Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015733.1 Corchorus olitorius cultivar O-4 contig15766, 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: 3891
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35


Found at i:1193 original size:35 final size:36

Alignment explanation


    Indices: 1146--1227  Score: 114
    Period size: 36  Copynumber: 2.3  Consensus size: 36

       1136 GGCCTGGCGC

                                               *  
       1146 GGCCCAAGCGCCCAGGCC-AG-GCGCGGGCCAGCGTAT
          1 GGCCC-AGCGCCCAGGCCTAGTGCGCGGGCCAGC-CAT

                              *                 
       1182 GGCCCAGCGCCCAGGCCTGGTGCGCGGGCCAGCCAT
          1 GGCCCAGCGCCCAGGCCTAGTGCGCGGGCCAGCCAT

                      
       1218 GGCCCAGCGC
          1 GGCCCAGCGC

       1228 TCAAGCTTGG


Statistics
Matches: 42,  Mismatches: 2, Indels: 4
        0.88            0.04        0.08

Matches are distributed among these distances:
  35   12  0.29
  36   18  0.43
  37   12  0.29

ACGTcount: A:0.13, C:0.41, G:0.39, T:0.06


Consensus pattern (36 bp):   
GGCCCAGCGCCCAGGCCTAGTGCGCGGGCCAGCCAT

Found at i:3419 original size:36 final size:36

Alignment explanation


    Indices: 3372--3441  Score: 113
    Period size: 36  Copynumber: 1.9  Consensus size: 36

       3362 TTCAATAACC

                         *      *               
       3372 TTACATCTTTTGTGATTTTGGTTATCATATTTCTTA
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCTTA

                  *                           
       3408 TTACATTTTTTGTAATTTTGATTATCATATTTCT
          1 TTACATCTTTTGTAATTTTGATTATCATATTTCT

       3442 CCAAAATCTC


Statistics
Matches: 31,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  36   31  1.00

ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60


Consensus pattern (36 bp):   
TTACATCTTTTGTAATTTTGATTATCATATTTCTTA
Done.