Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009078.1 Kokia drynarioides strain JFW-HI SEQ_123778, 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: 7175
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33


Found at i:3148 original size:21 final size:20

Alignment explanation


    Indices: 3122--3170  Score: 62
    Period size: 20  Copynumber: 2.4  Consensus size: 20

       3112 CTTTCTTGGC

                        *        
       3122 TCTTTTCTCTCATTTTTCCTT
          1 TCTTTT-TCTCAATTTTCCTT

                   *         *  
       3143 TCTTTTTTTCAATTTTCTTT
          1 TCTTTTTCTCAATTTTCCTT

                    
       3163 TCTTTTTC
          1 TCTTTTTC

       3171 ATTCTCACTC


Statistics
Matches: 24,  Mismatches: 4, Indels: 1
        0.83            0.14        0.03

Matches are distributed among these distances:
  20   18  0.75
  21    6  0.25

ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71


Consensus pattern (20 bp):   
TCTTTTTCTCAATTTTCCTT

Found at i:3335 original size:35 final size:35

Alignment explanation


    Indices: 3289--3358  Score: 140
    Period size: 35  Copynumber: 2.0  Consensus size: 35

       3279 CAAATGTTTG

                                               
       3289 AAAGTATACCGGTTGGTATAGCCATCGTGAATAAC
          1 AAAGTATACCGGTTGGTATAGCCATCGTGAATAAC

                                               
       3324 AAAGTATACCGGTTGGTATAGCCATCGTGAATAAC
          1 AAAGTATACCGGTTGGTATAGCCATCGTGAATAAC

       3359 TCGCCTATCA


Statistics
Matches: 35,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  35   35  1.00

ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26


Consensus pattern (35 bp):   
AAAGTATACCGGTTGGTATAGCCATCGTGAATAAC

Found at i:6425 original size:32 final size:32

Alignment explanation


    Indices: 6388--6450  Score: 90
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       6378 GCCATCCGTA

                         * *                
       6388 CATGTACATGAAATATATTAATCAGCTAATTG
          1 CATGTACATGAAACACATTAATCAGCTAATTG

                   *                *      
       6420 CATGTACCTGAAACACATTAATCATCTAATT
          1 CATGTACATGAAACACATTAATCAGCTAATT

       6451 AATTTCAGCT


Statistics
Matches: 27,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  32   27  1.00

ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33


Consensus pattern (32 bp):   
CATGTACATGAAACACATTAATCAGCTAATTG
Done.