Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013280.1 Corchorus olitorius cultivar O-4 contig13313, 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: 5508
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30


Found at i:1235 original size:21 final size:21

Alignment explanation


    Indices: 1214--1255  Score: 57
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       1204 GCCCACATGG

                      *     *     
       1214 TTGCGTTGAGCACCCATGTGGT
          1 TTGC-TTGAGAACCCAGGTGGT

                                
       1236 TTGCTTGAGAACCCAGGTGG
          1 TTGCTTGAGAACCCAGGTGG

       1256 GCAGTGTCAC


Statistics
Matches: 18,  Mismatches: 2, Indels: 1
        0.86            0.10        0.05

Matches are distributed among these distances:
  21   14  0.78
  22    4  0.22

ACGTcount: A:0.17, C:0.21, G:0.33, T:0.29


Consensus pattern (21 bp):   
TTGCTTGAGAACCCAGGTGGT

Found at i:1326 original size:76 final size:76

Alignment explanation


    Indices: 1189--1340  Score: 175
    Period size: 76  Copynumber: 2.0  Consensus size: 76

       1179 ACAAGGACCC

                  *                                            *           * 
       1189 CGACTCTACCTGGGCGCCCACATGGTTGCGTTGAGCACCCATGTGGTTTGCTTGAGAACCCAGGT
          1 CGACTCCACCTGGGCGCCCACATGGTTGCGTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT

                       
       1254 GGGCAGTGTCA
         66 GGGCAGTGTCA

                    *     *             *                             **     
       1265 CGACTCCAGCTGGGTGCCCACATGGTT-TGTCTGAAG-ACCCATGT-GTTTCGCCTGATCACCCA
          1 CGACTCCACCTGGGCGCCCACATGGTTGCGT-TG-AGCACCCATGTGGTTT-GCCTGAGAACCCA

                   *      
       1327 GATGGGCTGTGTCA
         63 GATGGGCAGTGTCA

       1341 TAGCTCATCA


Statistics
Matches: 64,  Mismatches: 9, Indels: 6
        0.81            0.11        0.08

Matches are distributed among these distances:
  75    6  0.09
  76   56  0.88
  77    2  0.03

ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25


Consensus pattern (76 bp):   
CGACTCCACCTGGGCGCCCACATGGTTGCGTTGAGCACCCATGTGGTTTGCCTGAGAACCCAGAT
GGGCAGTGTCA
Done.