Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007355.1 Corchorus olitorius cultivar O-4 contig07380, 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: 2342
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30


Found at i:666 original size:15 final size:15

Alignment explanation


    Indices: 648--680  Score: 50
    Period size: 15  Copynumber: 2.2  Consensus size: 15

        638 AACAGAGGTG

                            
        648 AGAGGAACA-AGAAGA
          1 AGAGG-ACAGAGAAGA

                           
        663 AGAGGACAGAGAAGA
          1 AGAGGACAGAGAAGA

               
        678 AGA
          1 AGA

        681 AGAAGATTTG


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    3  0.18
  15   14  0.82

ACGTcount: A:0.58, C:0.06, G:0.36, T:0.00


Consensus pattern (15 bp):   
AGAGGACAGAGAAGA

Found at i:2319 original size:16 final size:15

Alignment explanation


    Indices: 2288--2335  Score: 51
    Period size: 15  Copynumber: 3.1  Consensus size: 15

       2278 GGTTAATCAC

                 *         
       2288 AATAATTAAATTTTA
          1 AATAAATAAATTTTA

                            
       2303 AATAAATAAATTTTTA
          1 AATAAATAAA-TTTTA

             * *     *     
       2319 ACTTAATAAGTTTTA
          1 AATAAATAAATTTTA

              
       2334 AA
          1 AA

       2336 AATGATG


Statistics
Matches: 27,  Mismatches: 5, Indels: 2
        0.79            0.15        0.06

Matches are distributed among these distances:
  15   15  0.56
  16   12  0.44

ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44


Consensus pattern (15 bp):   
AATAAATAAATTTTA
Done.