Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01006160.1 Corchorus capsularis cultivar CVL-1 contig06178, 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: 5500
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.35


Found at i:3560 original size:28 final size:28

Alignment explanation


    Indices: 3520--3575  Score: 103
    Period size: 28  Copynumber: 2.0  Consensus size: 28

       3510 ATTGATTTAA

                  *                     
       3520 ATTGATCTGGAAATTTTGAAGAACATGC
          1 ATTGATATGGAAATTTTGAAGAACATGC

                                        
       3548 ATTGATATGGAAATTTTGAAGAACATGC
          1 ATTGATATGGAAATTTTGAAGAACATGC

       3576 CTTTGGAAAT


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  28   27  1.00

ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32


Consensus pattern (28 bp):   
ATTGATATGGAAATTTTGAAGAACATGC

Found at i:3587 original size:24 final size:27

Alignment explanation


    Indices: 3527--3587  Score: 83
    Period size: 28  Copynumber: 2.3  Consensus size: 27

       3517 TAAATTGATC

                                  *     
       3527 TGGAAATTTTGAAGAACATGCATTGATA
          1 TGGAAATTTTGAAGAACATGCACT-ATA

                                       
       3555 TGGAAATTTTGAAGAACATGC-CT-T-
          1 TGGAAATTTTGAAGAACATGCACTATA

                     
       3579 TGGAAATTT
          1 TGGAAATTT

       3588 AAGATTTGCA


Statistics
Matches: 32,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
  24    9  0.28
  25    1  0.03
  27    1  0.03
  28   21  0.66

ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34


Consensus pattern (27 bp):   
TGGAAATTTTGAAGAACATGCACTATA
Done.