Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01011683.1 Corchorus olitorius cultivar O-4 contig11716, 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: 1917
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29


Found at i:810 original size:33 final size:31

Alignment explanation


    Indices: 737--841  Score: 102
    Period size: 33  Copynumber: 3.2  Consensus size: 31

        727 GCTATGATCA

                     *                 ** * 
        737 ACCAAAACAGATTTGTTTTCATCACAATTAGC
          1 ACCAAAACAAATTTG-TTTCATCACAAACAAC

                                             
        769 ATCCAAAACAAAATTTGTTTCATCACAAACAAC
          1 A-CCAAAAC-AAATTTGTTTCATCACAAACAAC

                      *       *              
        802 ACCTAAAACAGATTTAGTGTCATCACAAACAAC
          1 ACC-AAAACAAATTT-GTTTCATCACAAACAAC

                   
        835 ACTCAAA
          1 AC-CAAA

        842 TTAGGTTTAG


Statistics
Matches: 62,  Mismatches: 6, Indels: 9
        0.81            0.08        0.12

Matches are distributed among these distances:
  32    8  0.13
  33   47  0.76
  34    7  0.11

ACGTcount: A:0.45, C:0.24, G:0.07, T:0.25


Consensus pattern (31 bp):   
ACCAAAACAAATTTGTTTCATCACAAACAAC

Found at i:851 original size:33 final size:33

Alignment explanation


    Indices: 788--884  Score: 115
    Period size: 33  Copynumber: 2.9  Consensus size: 33

        778 AAAATTTGTT

                                            *
        788 TCATCACAAACAACACCTAAAACAGATTTAGTG
          1 TCATCACAAACAACACCTAAAACAGATTTAGTA

                                  **  *       
        821 TCATCACAAACAACA-CTCAAATTAGGTTTAGTA
          1 TCATCACAAACAACACCT-AAAACAGATTTAGTA

             *   *         *               
        854 TTATCGCAAACAACATCTAAAACAGATTTAG
          1 TCATCACAAACAACACCTAAAACAGATTTAG

        885 AATTACTCTT


Statistics
Matches: 53,  Mismatches: 9, Indels: 4
        0.80            0.14        0.06

Matches are distributed among these distances:
  32    2  0.04
  33   49  0.92
  34    2  0.04

ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25


Consensus pattern (33 bp):   
TCATCACAAACAACACCTAAAACAGATTTAGTA
Done.