Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018493.1 Corchorus olitorius cultivar O-4 contig18526, 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: 12071
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32


Found at i:10947 original size:91 final size:91

Alignment explanation


    Indices: 10762--11078  Score: 442
    Period size: 90  Copynumber: 3.5  Consensus size: 91

      10752 TTCGTATTTC

                                    * *     *             *                  
      10762 TTCAGGAT-AGTTCGGTGAATCAAATCAACGCGGTGCATTATTTCTATGAAG-TTGGATTCGGTG
          1 TTCAGGATGA-TTCGGTGAATCAAGTTAACGCAGTGCATTATTTCTTTGAAGATTGGATTCGGTG

                        *              
      10825 AGCTCGGTGCAATACATTTTCAAACAG
         65 AGCTCGGTGCAACACATTTTCAAACAG

                  *                        *                                 
      10852 TTCAGGGTGATTCGGTGAATCAAGTTAACGCGGTGCATTATTTCTTTGAAGATTGGATTCGGTGA
          1 TTCAGGATGATTCGGTGAATCAAGTTAACGCAGTGCATTATTTCTTTGAAGATTGGATTCGGTGA

                    * *               
      10917 GCTCGGTGTAGCACATTTTCAAACAG
         66 GCTCGGTGCAACACATTTTCAAACAG

                                      * *                  *            *    
      10943 TTCAGGATGATTCGGTGAATCAAGTTGATGCAGTGCATTATTTC-TTCAAGATTGGATTCAGTGA
          1 TTCAGGATGATTCGGTGAATCAAGTTAACGCAGTGCATTATTTCTTTGAAGATTGGATTCGGTGA

                 **                   
      11007 GCTCGACGCAACACATTTTCAAACAG
         66 GCTCGGTGCAACACATTTTCAAACAG

              *                         *      *          
      11033 TTTAGGATGATTCGGTGAATCAAGTTAATGCAGTGGATTATTTCTT
          1 TTCAGGATGATTCGGTGAATCAAGTTAACGCAGTGCATTATTTCTT

      11079 CAAGGTTTGA


Statistics
Matches: 204,  Mismatches: 20, Indels: 5
        0.89            0.09        0.02

Matches are distributed among these distances:
  90  126  0.62
  91   78  0.38

ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33


Consensus pattern (91 bp):   
TTCAGGATGATTCGGTGAATCAAGTTAACGCAGTGCATTATTTCTTTGAAGATTGGATTCGGTGA
GCTCGGTGCAACACATTTTCAAACAG

Found at i:11847 original size:42 final size:43

Alignment explanation


    Indices: 11796--11889  Score: 111
    Period size: 45  Copynumber: 2.2  Consensus size: 43

      11786 AGTGCATTAC

                                    *     *           *
      11796 CTAA-ATTCTA-CTACATCTCTAGGTAATTTATCAAAATAAAG
          1 CTAATATTCTACCTACATCTCTAGATAATTCATCAAAATAAAA

               *            *                            
      11837 CTATTATTCTACTCCTCCATCTCTAGATAATTCATCAAAATAAAA
          1 CTAATATTCTA--CCTACATCTCTAGATAATTCATCAAAATAAAA

                    
      11882 CTAATATT
          1 CTAATATT

      11890 AATTGTTGCT


Statistics
Matches: 43,  Mismatches: 6, Indels: 4
        0.81            0.11        0.08

Matches are distributed among these distances:
  41    3  0.07
  42    6  0.14
  45   34  0.79

ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36


Consensus pattern (43 bp):   
CTAATATTCTACCTACATCTCTAGATAATTCATCAAAATAAAA
Done.