Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01001498.1 Corchorus capsularis cultivar CVL-1 contig01498, 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: 2141
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29


Found at i:1057 original size:56 final size:59

Alignment explanation


    Indices: 952--1103  Score: 188
    Period size: 59  Copynumber: 2.6  Consensus size: 59

        942 TAAGATATTG

                                                  **  *                  
        952 AATTTTT--AAAATATAGTTATAAAGAGAAGAGTCGCGTGCAGTAAGAAAACC-AT-TAC-
          1 AATTTTTACAAAATATAGTTATAAAGAGAAGA--CGCGCACAATAAGAAAACCGATATACA

                             *                                  *      
       1008 AATTTTTACAAAATATAATTATAAAGAGAAGACGCGCACAATAAGAAAACCGTTATACA
          1 AATTTTTACAAAATATAGTTATAAAGAGAAGACGCGCACAATAAGAAAACCGATATACA

                        *          *             
       1067 AATTTTTACAAATTATAGTTATATAGAGAAGACGCGC
          1 AATTTTTACAAAATATAGTTATAAAGAGAAGACGCGC

       1104 GCATTGTACT


Statistics
Matches: 83,  Mismatches: 8, Indels: 7
        0.85            0.08        0.07

Matches are distributed among these distances:
  56   23  0.28
  57    1  0.01
  58   25  0.30
  59   34  0.41

ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27


Consensus pattern (59 bp):   
AATTTTTACAAAATATAGTTATAAAGAGAAGACGCGCACAATAAGAAAACCGATATACA

Found at i:1133 original size:29 final size:29

Alignment explanation


    Indices: 1091--1149  Score: 100
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       1081 ATAGTTATAT

                     *           *       
       1091 AGAGAAGACGCGCGCATTGTACTGATAAC
          1 AGAGAAGACACGCGCATTGTAATGATAAC

                                         
       1120 AGAGAAGACACGCGCATTGTAATGATAAC
          1 AGAGAAGACACGCGCATTGTAATGATAAC

             
       1149 A
          1 A

       1150 AATATTTGCC


Statistics
Matches: 28,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  29   28  1.00

ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17


Consensus pattern (29 bp):   
AGAGAAGACACGCGCATTGTAATGATAAC
Done.