Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006995.1 Corchorus olitorius cultivar O-4 contig07020, 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, 718

Length: 1197
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41


Found at i:853 original size:39 final size:40

Alignment explanation


    Indices: 797--877  Score: 128
    Period size: 39  Copynumber: 2.0  Consensus size: 40

        787 TTTAATTCCT

                                      *             
        797 ATGTAATATATATAATAACTAAAATATTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

                     *          *                   
        837 ATGTAATA-CTATAATAACTGAAATACTTACATTAATTAA
          1 ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

              
        876 AT
          1 AT

        878 TTTTAGGTAT


Statistics
Matches: 38,  Mismatches: 3, Indels: 1
        0.90            0.07        0.02

Matches are distributed among these distances:
  39   30  0.79
  40    8  0.21

ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38


Consensus pattern (40 bp):   
ATGTAATATATATAATAACTAAAATACTTACATTAATTAA

Found at i:901 original size:24 final size:23

Alignment explanation


    Indices: 868--913  Score: 74
    Period size: 24  Copynumber: 2.0  Consensus size: 23

        858 AATACTTACA

                       *           
        868 TTAATTAAATTTTTAGGTATTTT
          1 TTAATTAAATTCTTAGGTATTTT

                                   
        891 TTAATTTAAATTCTTAGGTATTT
          1 TTAA-TTAAATTCTTAGGTATTT

        914 GTGCAAACGT


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  23    4  0.19
  24   17  0.81

ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59


Consensus pattern (23 bp):   
TTAATTAAATTCTTAGGTATTTT
Done.