Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001310.1 Corchorus olitorius cultivar O-4 contig01310, 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: 4884
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37


Found at i:1252 original size:34 final size:33

Alignment explanation


    Indices: 1204--1275  Score: 119
    Period size: 33  Copynumber: 2.2  Consensus size: 33

       1194 AATTTTTTTA

                                              
       1204 TTTTTAAAAAATAAAAAAAATCATTTT-TTCTGT
          1 TTTTTAAAAAAT-AAAAAAATCATTTTCTTCTGT

                                              
       1237 TTTTTCAAAAAATAAAAAAATCATTTTCTTCTGT
          1 TTTTT-AAAAAATAAAAAAATCATTTTCTTCTGT

                 
       1271 TTTTT
          1 TTTTT

       1276 TTTAAAAGAA


Statistics
Matches: 37,  Mismatches: 0, Indels: 3
        0.93            0.00        0.08

Matches are distributed among these distances:
  33   19  0.51
  34   18  0.49

ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49


Consensus pattern (33 bp):   
TTTTTAAAAAATAAAAAAATCATTTTCTTCTGT

Found at i:2090 original size:21 final size:22

Alignment explanation


    Indices: 2066--2106  Score: 57
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       2056 TTTTCTTTTT

                                  
       2066 TCTTTT-TATAAATAATTTTCC
          1 TCTTTTCTATAAATAATTTTCC

                    *     *     
       2087 TCTTTTCTTTAAATTATTTT
          1 TCTTTTCTATAAATAATTTT

       2107 TTTATTCAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21    6  0.35
  22   11  0.65

ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63


Consensus pattern (22 bp):   
TCTTTTCTATAAATAATTTTCC

Done.