Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021834.1 Corchorus olitorius cultivar O-4 contig21867, 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: 2825
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31


Found at i:750 original size:33 final size:33

Alignment explanation


    Indices: 678--756  Score: 81
    Period size: 33  Copynumber: 2.4  Consensus size: 33

        668 CTATGATCAA

                *                     ** *   
        678 CCAAGACAGATTTGTTTTCATCACAATTAGCAT
          1 CCAAAACAGATTTGTTTTCATCACAAACAACAT

                                              
        711 CCAAAACAGAATTTG-TTTCATCACAAACAACA-
          1 CCAAAACAG-ATTTGTTTTCATCACAAACAACAT

                    *     
        743 CCTAAAACGGATTT
          1 CC-AAAACAGATTT

        757 CATGTCATTG


Statistics
Matches: 39,  Mismatches: 5, Indels: 5
        0.80            0.10        0.10

Matches are distributed among these distances:
  32    6  0.15
  33   28  0.72
  34    5  0.13

ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28


Consensus pattern (33 bp):   
CCAAAACAGATTTGTTTTCATCACAAACAACAT

Found at i:1394 original size:15 final size:15

Alignment explanation


    Indices: 1374--1405  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       1364 AAACTAAGTG

                           
       1374 GAGCTTGTTGATTTT
          1 GAGCTTGTTGATTTT

                           
       1389 GAGCTTGTTGATTTT
          1 GAGCTTGTTGATTTT

              
       1404 GA
          1 GA

       1406 ACCCCCAAGG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.16, C:0.06, G:0.28, T:0.50


Consensus pattern (15 bp):   
GAGCTTGTTGATTTT
Done.