Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019330.1 Corchorus olitorius cultivar O-4 contig19363, 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: 6838
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32


Found at i:1085 original size:19 final size:20

Alignment explanation


    Indices: 1037--1097  Score: 79
    Period size: 21  Copynumber: 3.0  Consensus size: 20

       1027 ATCATTGTTC

                                
       1037 TAATAATCTCATCTGTACAG
          1 TAATAATCTCATCTGTACAG

                      *          
       1057 TACATAATCTAATCTGTACAG
          1 TA-ATAATCTCATCTGTACAG

              *         *       
       1078 T-GTAATCTCATTTGTACAG
          1 TAATAATCTCATCTGTACAG

             
       1097 T
          1 T

       1098 TGTCAAACAG


Statistics
Matches: 36,  Mismatches: 4, Indels: 3
        0.84            0.09        0.07

Matches are distributed among these distances:
  19   16  0.44
  20    2  0.06
  21   18  0.50

ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38


Consensus pattern (20 bp):   
TAATAATCTCATCTGTACAG

Found at i:2027 original size:21 final size:20

Alignment explanation


    Indices: 1981--2023  Score: 59
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       1971 ATCTCACAAG

                        *    *  
       1981 TTTCTAGCCGTTGGAGCTCT
          1 TTTCTAGCCGTTAGAGCACT

                         *      
       2001 TTTCTAGCCGTTATAGCACT
          1 TTTCTAGCCGTTAGAGCACT

               
       2021 TTT
          1 TTT

       2024 TCTACTTTTT


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44


Consensus pattern (20 bp):   
TTTCTAGCCGTTAGAGCACT
Done.