Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021182.1 Corchorus olitorius cultivar O-4 contig21215, 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: 1869
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41


Found at i:1176 original size:17 final size:17

Alignment explanation


    Indices: 1151--1183  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       1141 TATGTTCATT

                             
       1151 TATTAACCTTATTAAGG
          1 TATTAACCTTATTAAGG

                *           
       1168 TATTGACCTTATTAAG
          1 TATTAACCTTATTAAG

       1184 TTTATTATTG


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42


Consensus pattern (17 bp):   
TATTAACCTTATTAAGG

Found at i:1281 original size:20 final size:20

Alignment explanation


    Indices: 1255--1311  Score: 71
    Period size: 20  Copynumber: 2.9  Consensus size: 20

       1245 TATTATAAGT

                                
       1255 ATTTTTAGTAACCTTATTAA
          1 ATTTTTAGTAACCTTATTAA

            *              *    
       1275 GTTTTTAGTAA-CTTTTTAA
          1 ATTTTTAGTAACCTTATTAA

                       *      
       1294 ATATTTTAGTATCCTTAT
          1 AT-TTTTAGTAACCTTAT

       1312 ATATTTTCTC


Statistics
Matches: 30,  Mismatches: 5, Indels: 3
        0.79            0.13        0.08

Matches are distributed among these distances:
  19    8  0.27
  20   18  0.60
  21    4  0.13

ACGTcount: A:0.30, C:0.09, G:0.07, T:0.54


Consensus pattern (20 bp):   
ATTTTTAGTAACCTTATTAA
Done.