Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007563.1 Kokia drynarioides strain JFW-HI SEQ_122191, 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: 4371
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32


Found at i:2972 original size:26 final size:26

Alignment explanation


    Indices: 2942--3082  Score: 151
    Period size: 26  Copynumber: 5.4  Consensus size: 26

       2932 AATAAGTGAA

                 *                    
       2942 TCGAGTCGGTGAATAAATAGCAGGCT
          1 TCGAGCCGGTGAATAAATAGCAGGCT

                  *        *           
       2968 TCGAGCTGGTGAATATATAGCAGGCCT
          1 TCGAGCCGGTGAATAAATAGCAGG-CT

                                  *   
       2995 T-GAGCCGGTGAATAAATAGCAAGCT
          1 TCGAGCCGGTGAATAAATAGCAGGCT

                    *                 
       3020 TCGAGCCGATGAATAAATAGCAGGCT
          1 TCGAGCCGGTGAATAAATAGCAGGCT

              *  ***    *  *          
       3046 TCAAGATAGTGATTATATAGCAGGCT
          1 TCGAGCCGGTGAATAAATAGCAGGCT

                        
       3072 TCGTA-CCGGTG
          1 TCG-AGCCGGTG

       3083 TTTGGTTGAC


Statistics
Matches: 93,  Mismatches: 19, Indels: 6
        0.79            0.16        0.05

Matches are distributed among these distances:
  25    3  0.03
  26   86  0.92
  27    4  0.04

ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24


Consensus pattern (26 bp):   
TCGAGCCGGTGAATAAATAGCAGGCT

Found at i:4055 original size:20 final size:20

Alignment explanation


    Indices: 4022--4074  Score: 56
    Period size: 21  Copynumber: 2.6  Consensus size: 20

       4012 CTGTTTCACC

                                  
       4022 AATTC-TTCCTAACTT-CTCTT
          1 AATTCATTCC-AACTTACT-TT

                                 
       4042 AATTCATTCCAACTTGACTTT
          1 AATTCATTCCAACTT-ACTTT

               *        
       4063 AATCCATTCCAA
          1 AATTCATTCCAA

       4075 ATGATAAATA


Statistics
Matches: 29,  Mismatches: 1, Indels: 5
        0.83            0.03        0.14

Matches are distributed among these distances:
  20   10  0.34
  21   17  0.59
  22    2  0.07

ACGTcount: A:0.28, C:0.28, G:0.02, T:0.42


Consensus pattern (20 bp):   
AATTCATTCCAACTTACTTT
Done.