Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01000540.1 Corchorus olitorius cultivar O-4 contig00540, 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, 742

Length: 1238
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.41


Found at i:391 original size:21 final size:21

Alignment explanation


    Indices: 354--393  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        344 TAATCGGAAA

                        *        
        354 TTATTAAAAAGGTTATAAAAG
          1 TTATTAAAAAGGCTATAAAAG

                                
        375 TTATTAAAATA-GCTATAAA
          1 TTATTAAAA-AGGCTATAAA

        394 TAGCGCTCTT


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

Matches are distributed among these distances:
  21   16  0.94
  22    1  0.06

ACGTcount: A:0.53, C:0.03, G:0.10, T:0.35


Consensus pattern (21 bp):   
TTATTAAAAAGGCTATAAAAG

Found at i:734 original size:29 final size:29

Alignment explanation


    Indices: 692--757  Score: 105
    Period size: 29  Copynumber: 2.3  Consensus size: 29

        682 TAATCATTAA

                  *          * *         
        692 AATTCCGTCTACCAATATATGTGCTACAT
          1 AATTCCTTCTACCAATAAACGTGCTACAT

                                         
        721 AATTCCTTCTACCAATAAACGTGCTACAT
          1 AATTCCTTCTACCAATAAACGTGCTACAT

                    
        750 AATTCCTT
          1 AATTCCTT

        758 ATAAATGTAT


Statistics
Matches: 34,  Mismatches: 3, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  29   34  1.00

ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35


Consensus pattern (29 bp):   
AATTCCTTCTACCAATAAACGTGCTACAT
Done.