Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000133.1 Corchorus capsularis cultivar CVL-1 contig00133, 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, 831

Length: 1386
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34


Found at i:1075 original size:39 final size:41

Alignment explanation


    Indices: 997--1102  Score: 153
    Period size: 39  Copynumber: 2.6  Consensus size: 41

        987 CAAGCAAGAT

                    *       *                         
        997 GGCTTAACAACACTCTTATTGGTAGTAGTACTACCTCTCATG
          1 GGCTTAACTACACTCTCATTGGTAGTAG-ACTACCTCTCATG

                                                    *
       1039 GGCTTAACTACACTCTCATTGGTAGT-G-CTACCTCTCATT
          1 GGCTTAACTACACTCTCATTGGTAGTAGACTACCTCTCATG

                          *          
       1078 GGCTTAACTACACTATCATTGGTAG
          1 GGCTTAACTACACTCTCATTGGTAG

       1103 CAAAACCCCT


Statistics
Matches: 60,  Mismatches: 4, Indels: 3
        0.90            0.06        0.04

Matches are distributed among these distances:
  39   35  0.58
  41    1  0.02
  42   24  0.40

ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34


Consensus pattern (41 bp):   
GGCTTAACTACACTCTCATTGGTAGTAGACTACCTCTCATG

Found at i:1088 original size:19 final size:20

Alignment explanation


    Indices: 1026--1099  Score: 75
    Period size: 20  Copynumber: 3.8  Consensus size: 20

       1016 TGGTAGTAGT

                         *      
       1026 ACTAC-CTCTCATGGGCTTA
          1 ACTACACTCTCATTGGCTTA

                                
       1045 ACTACACTCTCATTGG--TA
          1 ACTACACTCTCATTGGCTTA

              *                   
       1063 GTGCTAC-CTCTCATTGGCTTA
          1 --ACTACACTCTCATTGGCTTA

                    *       
       1084 ACTACACTATCATTGG
          1 ACTACACTCTCATTGG

       1100 TAGCAAAACC


Statistics
Matches: 45,  Mismatches: 4, Indels: 11
        0.75            0.07        0.18

Matches are distributed among these distances:
  18    2  0.04
  19   19  0.42
  20   22  0.49
  21    2  0.04

ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34


Consensus pattern (20 bp):   
ACTACACTCTCATTGGCTTA
Done.