Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022479.1 Corchorus olitorius cultivar O-4 contig22512, 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: 11410
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34


Found at i:9293 original size:30 final size:30

Alignment explanation


    Indices: 9259--9334  Score: 93
    Period size: 30  Copynumber: 2.6  Consensus size: 30

       9249 ATATTGTACA

                   *            *          
       9259 GGTCCCTTTACTTA-AAAAAGGGATCAATTT
          1 GGTCCCTCTACTTACAAAAACGG-TCAATTT

                  *              *        
       9289 GGTCCCCCTAC-TACAAAAACTGTCAATTT
          1 GGTCCCTCTACTTACAAAAACGGTCAATTT

                             
       9318 GGTCCCTCTACTTACAA
          1 GGTCCCTCTACTTACAA

       9335 TTTGGTATCA


Statistics
Matches: 39,  Mismatches: 5, Indels: 4
        0.81            0.10        0.08

Matches are distributed among these distances:
  29   19  0.49
  30   20  0.51

ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30


Consensus pattern (30 bp):   
GGTCCCTCTACTTACAAAAACGGTCAATTT

Found at i:9671 original size:31 final size:30

Alignment explanation


    Indices: 9599--9672  Score: 78
    Period size: 29  Copynumber: 2.5  Consensus size: 30

       9589 CAGATTCTAT

                     *               *    
       9599 TAAGTAGAGAGACCAAATTAACAATTTTTG
          1 TAAGTAGAGGGACCAAATTAACAATCTTTG

                   *             * **      
       9629 T-AGTAGGGGGACCAAATTGATCCCTCTTTG
          1 TAAGTAGAGGGACCAAATT-AACAATCTTTG

                          
       9659 TAAGTAGAGGGACC
          1 TAAGTAGAGGGACC

       9673 TGTACGGTAT


Statistics
Matches: 35,  Mismatches: 7, Indels: 3
        0.78            0.16        0.07

Matches are distributed among these distances:
  29   15  0.43
  30    9  0.26
  31   11  0.31

ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27


Consensus pattern (30 bp):   
TAAGTAGAGGGACCAAATTAACAATCTTTG
Done.