Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017308.1 Corchorus olitorius cultivar O-4 contig17341, 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: 15702
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33


Found at i:7427 original size:31 final size:31

Alignment explanation


    Indices: 7392--7492  Score: 107
    Period size: 31  Copynumber: 3.3  Consensus size: 31

       7382 CGATTTCACG

                                           
       7392 GAGGGACTAAATTGATCACTTTTCAATAATA
          1 GAGGGACTAAATTGATCACTTTTCAATAATA

                  *           **        * *
       7423 GAGGGATTAAATTGA-CAGATTTC-ATACTG
          1 GAGGGACTAAATTGATCACTTTTCAATAATA

                             **         *  
       7452 GAGGGACTAAATTGATCTTTTTTCAATAGTA
          1 GAGGGACTAAATTGATCACTTTTCAATAATA

            *         
       7483 CAGGGACTAA
          1 GAGGGACTAA

       7493 TTAGGTACTT


Statistics
Matches: 56,  Mismatches: 12, Indels: 4
        0.78            0.17        0.06

Matches are distributed among these distances:
  29   18  0.32
  30   11  0.20
  31   27  0.48

ACGTcount: A:0.36, C:0.12, G:0.21, T:0.32


Consensus pattern (31 bp):   
GAGGGACTAAATTGATCACTTTTCAATAATA

Found at i:7462 original size:29 final size:31

Alignment explanation


    Indices: 7391--7468  Score: 97
    Period size: 29  Copynumber: 2.6  Consensus size: 31

       7381 CCGATTTCAC

                                *          
       7391 GGAGGGACTAAATTGATCACTTTTCAATAAT
          1 GGAGGGACTAAATTGATCACATTTCAATAAT

            *      *           *         * 
       7422 AGAGGGATTAAATTGA-CAGATTTC-ATACT
          1 GGAGGGACTAAATTGATCACATTTCAATAAT

                              
       7451 GGAGGGACTAAATTGATC
          1 GGAGGGACTAAATTGATC

       7469 TTTTTTCAAT


Statistics
Matches: 39,  Mismatches: 7, Indels: 3
        0.80            0.14        0.06

Matches are distributed among these distances:
  29   18  0.46
  30    7  0.18
  31   14  0.36

ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29


Consensus pattern (31 bp):   
GGAGGGACTAAATTGATCACATTTCAATAAT
Done.