Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007524.1 Corchorus olitorius cultivar O-4 contig07549, 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: 2316
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36


Found at i:2209 original size:43 final size:43

Alignment explanation


    Indices: 2017--2316  Score: 336
    Period size: 43  Copynumber: 6.9  Consensus size: 43

       2007 GTTTTCTCTC

                                **  *        * *       *
       2017 TTTCCAAAAATG-CCCTTCCCAGTCGGAAGGTCACAGTTTTCTC
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTC-A

                                            *     *        
       2060 TCTTGCCAAAAATGCCCCTTCCTGGTTGGAAGATCCCTCTATTCTC-
          1 T-TT-CCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGT-TT-TCA

                                             ** *  *   
       2106 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCTTTATTGTC-
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA

               *                *                      
       2148 TTTTCAAAAATGCCCCTTCCGGGTTGGAAGGTCCCTGTTTTCA
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA

                      **                               
       2191 TTTCCAAAAAAACCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA

                      **        **                     
       2234 TTTCCAAAAAAACCCCTTCCCAGTTGGAAGGTCCCTGTTTTCA
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA

                      *                       *     
       2277 TTTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTGTTT
          1 TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTT


Statistics
Matches: 222,  Mismatches: 29, Indels: 12
        0.84            0.11        0.05

Matches are distributed among these distances:
  42   38  0.17
  43  117  0.53
  44   33  0.15
  45   11  0.05
  46   19  0.09
  47    2  0.01
  48    2  0.01

ACGTcount: A:0.21, C:0.28, G:0.17, T:0.33


Consensus pattern (43 bp):   
TTTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTGTTTTCA

Done.