Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012696.1 Kokia drynarioides strain JFW-HI SEQ_127707, 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: 7459
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35


Found at i:569 original size:17 final size:17

Alignment explanation


    Indices: 549--601  Score: 79
    Period size: 17  Copynumber: 3.1  Consensus size: 17

        539 ATTTGAAAAT

                             
        549 AATTTAAAATAAATTTA
          1 AATTTAAAATAAATTTA

                 *   *       
        566 AATTTTAAACAAATTTA
          1 AATTTAAAATAAATTTA

             *               
        583 ATTTTAAAATAAATTTA
          1 AATTTAAAATAAATTTA

              
        600 AA
          1 AA

        602 GGGAGTATGG


Statistics
Matches: 30,  Mismatches: 6, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
  17   30  1.00

ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42


Consensus pattern (17 bp):   
AATTTAAAATAAATTTA

Found at i:580 original size:28 final size:29

Alignment explanation


    Indices: 529--583  Score: 78
    Period size: 28  Copynumber: 1.9  Consensus size: 29

        519 GGTTTTATTT

                                         
        529 TAAATTTTAAATTTGAAAATAATTTAAAA
          1 TAAATTTTAAATTTGAAAATAATTTAAAA

                          *             
        558 TAAA-TTTAAATTTTAAACA-AATTTAA
          1 TAAATTTTAAATTTGAAA-ATAATTTAA

        584 TTTTAAAATA


Statistics
Matches: 24,  Mismatches: 1, Indels: 3
        0.86            0.04        0.11

Matches are distributed among these distances:
  28   19  0.79
  29    5  0.21

ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42


Consensus pattern (29 bp):   
TAAATTTTAAATTTGAAAATAATTTAAAA

Found at i:1325 original size:199 final size:199

Alignment explanation


    Indices: 981--1528  Score: 853
    Period size: 199  Copynumber: 2.7  Consensus size: 199

        971 CTGTGTAGTT

                     *    *                                                  
        981 TGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGACGAATTTTGGTTCACTTCTCAGTACCTCA
          1 TGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGACGAA-TTTGGTTCACTTCTCAGTACCTCA

             * *                 *    *          *                           
       1046 TTTAGAAGCTAACCATTTATTGCTTCTACCTGCTTCTTAGTGTCTCATCAGGAAGCTGGGTTTTG
         65 TCTGGAAGCTAACCATTTATTTCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTTTG

                    *                                                       *
       1111 AAGATTTGTTCGTTTCAAGCCTAGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCC
        130 AAGATTTGCTCGTTTCAAGCCTAGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCA

                 
       1176 ATCAC
        195 ATCAC

                                  *                                 *      * 
       1181 TGTTTCAATCCGCTCCTCTGTACCTCATCAGGAAGACGAATTTGGTTCACTTCTCAATACCTCCT
          1 TGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTACCTCAT

                                                        *   *       *        
       1246 CTGGAAGCTAACCATTTATTTCTTCCACCTGCTTCTCAGTGTCTTATCCGGAAGCTAGGTTTTGA
         66 CTGGAAGCTAACCATTTATTTCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTTTGA

                           *     *                                           
       1311 AGATTTGCTCGTTTCGAGCCTCGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCAA
        131 AGATTTGCTCGTTTCAAGCCTAGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCAA

                
       1376 TCAC
        196 TCAC

                              *      *  *             *              *       
       1380 TGTTTCAATCCGCTCCTCCGTATCTTATTAGGAAGACGAATTCGGTTCACTTCTCAGCACCTCAT
          1 TGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTACCTCAT

               *      *                                           *        * 
       1445 CTGAAAGCTATCCATTTATTTCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGTTGGGTTTTAA
         66 CTGGAAGCTAACCATTTATTTCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTTTGA

                               
       1510 AGATTTGCTCGTTTCAAGC
        131 AGATTTGCTCGTTTCAAGC

       1529 GTGGGCTTGG


Statistics
Matches: 315,  Mismatches: 33, Indels: 1
        0.90            0.09        0.00

Matches are distributed among these distances:
 199  278  0.88
 200   37  0.12

ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36


Consensus pattern (199 bp):   
TGTTTCAATCCGCTCCTCTGTATCTCATCAGGAAGACGAATTTGGTTCACTTCTCAGTACCTCAT
CTGGAAGCTAACCATTTATTTCTTCCACCTGCTTCTCAGTGTCTCATCAGGAAGCTGGGTTTTGA
AGATTTGCTCGTTTCAAGCCTAGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCAA
TCAC
Done.