Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002997.1 Kokia drynarioides strain JFW-HI SEQ_115488, 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, 614

Length: 1024
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41


Found at i:643 original size:215 final size:214

Alignment explanation


    Indices: 7--1024  Score: 1178
    Period size: 215  Copynumber: 4.7  Consensus size: 214

          1 ATTTAA

                             *  *  *                                        *
          7 TTTGTCATTTTGTAAAATACCTTCTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGA
          1 TTTGTCATTTTGT-AAACACTTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGT

                    *    *         *        *                           *    
         72 CTATTGGTCCTTGTCCGAACATCTGAACTTGTTAAACTTTTACGAGTTCTTTTATAACTTCGGTT
         65 CTATTGGTTCTTGGCCGAACATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTT

                             *            *                **      * *       
        137 CCTTAAAGTATTCAAGATGATCCATTCCTTTGAGCAATTTTTCGAACGGTCCATGGTTGAGAAAT
        130 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAAT

              *       *      *   
        202 CATATCATTTTGTCCAATTAG
        195 CACATCATTTGGT-CAAATAG

                       *                *                          *         
        223 TTTGTCATTTTTTAAACTACTTTTTTGTATTTGAATTAAAAACTTATTTTGGTGACAATTGTTTG
          1 TTTGTCATTTTGTAAAC-AC-TTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTG

                            *         *    *      *                          
        288 TCTCA-TGGTTCTTGGACGAACATCCAAACTGGT-AAAATTTTACGAGTTCTTTTATAACTTAGG
         64 TCT-ATTGGTTCTTGGCCGAACATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGG

                             *     *     *      *        *  *        *    *  
        351 TTCCTTAAAGTATTCAAAACGATGCATTCGTTCGA-AAATTTTTTTGATCATTCCATTCTCGGGA
        128 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA-TTTTTCGAACATTCCATGCTCGAGA

                *                   
        415 AATCGCATCATTTGGTACAAATAG
        192 AATCACATCATTTGGT-CAAATAG

                                                      *                      
        439 TTTGTCATTTTGTAAAACACTTTTTGTCTTTGAATTAAAAACATATTTTGGTGAGAATTGTTTGT
          1 TTTGTCATTTTGT-AAACACTTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGT

                    *           *  *                                 *  *    
        504 CTATTGGTCCTTGGCCGAACTTCTGAACTTGTCAAACTTTTACGAGTTCTTTTATAAGTTCGGTT
         65 CTATTGGTTCTTGGCCGAACATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTT

                          *  *                *                  *          *
        569 CCTTAAAGTATTCACGATGATCCATTCCTTCGAGGAA-TTTTCGAACATTCCAAGCTC-AGGAAC
        130 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGA-GAAA

                           *      
        632 TCACATCATTTGGTTTAAATAG
        194 TCACATCATTTGG-TCAAATAG

               *                           *      *         **               
        654 TTTCTCATTTTGTAAACACCTTTTTGTCTTTAAATTAAGAACTTATTTACGTGAGAATTGTTTGT
          1 TTTGTCATTTTGTAAACA-CTTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGT

            *               *                     *              **       ** 
        719 ATCA-TGGTTCTTGGCTGAA-ATTCCGAACTTGTCAAAGTTTTACGAGTTCTTGAATAACTTTTG
         65 CT-ATTGGTTCTTGGCCGAACA-TCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGG

                             *                            *                  
        782 TTCCTTAAAGTATTCAACACGATCCATTCCTTCGAGCAA-TTTTCTAAACATTCCATGCTCGAGA
        128 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGAGA

                                    
        846 AAT---ATCATTTGGTCTAAATAG
        192 AATCACATCATTTGGTC-AAATAG

               *               *                            *                
        867 TTTCTCATTTTGTAAACAGATTTTTGTCTTTGAATT-AAAACTTATTTAGGTGAGAATTGTTTGT
          1 TTTGTCATTTTGTAAACA-CTTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGT

              *      *    *              *  *                                
        931 CTCTTGGTTTTTGGACGAACATCCGAACTGGTAAAACTTTTACGAGTTCTTTTATAACTTAGGTT
         65 CTATTGGTTCTTGGCCGAACATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTT

                           *     *       
        996 CCTTAAAGTATTCAAAACGATGCATTCCT
        130 CCTTAAAGTATTCAAGACGATCCATTCCT


Statistics
Matches: 679,  Mismatches: 105, Indels: 40
        0.82            0.13        0.05

Matches are distributed among these distances:
 212  104  0.15
 213   49  0.07
 214    6  0.01
 215  250  0.37
 216  198  0.29
 217   71  0.10
 218    1  0.00

ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41


Consensus pattern (214 bp):   
TTTGTCATTTTGTAAACACTTTTTGTCTTTGAATTAAAAACTTATTTTGGTGAGAATTGTTTGTC
TATTGGTTCTTGGCCGAACATCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAGGTTC
CTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATC
ACATCATTTGGTCAAATAG
Done.