Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004725.1 Kokia drynarioides strain JFW-HI SEQ_118302, 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: 3862
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34


Found at i:435 original size:7 final size:7

Alignment explanation


    Indices: 423--454  Score: 50
    Period size: 6  Copynumber: 4.9  Consensus size: 7

        413 GATTACTTTG

                   
        423 TTATTTT
          1 TTATTTT

                   
        430 TTA-TTT
          1 TTATTTT

                   
        436 TTA-TTT
          1 TTATTTT

                   
        442 TTATTTT
          1 TTATTTT

                  
        449 TTATTT
          1 TTATTT

        455 GCTATAAATA


Statistics
Matches: 24,  Mismatches: 0, Indels: 2
        0.92            0.00        0.08

Matches are distributed among these distances:
   6   12  0.50
   7   12  0.50

ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84


Consensus pattern (7 bp):   
TTATTTT

Found at i:473 original size:11 final size:11

Alignment explanation


    Indices: 457--488  Score: 50
    Period size: 11  Copynumber: 3.1  Consensus size: 11

        447 TTTTATTTGC

                       
        457 TATAAATATTT
          1 TATAAATATTT

                       
        468 TATAAATA-TT
          1 TATAAATATTT

                       
        478 TA-AAATATTT
          1 TATAAATATTT

             
        488 T
          1 T

        489 TTATTTTTAT


Statistics
Matches: 20,  Mismatches: 0, Indels: 3
        0.87            0.00        0.13

Matches are distributed among these distances:
   9    5  0.25
  10    7  0.35
  11    8  0.40

ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53


Consensus pattern (11 bp):   
TATAAATATTT

Found at i:1029 original size:25 final size:25

Alignment explanation


    Indices: 970--1032  Score: 67
    Period size: 24  Copynumber: 2.6  Consensus size: 25

        960 ATATGAATTA

                       *             
        970 TTATAATAAAATTTATTTAAATATT
          1 TTATAATAAAAATTATTTAAATATT

            **  *                     
        995 GCATGA-AAAAATTATTTAAATATAT
          1 TTATAATAAAAATTATTTAAATAT-T

                          
       1020 TTAT-ATAAAAATT
          1 TTATAATAAAAATT

       1033 TTAATATGCA


Statistics
Matches: 30,  Mismatches: 6, Indels: 4
        0.75            0.15        0.10

Matches are distributed among these distances:
  24   17  0.57
  25   13  0.43

ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44


Consensus pattern (25 bp):   
TTATAATAAAAATTATTTAAATATT
Done.