Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005514.1 Kokia drynarioides strain JFW-HI SEQ_119593, 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, 649

Length: 1082
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.38


Found at i:558 original size:66 final size:67

Alignment explanation


    Indices: 450--585  Score: 213
    Period size: 66  Copynumber: 2.0  Consensus size: 67

        440 CTTTATCATT

                      *                *                        *            
        450 TAATAAAATAGAAGTTTACTTTGAATTTTTTTGTACACATTATTTTTATATTGTATCATTTAATA
          1 TAATAAAATAAAAGTTTA-TTTGAATTATTTTGTACACATTATTTTTATATTCTATCATTTAATA

               
        515 AAA
         65 AAA

                                                                             
        518 TAATAAAATAAAAGTTCT-TTTGAA-TATTTTGTACACATTATTTTTATATTCTATCATTTAATA
          1 TAATAAAATAAAAGTT-TATTTGAATTATTTTGTACACATTATTTTTATATTCTATCATTTAATA

               
        581 AAA
         65 AAA

              
        584 TA
          1 TA

        586 GAAGTTTACT


Statistics
Matches: 64,  Mismatches: 3, Indels: 4
        0.90            0.04        0.06

Matches are distributed among these distances:
  66   42  0.66
  67    6  0.09
  68   15  0.23
  69    1  0.02

ACGTcount: A:0.40, C:0.07, G:0.06, T:0.48


Consensus pattern (67 bp):   
TAATAAAATAAAAGTTTATTTGAATTATTTTGTACACATTATTTTTATATTCTATCATTTAATAA
AA

Found at i:622 original size:60 final size:59

Alignment explanation


    Indices: 518--657  Score: 196
    Period size: 60  Copynumber: 2.4  Consensus size: 59

        508 TTTAATAAAA

                      *                                                  
        518 TAATAAAATAAAAG-TT-CTTTTGAATATTTTGTACACATTATTTTTATATT-CTATCATT
          1 TAATAAAATAGAAGTTTAC-TTTGAATATTTTGTACACATTATTTTTATATTGC-ATCATT

                                                     *                  
        576 TAATAAAATAGAAGTTTACTTTGAATATTTTTGTACACATTCTTTTTATATTGCATCATT
          1 TAATAAAATAGAAGTTTACTTTGAATA-TTTTGTACACATTATTTTTATATTGCATCATT

                *                 
        636 TAAAAAAAATAGAAGTTTACTT
          1 T-AATAAAATAGAAGTTTACTT

        658 CTTCATTTAG


Statistics
Matches: 74,  Mismatches: 3, Indels: 7
        0.88            0.04        0.08

Matches are distributed among these distances:
  58   13  0.18
  59   10  0.14
  60   31  0.42
  61   20  0.27

ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46


Consensus pattern (59 bp):   
TAATAAAATAGAAGTTTACTTTGAATATTTTGTACACATTATTTTTATATTGCATCATT
Done.