Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01000444.1 Corchorus capsularis cultivar CVL-1 contig00444, 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, 618

Length: 1031
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38


Found at i:165 original size:68 final size:68

Alignment explanation


    Indices: 90--225  Score: 254
    Period size: 68  Copynumber: 2.0  Consensus size: 68

         80 ATTTTTATCA

                                *                                            
         90 AAAAGATTAATGAAGGAGGAGATTGTGGATCTAACATATTGTAATTAGAATGTAATTAATCAATC
          1 AAAAGATTAATGAAGGAGGAAATTGTGGATCTAACATATTGTAATTAGAATGTAATTAATCAATC

               
        155 AAT
         66 AAT

                       *                                                     
        158 AAAAGATTAATTAAGGAGGAAATTGTGGATCTAACATATTGTAATTAGAATGTAATTAATCAATC
          1 AAAAGATTAATGAAGGAGGAAATTGTGGATCTAACATATTGTAATTAGAATGTAATTAATCAATC

               
        223 AAT
         66 AAT

        226 TAGATACAAA


Statistics
Matches: 66,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  68   66  1.00

ACGTcount: A:0.45, C:0.06, G:0.18, T:0.32


Consensus pattern (68 bp):   
AAAAGATTAATGAAGGAGGAAATTGTGGATCTAACATATTGTAATTAGAATGTAATTAATCAATC
AAT

Found at i:338 original size:2 final size:2

Alignment explanation


    Indices: 331--357  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

        321 TACAGTTTTA

                                                    
        331 AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A

        358 AGATATAAGA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Done.