Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019737.1 Corchorus olitorius cultivar O-4 contig19770, 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: 21210
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34


Found at i:3367 original size:32 final size:32

Alignment explanation


    Indices: 3304--3369  Score: 80
    Period size: 32  Copynumber: 2.1  Consensus size: 32

       3294 CGCCCGAATT

                     *       *      *       
       3304 TTAAAAGGGTTTGGACATGTGTTTTAAGCCCG
          1 TTAAAAGGGCTTGGACAAGTGTTTCAAGCCCG

                                       *     
       3336 TTAAAAGGGCTTGGACAAGAT-TTTCAGGCCCG
          1 TTAAAAGGGCTTGGACAAG-TGTTTCAAGCCCG

              
       3368 TT
          1 TT

       3370 TTAAAAATGG


Statistics
Matches: 29,  Mismatches: 4, Indels: 2
        0.83            0.11        0.06

Matches are distributed among these distances:
  32   28  0.97
  33    1  0.03

ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32


Consensus pattern (32 bp):   
TTAAAAGGGCTTGGACAAGTGTTTCAAGCCCG

Found at i:11272 original size:13 final size:13

Alignment explanation


    Indices: 11254--11301  Score: 96
    Period size: 13  Copynumber: 3.7  Consensus size: 13

      11244 ACTCATATTC

                         
      11254 AATTGATTCGGAA
          1 AATTGATTCGGAA

                         
      11267 AATTGATTCGGAA
          1 AATTGATTCGGAA

                         
      11280 AATTGATTCGGAA
          1 AATTGATTCGGAA

                     
      11293 AATTGATTC
          1 AATTGATTC

      11302 TACTGTCAAG


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   35  1.00

ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33


Consensus pattern (13 bp):   
AATTGATTCGGAA

Found at i:14476 original size:13 final size:13

Alignment explanation


    Indices: 14458--14483  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

      14448 ACTTTTTTGA

                         
      14458 TAGAAATAGATAT
          1 TAGAAATAGATAT

                         
      14471 TAGAAATAGATAT
          1 TAGAAATAGATAT

      14484 AAATAAATGT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31


Consensus pattern (13 bp):   
TAGAAATAGATAT
Done.