Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002040.1 Corchorus capsularis cultivar CVL-1 contig02044, 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: 2637
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36


Found at i:228 original size:22 final size:22

Alignment explanation


    Indices: 201--245  Score: 74
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        191 GTTTTTTTTG

                                   
        201 TAAAAAAT-TATATTAATTATAA
          1 TAAAAAATGTATA-TAATTATAA

                                  
        223 TAAAAAATGTATATAATTATAA
          1 TAAAAAATGTATATAATTATAA

             
        245 T
          1 T

        246 GTATTTAAAT


Statistics
Matches: 22,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
  22   18  0.82
  23    4  0.18

ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40


Consensus pattern (22 bp):   
TAAAAAATGTATATAATTATAA

Found at i:1910 original size:13 final size:13

Alignment explanation


    Indices: 1892--1923  Score: 55
    Period size: 13  Copynumber: 2.5  Consensus size: 13

       1882 TGCTACATGA

                         
       1892 CCCTCCAACCTGT
          1 CCCTCCAACCTGT

                     *   
       1905 CCCTCCAACTTGT
          1 CCCTCCAACCTGT

                  
       1918 CCCTCC
          1 CCCTCC

       1924 TGACGTGTCA


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

Matches are distributed among these distances:
  13   18  1.00

ACGTcount: A:0.12, C:0.56, G:0.06, T:0.25


Consensus pattern (13 bp):   
CCCTCCAACCTGT

Found at i:2424 original size:2 final size:2

Alignment explanation


    Indices: 2411--2449  Score: 69
    Period size: 2  Copynumber: 19.5  Consensus size: 2

       2401 AAATACTATT

                   *                                                  
       2411 TA TA TG 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 TA TA T

       2450 CTAGTAGTTC


Statistics
Matches: 35,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   2   35  1.00

ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51


Consensus pattern (2 bp):   
TA

Done.