Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01009150.1 Corchorus capsularis cultivar CVL-1 contig09171, 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: 25950
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33


Found at i:7 original size:2 final size:2

Alignment explanation


    Indices: 1--35  Score: 70
    Period size: 2  Copynumber: 17.5  Consensus size: 2

                                                                
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

         36 TACTAATAAG


Statistics
Matches: 33,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   33  1.00

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (2 bp):   
TA

Found at i:15098 original size:18 final size:18

Alignment explanation


    Indices: 15075--15111  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

      15065 CATGATATTT

                              
      15075 TTCCCAATTCTCCTTTTC
          1 TTCCCAATTCTCCTTTTC

                        *     
      15093 TTCCCAATTCTCTTTTTC
          1 TTCCCAATTCTCCTTTTC

             
      15111 T
          1 T

      15112 CCTGGCTCAA


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.11, C:0.35, G:0.00, T:0.54


Consensus pattern (18 bp):   
TTCCCAATTCTCCTTTTC

Found at i:23536 original size:22 final size:22

Alignment explanation


    Indices: 23510--23555  Score: 83
    Period size: 22  Copynumber: 2.1  Consensus size: 22

      23500 ATTTTGTTGG

                 *                
      23510 TTGTCGTTGCCATAAATGAAGA
          1 TTGTCATTGCCATAAATGAAGA

                                  
      23532 TTGTCATTGCCATAAATGAAGA
          1 TTGTCATTGCCATAAATGAAGA

              
      23554 TT
          1 TT

      23556 ACCATACACA


Statistics
Matches: 23,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   23  1.00

ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35


Consensus pattern (22 bp):   
TTGTCATTGCCATAAATGAAGA
Done.