Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000740.1 Corchorus olitorius cultivar O-4 contig00740, 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, 650

Length: 1084
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40


Found at i:760 original size:27 final size:27

Alignment explanation


    Indices: 730--812  Score: 112
    Period size: 30  Copynumber: 3.0  Consensus size: 27

        720 ATATTACTAA

                         *  *          
        730 TAATAATTATTATTATTATAATAAGTT
          1 TAATAATTATTATAATAATAATAAGTT

                      *                   
        757 TAATAATTATAATACCACTAATAATAAGTT
          1 TAATAATTATTATA--A-TAATAATAAGTT

                                      
        787 TAATAATTATTATAATAATAATAAGT
          1 TAATAATTATTATAATAATAATAAGT

        813 CTAAATTAAC


Statistics
Matches: 49,  Mismatches: 4, Indels: 6
        0.83            0.07        0.10

Matches are distributed among these distances:
  27   23  0.47
  28    1  0.02
  29    1  0.02
  30   24  0.49

ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43


Consensus pattern (27 bp):   
TAATAATTATTATAATAATAATAAGTT

Found at i:769 original size:9 final size:9

Alignment explanation


    Indices: 729--810  Score: 60
    Period size: 9  Copynumber: 8.8  Consensus size: 9

        719 CATATTACTA

                     
        729 ATAATAATT
          1 ATAATAATT

              *  *   
        738 ATTATTATT
          1 ATAATAATT

                      
        747 ATAATAAGTT
          1 ATAATAA-TT

                     
        757 -TAATAATT
          1 ATAATAATT

                       *
        765 ATAATACCACTA
          1 ATAATA--A-TT

                      
        777 ATAATAAGTT
          1 ATAATAA-TT

                     
        787 -TAATAATT
          1 ATAATAATT

              *     *
        795 ATTATAATA
          1 ATAATAATT

                   
        804 ATAATAA
          1 ATAATAA

        811 GTCTAAATTA


Statistics
Matches: 57,  Mismatches: 10, Indels: 12
        0.72            0.13        0.15

Matches are distributed among these distances:
   8    4  0.07
   9   41  0.72
  10    4  0.07
  11    1  0.02
  12    7  0.12

ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43


Consensus pattern (9 bp):   
ATAATAATT

Done.