Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000577.1 Kokia drynarioides strain JFW-HI SEQ_111500, 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, 703

Length: 1173
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31


Found at i:393 original size:16 final size:15

Alignment explanation


    Indices: 356--413  Score: 55
    Period size: 16  Copynumber: 3.7  Consensus size: 15

        346 ATCTAAGAAA

                         *  
        356 AAATAAAAGA-AACAG
          1 AAATAAAA-ATAAAAG

              *            
        371 AATTAAAAATAAAAG
          1 AAATAAAAATAAAAG

                     *      
        386 AAAATAAAATTAAAAG
          1 -AAATAAAAATAAAAG

                        
        402 AAATAGAAAATA
          1 AAATA-AAAATA

        414 GGAAAGTAGA


Statistics
Matches: 35,  Mismatches: 5, Indels: 5
        0.78            0.11        0.11

Matches are distributed among these distances:
  14    1  0.03
  15   16  0.46
  16   18  0.51

ACGTcount: A:0.74, C:0.02, G:0.09, T:0.16


Consensus pattern (15 bp):   
AAATAAAAATAAAAG

Found at i:400 original size:21 final size:22

Alignment explanation


    Indices: 354--413  Score: 70
    Period size: 22  Copynumber: 2.8  Consensus size: 22

        344 CGATCTAAGA

                           * *    
        354 AAAAATAAAAG-AAACAGAATT
          1 AAAAATAAAAGAAAATAAAATT

                                  
        375 AAAAATAAAAGAAAATAAAATT
          1 AAAAATAAAAGAAAATAAAATT

                     *        
        397 AAAAGA-AATAGAAAATA
          1 AAAA-ATAAAAGAAAATA

        414 GGAAAGTAGA


Statistics
Matches: 34,  Mismatches: 3, Indels: 3
        0.85            0.08        0.08

Matches are distributed among these distances:
  21   11  0.32
  22   22  0.65
  23    1  0.03

ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15


Consensus pattern (22 bp):   
AAAAATAAAAGAAAATAAAATT
Done.