Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007858.1 Kokia drynarioides strain JFW-HI SEQ_122497, 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: 8355
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31


Found at i:3669 original size:91 final size:90

Alignment explanation


    Indices: 3514--3679  Score: 244
    Period size: 91  Copynumber: 1.8  Consensus size: 90

       3504 CACTCCAGTT

                   *                        *                         **     
       3514 TGTGGATGAACCACAAGTGTTGCAGGTCAATATGCTGCCAATAGTTGTGAATACACAATGGGTTT
          1 TGTGGATAAACCACAAGTGTTGCAGGTCAATACGCTGCCAATAGTTGTGAATACACAAAAGGTTT

                                     
       3579 GCAGATAAAAACTACCAGTAAAAGA
         66 GCAGATAAAAACTACCAGTAAAAGA

                          *    *        *                                    
       3604 TGTGGATAAACCACTAGTATTTGCAGGTTAATACGC-GACCAATAGTTGTGAATACACAAAAGGT
          1 TGTGGATAAACCACAAGT-GTTGCAGGTCAATACGCTG-CCAATAGTTGTGAATACACAAAAGGT

                        
       3668 TTGCAGATAAAA
         64 TTGCAGATAAAA

       3680 GCTGCCAATA


Statistics
Matches: 67,  Mismatches: 7, Indels: 3
        0.87            0.09        0.04

Matches are distributed among these distances:
  90   17  0.25
  91   50  0.75

ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25


Consensus pattern (90 bp):   
TGTGGATAAACCACAAGTGTTGCAGGTCAATACGCTGCCAATAGTTGTGAATACACAAAAGGTTT
GCAGATAAAAACTACCAGTAAAAGA

Found at i:6723 original size:12 final size:12

Alignment explanation


    Indices: 6706--6735  Score: 51
    Period size: 12  Copynumber: 2.5  Consensus size: 12

       6696 TCAGTGTTCT

                      * 
       6706 TGGTGGCAGCTG
          1 TGGTGGCAGCGG

                        
       6718 TGGTGGCAGCGG
          1 TGGTGGCAGCGG

                  
       6730 TGGTGG
          1 TGGTGG

       6736 GTGTTACGCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  12   17  1.00

ACGTcount: A:0.07, C:0.13, G:0.57, T:0.23


Consensus pattern (12 bp):   
TGGTGGCAGCGG
Done.