Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01022419.1 Corchorus olitorius cultivar O-4 contig22452, 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: 23557
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33


Found at i:16096 original size:37 final size:37

Alignment explanation


    Indices: 15986--16096  Score: 118
    Period size: 37  Copynumber: 3.0  Consensus size: 37

      15976 TGAAATCGAG

                  *   *              **   *      
      15986 TTACATTGAATTCCAAATGAGTGAAATTCTCCGAATA
          1 TTACATCGAACTCCAAATGAGTGAAGCTCTTCGAATA

                    *          *                   
      16023 TTACA-CTAAACTCCAAATAAGTGAAGC-CGTTCGAATA
          1 TTACATC-GAACTCCAAATGAGTGAAGCTC-TTCGAATA

                                           *     
      16060 TTACATCGAACTCCAAATGAGTGAAGCTCTTTGAATA
          1 TTACATCGAACTCCAAATGAGTGAAGCTCTTCGAATA

      16097 ACAATTTTCT


Statistics
Matches: 60,  Mismatches: 10, Indels: 8
        0.77            0.13        0.10

Matches are distributed among these distances:
  36    1  0.02
  37   57  0.95
  38    2  0.03

ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29


Consensus pattern (37 bp):   
TTACATCGAACTCCAAATGAGTGAAGCTCTTCGAATA

Found at i:18120 original size:17 final size:17

Alignment explanation


    Indices: 18098--18134  Score: 74
    Period size: 17  Copynumber: 2.2  Consensus size: 17

      18088 ATATTTTCAC

                             
      18098 ATTCCAATTAATCTGCA
          1 ATTCCAATTAATCTGCA

                             
      18115 ATTCCAATTAATCTGCA
          1 ATTCCAATTAATCTGCA

               
      18132 ATT
          1 ATT

      18135 TGAGCCGTGT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  17   20  1.00

ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38


Consensus pattern (17 bp):   
ATTCCAATTAATCTGCA
Done.