Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002032.1 Corchorus olitorius cultivar O-4 contig02032, 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: 2310
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35


Found at i:1621 original size:11 final size:10

Alignment explanation


    Indices: 1590--1620  Score: 62
    Period size: 10  Copynumber: 3.1  Consensus size: 10

       1580 CAATATGTCA

                      
       1590 TCTTTTTTTT
          1 TCTTTTTTTT

                      
       1600 TCTTTTTTTT
          1 TCTTTTTTTT

                      
       1610 TCTTTTTTTT
          1 TCTTTTTTTT

             
       1620 T
          1 T

       1621 TTACATAAAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   21  1.00

ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90


Consensus pattern (10 bp):   
TCTTTTTTTT

Found at i:1985 original size:21 final size:21

Alignment explanation


    Indices: 1961--2000  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1951 GTGATTTTTT

                        *        
       1961 ATTTAAAAAAAATAAAATAAA
          1 ATTTAAAAAAAAGAAAATAAA

                *  *           
       1982 ATTTCAATAAAAGAAAATA
          1 ATTTAAAAAAAAGAAAATA

       2001 TATTAAAATA


Statistics
Matches: 16,  Mismatches: 3, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  21   16  1.00

ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25


Consensus pattern (21 bp):   
ATTTAAAAAAAAGAAAATAAA

Found at i:1992 original size:16 final size:15

Alignment explanation


    Indices: 1971--2013  Score: 50
    Period size: 16  Copynumber: 2.8  Consensus size: 15

       1961 ATTTAAAAAA

                         * 
       1971 AATAAAATAAAATTT
          1 AATAAAATAAAATAT

                    *       
       1986 CAATAAAAGAAAATAT
          1 -AATAAAATAAAATAT

             *          
       2002 ATTAAAATAAAA
          1 AATAAAATAAAA

       2014 AATATTTAAT


Statistics
Matches: 23,  Mismatches: 4, Indels: 1
        0.82            0.14        0.04

Matches are distributed among these distances:
  15   10  0.43
  16   13  0.57

ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26


Consensus pattern (15 bp):   
AATAAAATAAAATAT
Done.