Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021557.1 Corchorus olitorius cultivar O-4 contig21590, 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: 15629
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34


Found at i:1055 original size:76 final size:76

Alignment explanation


    Indices: 904--1047  Score: 168
    Period size: 76  Copynumber: 1.9  Consensus size: 76

        894 GACAAGACCC

                                                               *           * 
        904 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT

             *         
        969 GGGCAGTGTCA
         66 GAGCAGTGTCA

                    *     *              *                            **     
        980 CGACTCCAGCTGGGTGCCCACATGGTTTGTC-TGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGG-TTGCCTTG-AGCACCCATGTGGTTT-GCCTGAGAACCCA

                  
       1042 GATGAG
         63 GATGAG

       1048 TTGTGTCATA


Statistics
Matches: 57,  Mismatches: 8, Indels: 6
        0.80            0.11        0.08

Matches are distributed among these distances:
  75    4  0.07
  76   47  0.82
  77    6  0.11

ACGTcount: A:0.18, C:0.30, G:0.28, T:0.24


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCCTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GAGCAGTGTCA

Found at i:1849 original size:20 final size:20

Alignment explanation


    Indices: 1824--1865  Score: 59
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       1814 TTTCCTAAAG

                                 
       1824 AATCAAAGAAGAA-GAACCTA
          1 AATCAAAG-AGAACGAACCTA

                           *    
       1844 AATCAAAGAGAACGACCCTA
          1 AATCAAAGAGAACGAACCTA

              
       1864 AA
          1 AA

       1866 CCCTTGTTTT


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  19    4  0.20
  20   16  0.80

ACGTcount: A:0.57, C:0.19, G:0.14, T:0.10


Consensus pattern (20 bp):   
AATCAAAGAGAACGAACCTA
Done.