Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008523.1 Corchorus olitorius cultivar O-4 contig08550, 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, 916

Length: 1528
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33


Found at i:167 original size:24 final size:24

Alignment explanation


    Indices: 140--190  Score: 68
    Period size: 24  Copynumber: 2.1  Consensus size: 24

        130 ATAATTATTA

                        *            
        140 TAATAATAATAATAATAAGGA-GTT
          1 TAATAATAATAACAATAA-GATGTT

                   *                
        164 TAATAATTATAACAATAAGATGTT
          1 TAATAATAATAACAATAAGATGTT

               
        188 TAA
          1 TAA

        191 CGTAAAAATA


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  23    2  0.08
  24   22  0.92

ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35


Consensus pattern (24 bp):   
TAATAATAATAACAATAAGATGTT

Found at i:170 original size:3 final size:3

Alignment explanation


    Indices: 110--157  Score: 53
    Period size: 3  Copynumber: 16.0  Consensus size: 3

        100 AAGAAAAACG

                 *                            *   *                     
        110 TAA TGA TAA T-A TAA CTAA TAA TAA TTA TTA TAA TAA TAA TAA TAA
          1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA

               
        155 TAA
          1 TAA

        158 GGAGTTTAAT


Statistics
Matches: 39,  Mismatches: 4, Indels: 4
        0.83            0.09        0.09

Matches are distributed among these distances:
   2    2  0.05
   3   34  0.87
   4    3  0.08

ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38


Consensus pattern (3 bp):   
TAA

Done.