Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008529.1 Kokia drynarioides strain JFW-HI SEQ_123206, 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: 2625
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31


Found at i:946 original size:21 final size:21

Alignment explanation


    Indices: 922--975  Score: 65
    Period size: 21  Copynumber: 2.6  Consensus size: 21

        912 CCTGTGCTAG

                                  
        922 TTCTACCGATACAAGT-ATGAT
          1 TTCTACCGATACAAGTCATG-T

                    *            
        943 TTCTACCGCTACAAGTCATGT
          1 TTCTACCGATACAAGTCATGT

            **          
        964 AACTACCGATAC
          1 TTCTACCGATAC

        976 CAAAAACTCC


Statistics
Matches: 28,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  21   25  0.89
  22    3  0.11

ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30


Consensus pattern (21 bp):   
TTCTACCGATACAAGTCATGT

Found at i:1382 original size:251 final size:251

Alignment explanation


    Indices: 939--1438  Score: 849
    Period size: 251  Copynumber: 2.0  Consensus size: 251

        929 GATACAAGTA

                               *    *                       *    *           
        939 TGATTTCTACCGCTACAAGTCATGTAACTACCGATACCAAAAACTCCATAGAGCAAAAATTCATA
          1 TGATTTCTACCGCTACAAGCCATGCAACTACCGATACCAAAAACTCCAGAGAGAAAAAATTCATA

                *                  *            *                            
       1004 CCCTGCAACTTCTATCGATACAAGCTTACCTACTACCGATACATCAGTACTATGAACTATCGATA
         66 CCCTACAACTTCTATCGATACAAACTTACCTACTACAGATACATCAGTACTATGAACTATCGATA

                            *            *                                   
       1069 CCTGCAATTAAACTACTGATACAATACAAGTCAGAGAACAACCTCTCTCCTACCCTGTACTTCTA
        131 CCTGCAATTAAACTACCGATACAATACAAATCAGAGAACAACCTCTCTCCTACCCTGTACTTCTA

                                                                    
       1134 CCGATACATGAAATAATTCTACCGAAACTAGTATGCAAAATTTCATTAAAGACATC
        196 CCGATACATGAAATAATTCTACCGAAACTAGTATGCAAAATTTCATTAAAGACATC

                                          *                                  
       1190 TGATTTCTACCGCTACAAGCCATGCAACTATCGATACCAAAAACTCCAGAGAGAAAAAATTCATA
          1 TGATTTCTACCGCTACAAGCCATGCAACTACCGATACCAAAAACTCCAGAGAGAAAAAATTCATA

                                                        *                    
       1255 CCCTACAACTTCTATCGATACAAACTTACCTACTACAGATACATTAGTACTATGAACTA-CTGAT
         66 CCCTACAACTTCTATCGATACAAACTTACCTACTACAGATACATCAGTACTATGAACTATC-GAT

                       *                                                     
       1319 ACCTGCAATTAGACTACCGATACAATACAAATCAGAGAACAACCTCTCTCCTACCCTGTACTTCT
        130 ACCTGCAATTAAACTACCGATACAATACAAATCAGAGAACAACCTCTCTCCTACCCTGTACTTCT

              *        * *                                         
       1384 ACTGATACATGCAGTAATTCTACCGAAACTAGTATGCAAAATTTCATTAAAGACA
        195 ACCGATACATGAAATAATTCTACCGAAACTAGTATGCAAAATTTCATTAAAGACA

       1439 CCAAGACACA


Statistics
Matches: 233,  Mismatches: 15, Indels: 2
        0.93            0.06        0.01

Matches are distributed among these distances:
 250    1  0.00
 251  232  1.00

ACGTcount: A:0.38, C:0.26, G:0.10, T:0.26


Consensus pattern (251 bp):   
TGATTTCTACCGCTACAAGCCATGCAACTACCGATACCAAAAACTCCAGAGAGAAAAAATTCATA
CCCTACAACTTCTATCGATACAAACTTACCTACTACAGATACATCAGTACTATGAACTATCGATA
CCTGCAATTAAACTACCGATACAATACAAATCAGAGAACAACCTCTCTCCTACCCTGTACTTCTA
CCGATACATGAAATAATTCTACCGAAACTAGTATGCAAAATTTCATTAAAGACATC
Done.