Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001701.1 Kokia drynarioides strain JFW-HI SEQ_113388, 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: 1865
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33


Found at i:1296 original size:30 final size:30

Alignment explanation


    Indices: 1255--1566  Score: 321
    Period size: 30  Copynumber: 10.6  Consensus size: 30

       1245 ATTATTCAAC

                                          
       1255 AATCCCATTTTTAACCCCAAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                *                         
       1285 AATCTCATTTTT-ACCCCAAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                *             *           
       1314 AATCACATTTTTAACCCCGAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                              *       *   
       1344 AATCCCATTTTT-ACCCCTAAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                ** *         *            
       1373 AATCAAAATTTTAACCCTAAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                          * * *  *   **   
       1403 AATCCCATTTTTAATCTCGAAGCTTTTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                   *                      
       1433 AATCCCAATTTTAACCCCAAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

               *              **    *     
       1463 AATTCCATTTTT-ACCCCCGAACTACCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

                      *     *        *    
       1492 AATCCCATTTCTAACCTCAAAACTTTCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAA

              *                **      *   
       1522 AGGT--CATTTTT-ACCCCCGAACTTCTAAA
          1 A-ATCCCATTTTTAACCCCAAAACTTCCAAA

                        *    
       1550 AATCCCATTTTTTACCC
          1 AATCCCATTTTTAACCC

       1567 TAAATTTTCC


Statistics
Matches: 226,  Mismatches: 49, Indels: 14
        0.78            0.17        0.05

Matches are distributed among these distances:
  27    1  0.00
  28   13  0.06
  29   89  0.39
  30  122  0.54
  31    1  0.00

ACGTcount: A:0.38, C:0.30, G:0.02, T:0.30


Consensus pattern (30 bp):   
AATCCCATTTTTAACCCCAAAACTTCCAAA

Found at i:1353 original size:59 final size:59

Alignment explanation


    Indices: 1255--1566  Score: 358
    Period size: 59  Copynumber: 5.3  Consensus size: 59

       1245 ATTATTCAAC

                                              *            *       *   
       1255 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCTCATTTTTACCCCAAAACTTCCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTTACCCCCAAACTTCTAAA

                *             *                            *           
       1314 AATCACATTTTTAACCCCGAAACTTCCAAAAATCCCATTTTTACCCCTAAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTTACCCCCAAACTTCTAAA

                ** *         *                          * * *  *   *    
       1373 AATCAAAATTTTAACCCTAAAACTTCCAAAAATCCCATTTTTAATCTCGAAGCTTTTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTT-ACCCCCAAACTTCTAAA

                   *                         *              *    * *   
       1433 AATCCCAATTTTAACCCCAAAACTTCCAAAAATTCCATTTTTACCCCCGAACTACCAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTTACCCCCAAACTTCTAAA

                      *     *        *      *                *          
       1492 AATCCCATTTCTAACCTCAAAACTTTCAAAAGGT--CATTTTTACCCCCGAACTTCTAAA
          1 AATCCCATTTTTAACCCCAAAACTTCCAAAA-ATCCCATTTTTACCCCCAAACTTCTAAA

                        *    
       1550 AATCCCATTTTTTACCC
          1 AATCCCATTTTTAACCC

       1567 TAAATTTTCC


Statistics
Matches: 215,  Mismatches: 36, Indels: 5
        0.84            0.14        0.02

Matches are distributed among these distances:
  58   36  0.17
  59  128  0.60
  60   51  0.24

ACGTcount: A:0.38, C:0.30, G:0.02, T:0.30


Consensus pattern (59 bp):   
AATCCCATTTTTAACCCCAAAACTTCCAAAAATCCCATTTTTACCCCCAAACTTCTAAA
Done.