Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018715.1 Corchorus olitorius cultivar O-4 contig18748, 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: 10328
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31


Found at i:317 original size:49 final size:48

Alignment explanation


    Indices: 216--357  Score: 164
    Period size: 49  Copynumber: 3.0  Consensus size: 48

        206 GAGCGTGCCA

                        *         *          *       *      
        216 ATCAATTTTGTCAAAAAATTGATAAAAA-ATGCGATGAAAATTAAAAG
          1 ATCAATTTTGTCTAAAAATTGAGAAAAAGATGCAATGAAAAATAAAAG

                                                              
        263 ATCAATTTTGTCTTAAAAATTGAGAAAAAGATGCAA-GTAAAAATAAAAG
          1 ATCAATTTTGTC-TAAAAATTGAGAAAAAGATGCAATG-AAAAATAAAAG

            *           *                      *      *    
        312 TTCAATTTTGTAGTAAAAATTGAGAAAAAG-TGCAGTGAAAAGTAAA
          1 ATCAATTTTGT-CTAAAAATTGAGAAAAAGATGCAATGAAAAATAAA

        358 GGATTGCTTG


Statistics
Matches: 82,  Mismatches: 8, Indels: 9
        0.83            0.08        0.09

Matches are distributed among these distances:
  47   12  0.15
  48   27  0.33
  49   43  0.52

ACGTcount: A:0.51, C:0.06, G:0.15, T:0.27


Consensus pattern (48 bp):   
ATCAATTTTGTCTAAAAATTGAGAAAAAGATGCAATGAAAAATAAAAG

Found at i:10139 original size:43 final size:43

Alignment explanation


    Indices: 10091--10178  Score: 167
    Period size: 43  Copynumber: 2.0  Consensus size: 43

      10081 CTCACTAAGT

                   *                                   
      10091 GAGTATGGTACCAAGTGAGTATTTTGTTGGGTGAGTAGGGTAG
          1 GAGTATGATACCAAGTGAGTATTTTGTTGGGTGAGTAGGGTAG

                                                       
      10134 GAGTATGATACCAAGTGAGTATTTTGTTGGGTGAGTAGGGTAG
          1 GAGTATGATACCAAGTGAGTATTTTGTTGGGTGAGTAGGGTAG

              
      10177 GA
          1 GA

      10179 ACACGTCACT


Statistics
Matches: 44,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  43   44  1.00

ACGTcount: A:0.25, C:0.05, G:0.39, T:0.32


Consensus pattern (43 bp):   
GAGTATGATACCAAGTGAGTATTTTGTTGGGTGAGTAGGGTAG
Done.