Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001539.1 Kokia drynarioides strain JFW-HI SEQ_113111, 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: 5943
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35


Found at i:112 original size:26 final size:26

Alignment explanation


    Indices: 72--169  Score: 142
    Period size: 26  Copynumber: 3.8  Consensus size: 26

         62 TTTTTTTAGA

                      *          *    
         72 AATTTTATCAAGGGTAAAATCGTTAT
          1 AATTTTATCAGGGGTAAAATCATTAT

                    *                 
         98 AATTTTATTAGGGGTAAAATCATTAT
          1 AATTTTATCAGGGGTAAAATCATTAT

                                   *  
        124 AATTTTATCAGGGGTAAAATCATGAT
          1 AATTTTATCAGGGGTAAAATCATTAT

                    **          
        150 AATTTTATTGGGGGTAAAAT
          1 AATTTTATCAGGGGTAAAAT

        170 TATCATGCCT


Statistics
Matches: 65,  Mismatches: 7, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  26   65  1.00

ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39


Consensus pattern (26 bp):   
AATTTTATCAGGGGTAAAATCATTAT

Found at i:183 original size:52 final size:52

Alignment explanation


    Indices: 75--195  Score: 145
    Period size: 52  Copynumber: 2.3  Consensus size: 52

         65 TTTTAGAAAT

                   *          * *                         *    *
         75 TTTATCAAGGGTAAAATCGTTATAATTTTATTAGGGGTAAAATCATTATAAT
          1 TTTATCAGGGGTAAAATCATGATAATTTTATTAGGGGTAAAATCATCATAAC

                                            *          *     ** 
        127 TTTATCAGGGGTAAAATCATGATAATTTTATTGGGGGTAAAATTATCATGCC
          1 TTTATCAGGGGTAAAATCATGATAATTTTATTAGGGGTAAAATCATCATAAC

                              
        179 TTTATC-GAGGGTAAAAT
          1 TTTATCAG-GGGTAAAAT

        196 TGGGATGAGA


Statistics
Matches: 59,  Mismatches: 9, Indels: 2
        0.84            0.13        0.03

Matches are distributed among these distances:
  51    1  0.02
  52   58  0.98

ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38


Consensus pattern (52 bp):   
TTTATCAGGGGTAAAATCATGATAATTTTATTAGGGGTAAAATCATCATAAC
Done.