Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013355.1 Kokia drynarioides strain JFW-HI SEQ_128378, 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: 398338
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32

Warning! 106 characters in sequence are not A, C, G, or T


File 2 of 2

Found at i:383989 original size:21 final size:20

Alignment explanation


    Indices: 383950--383989  Score: 53
    Period size: 21  Copynumber: 1.9  Consensus size: 20

     383940 ATCATTTTTA

                        * *     
     383950 GCATTTTTAACTTAGTGATT
          1 GCATTTTTAACTCAATGATT

                                
     383970 GCATTTTCTAACTCAATGAT
          1 GCATTTT-TAACTCAATGAT

     383990 GCTTGGTTTA


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  20    7  0.41
  21   10  0.59

ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45


Consensus pattern (20 bp):   
GCATTTTTAACTCAATGATT

Found at i:391874 original size:29 final size:29

Alignment explanation


    Indices: 391838--391895  Score: 116
    Period size: 29  Copynumber: 2.0  Consensus size: 29

     391828 TGAATGCGTG

                                         
     391838 ACAAGGTAAAGTTTAGATGAATTGTTGTA
          1 ACAAGGTAAAGTTTAGATGAATTGTTGTA

                                         
     391867 ACAAGGTAAAGTTTAGATGAATTGTTGTA
          1 ACAAGGTAAAGTTTAGATGAATTGTTGTA

     391896 GTAATAAATT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34


Consensus pattern (29 bp):   
ACAAGGTAAAGTTTAGATGAATTGTTGTA

Found at i:396933 original size:18 final size:18

Alignment explanation


    Indices: 396906--396954  Score: 91
    Period size: 18  Copynumber: 2.8  Consensus size: 18

     396896 ATAGTCAAGC

                              
     396906 TAAA-TAAAACTCTTATT
          1 TAAACTAAAACTCTTATT

                              
     396923 TAAACTAAAACTCTTATT
          1 TAAACTAAAACTCTTATT

                          
     396941 TAAACTAAAACTCT
          1 TAAACTAAAACTCT

     396955 AACTAATCTA


Statistics
Matches: 31,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  17    4  0.13
  18   27  0.87

ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37


Consensus pattern (18 bp):   
TAAACTAAAACTCTTATT

Done.