Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01011712.1 Corchorus capsularis cultivar CVL-1 contig11733, 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: 4088
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32


Found at i:240 original size:11 final size:10

Alignment explanation


    Indices: 225--278  Score: 56
    Period size: 10  Copynumber: 5.3  Consensus size: 10

        215 TTCTTTCACA

                      
        225 TTTCTTTTTT
          1 TTTCTTTTTT

                       
        235 TCTTC-TTTTT
          1 T-TTCTTTTTT

                      
        245 TTTCTTTTTT
          1 TTTCTTTTTT

               *   * * 
        255 TTCACTTGTCT
          1 TT-TCTTTTTT

                      
        266 TTTCTTTTTT
          1 TTTCTTTTTT

               
        276 TTT
          1 TTT

        279 TTTGATGATG


Statistics
Matches: 35,  Mismatches: 6, Indels: 6
        0.74            0.13        0.13

Matches are distributed among these distances:
   9    3  0.09
  10   22  0.63
  11   10  0.29

ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81


Consensus pattern (10 bp):   
TTTCTTTTTT

Found at i:246 original size:12 final size:11

Alignment explanation


    Indices: 229--279  Score: 50
    Period size: 11  Copynumber: 4.6  Consensus size: 11

        219 TTCACATTTC

                        
        229 TTTTTTTCTTCT
          1 TTTTTTTCTT-T

                       
        241 TTTTTTTCTTT
          1 TTTTTTTCTTT

                 **    
        252 TTTTTCAC-TT
          1 TTTTTTTCTTT

            * *        
        262 GTCTTTTCTTT
          1 TTTTTTTCTTT

                   
        273 TTTTTTT
          1 TTTTTTT

        280 TTGATGATGG


Statistics
Matches: 30,  Mismatches: 8, Indels: 3
        0.73            0.20        0.07

Matches are distributed among these distances:
  10    6  0.20
  11   14  0.47
  12   10  0.33

ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82


Consensus pattern (11 bp):   
TTTTTTTCTTT

Done.