Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010595.1 Corchorus olitorius cultivar O-4 contig10627, 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: 4659
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38


Found at i:136 original size:3 final size:3

Alignment explanation


    Indices: 128--212  Score: 170
    Period size: 3  Copynumber: 28.3  Consensus size: 3

        118 TGGAGTCTTT

                                                                           
        128 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                                                             
        176 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

        213 CTTTTCCATT


Statistics
Matches: 82,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   82  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (3 bp):   
TTA

Found at i:2815 original size:45 final size:45

Alignment explanation


    Indices: 2751--2843  Score: 150
    Period size: 45  Copynumber: 2.1  Consensus size: 45

       2741 GGCAATCTAA

                                       *  *              
       2751 TCCGGTTTAATTCTTATAGTATGATTATACGTTTAAAAATTCAAC
          1 TCCGGTTTAATTCTTATAGTATGATTACACATTTAAAAATTCAAC

                     *          *                        
       2796 TCCGGTTTAGTTCTTATAGTGTGATTACACATTTAAAAATTCAAC
          1 TCCGGTTTAATTCTTATAGTATGATTACACATTTAAAAATTCAAC

               
       2841 TCC
          1 TCC

       2844 TCTGAAAAAT


Statistics
Matches: 44,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  45   44  1.00

ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41


Consensus pattern (45 bp):   
TCCGGTTTAATTCTTATAGTATGATTACACATTTAAAAATTCAAC

Found at i:4386 original size:3 final size:3

Alignment explanation


    Indices: 4378--4659  Score: 555
    Period size: 3  Copynumber: 94.0  Consensus size: 3

       4368 TAGAAAAATC

                                                                           
       4378 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                            *                                              
       4426 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                                                                           
       4474 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                                                                           
       4522 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                                                                           
       4570 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT

                                                                   
       4618 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
          1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT


Statistics
Matches: 277,  Mismatches: 2, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
   3  277  1.00

ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34


Consensus pattern (3 bp):   
AAT

Done.