTT
          1 AGACGCCGCTAAATAAGGGCGTTTTGTTCTTT

                    *           *    
       6012 AGACGCCGTTAAATAAGGGCATTTT
          1 AGACGCCGCTAAATAAGGGCGTTTT

       6037 CTTTTCACAC


Statistics
Matches: 70,  Mismatches: 18, Indels: 2
        0.78            0.20        0.02

Matches are distributed among these distances:
  32   69  0.99
  33    1  0.01

ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33


Consensus pattern (32 bp):   
AGACGCCGCTAAATAAGGGCGTTTTGTTCTTT
Done.