Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001691.1 Corchorus capsularis cultivar CVL-1 contig01691, 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: 3647
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35


Found at i:66 original size:2 final size:2

Alignment explanation


    Indices: 59--95  Score: 74
    Period size: 2  Copynumber: 18.5  Consensus size: 2

         49 CATTAGCTAG

                                                                   
         59 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         96 CTAAACAGGA


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:633 original size:49 final size:51

Alignment explanation


    Indices: 561--665  Score: 160
    Period size: 49  Copynumber: 2.0  Consensus size: 51

        551 TAATCTTCGT

                                                     *         
        561 TTTGTTTTAACATATTATTAC-AATTATGTTCGAATC-GGTTGATCTAATA
          1 TTTGTTTTAACATATTATTACAAATTATGTTCGAATCAGGTCGATCTAATA

                                                                  
        610 TTTGTTTTAACATATTATTACAATTAATTATGTTCGAATCAGGTCGATCTAATA
          1 TTTGTTTTAACATATTATTAC-A--AATTATGTTCGAATCAGGTCGATCTAATA

              
        664 TT
          1 TT

        666 AGAAATTAGA


Statistics
Matches: 50,  Mismatches: 1, Indels: 5
        0.89            0.02        0.09

Matches are distributed among these distances:
  49   21  0.42
  53   15  0.30
  54   14  0.28

ACGTcount: A:0.31, C:0.10, G:0.11, T:0.47


Consensus pattern (51 bp):   
TTTGTTTTAACATATTATTACAAATTATGTTCGAATCAGGTCGATCTAATA

Done.