Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008955.1 Kokia drynarioides strain JFW-HI SEQ_123651, 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, 625

Length: 1043
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.43


Found at i:788 original size:15 final size:15

Alignment explanation


    Indices: 745--809  Score: 62
    Period size: 15  Copynumber: 4.2  Consensus size: 15

        735 GAAGCCAAAC

                           *
        745 ATTATTTAAATAA-AT
          1 ATTATTT-AATAATAA

                    *      
        760 ATTATTT-TTAATAA
          1 ATTATTTAATAATAA

                            
        774 ATTATTTAATAATAAA
          1 ATTATTTAATAAT-AA

                             
        790 ATTTATTTTAATAATAA
          1 A-TTA-TTTAATAATAA

               
        807 ATT
          1 ATT

        810 GTAATATATT


Statistics
Matches: 42,  Mismatches: 3, Indels: 9
        0.78            0.06        0.17

Matches are distributed among these distances:
  13    3  0.07
  14    8  0.19
  15   11  0.26
  16    5  0.12
  17    6  0.14
  18    9  0.21

ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51


Consensus pattern (15 bp):   
ATTATTTAATAATAA

Found at i:893 original size:18 final size:19

Alignment explanation


    Indices: 870--920  Score: 68
    Period size: 19  Copynumber: 2.7  Consensus size: 19

        860 ATGTTTAAAA

                          *    
        870 TTTATTATTAAA-ATTTAT
          1 TTTATTATTAAATAATTAT

                               
        888 TTTATTATTAAATAATTAT
          1 TTTATTATTAAATAATTAT

             *     *      
        907 TATATTAATAAATA
          1 TTTATTATTAAATA

        921 TACATAATTA


Statistics
Matches: 29,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  18   12  0.41
  19   17  0.59

ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55


Consensus pattern (19 bp):   
TTTATTATTAAATAATTAT

Found at i:894 original size:15 final size:13

Alignment explanation


    Indices: 864--888  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        854 AAGAATATGT

                         
        864 TTAAAATTTATTA
          1 TTAAAATTTATTA

                        
        877 TTAAAATTTATT
          1 TTAAAATTTATT

        889 TTATTATTAA


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56


Consensus pattern (13 bp):   
TTAAAATTTATTA

Done.