Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009859.1 Kokia drynarioides strain JFW-HI SEQ_124591, 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, 754

Length: 1257
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40


Found at i:683 original size:216 final size:216

Alignment explanation


    Indices: 1--1253  Score: 1163
    Period size: 217  Copynumber: 5.9  Consensus size: 216

                                              **         *     *             
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATATTTTCAGTTCCATAAAGCATTCAAGACGATC
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATC

                                     *       *                               
         66 CATTCCTTCGAGCAATTTT-TCGAATATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAATAG
         66 CATTCCTTCGAGCAATTTTCT-GAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATAG

                       *              * *                             *      
        130 TTTGTCATTTTATAAA-AAGGTTTTGTTGTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTT
        130 TTTGTCATTTTGTAAACAA-G-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTT

                   *     *          
        194 CTCTCTTAGTTCTCGGACGAACTT
        193 CTCTCTTGGTTCTTGGACGAACTT

            *      *      *               *   *    *                    *    
        218 TCGAACTAGTCAAAGTTTTACGAGTTCTTTCATATCTTCGGTTCCTTAAAGTATTCAAGATGATC
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATC

                       *             *   *  *   *       *   *             *  
        283 CATTCCTTCGAACAATTTTCTGAACGTTCGATTCT-TGAGAAATAGCAGCATTTGGTCTAAAGAG
         66 CATTCCTTCGAGCAATTTTCTGAACATTCCATACTCGGA-AAATCGCATCATTTGGTCTAAATAG

                        *   *                  *                         *   
        347 TTTGTCATTTTGAAAATAAGTTTTGGTCTTTGAATCAAAAACTTATTTACGTGAG-AAT-TGTT-
        130 TTTGTCATTTTGTAAACAAG-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTTC

              *              *     
        409 TCGCTTGGTTCTTGGACAAACTT
        194 TCTCTTGGTTCTTGGACGAACTT

            *                                               *               *
        432 TCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTACAGTATTCAAGACGATA
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATC

                           * *   *       *  *    *                *       *  
        497 CATTCCTTCGAGCAACTCTCTTAACATTCTATGCTCGAAAAATCGCATCATTT-TTCTAAATTGT
         66 CATTCCTTCGAGCAATTTTCTGAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATAGT

                                  * *    *                *                  
        561 TTGTCATTTTGTAAACAAGTTTCGACTTTAAATTAAAAACTTATTTGCGTGAGAAATGTTTCTCT
        131 TTGTCATTTTGTAAACAAGTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTT-TCT

                 *                
        626 CTCTTTGTTCTTGGACGAACTT
        195 CTCTTGGTTCTTGGACGAACTT

              *     *      *                     * *       *                 
        648 CCAAACTTTTCAAACCTTTACGAGTTCTTTTATAACTCCGGTTCCTTGAAGTATTCAAGAAC-AT
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAG-ACGAT

                                              *     **             *   *     
        712 CCATTCCTTTC-AGCAA-TTT-TGAACATTCCATTCTCGGGTAATCGCATCATTTAGTCCAAATA
         65 CCATTCC-TTCGAGCAATTTTCTGAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATA

                * **                        *  **                         *  
        774 GTTTTTTGTTTTGTAAACAAGTTTTGGTCTTTAAAGCAAAAACTTATTTACGTGAG-AAT-TGTT
        129 GTTTGTCATTTTGTAAACAAG-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTT

                     * *     *      
        837 -TCTCTTGGCTGTTGGATGAACTT
        193 CTCTCTTGGTTCTTGGACGAACTT

                    * *                            *                     *   
        860 CCGAACTTTTTAAACTTTTACGA---C-----T-A----GGTTCCTTACAA-TATTCAAGATGAT
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTA-AAGTATTCAAGACGAT

                          *                               *  *    *          
        911 CCATTCCTTCGAGCTATTTTCTGAACATTCCATACTCGGAAAATCGTATAATTTTGTCTAAATAG
         65 CCATTCCTTCGAGCAATTTTCTGAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATAG

                         *                       **  *        *     *        
        976 TTTGTCATTTTGTGAACAA-------C-TT---TT--GGA-GTATTTACGCGAGAATTG-TTTCT
        130 TTTGTCATTTTGTAAACAAGTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTTCT

              *  *               *
       1026 CTTTTAGTTCTTGGACGAACTA
        195 CTCTTGGTTCTTGGACGAACTT

              *     *           *        *     *         *     *             
       1048 CCAAACTTATCAAACTTTTATGAGTTCTTCTATAATTTCAGTTCCATAAAGCATTCAAGACGATC
          1 CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATC

                                *                 *               *       *  
       1113 CATTCCTTCGAGCAATTTTCCGAACATTCCATACTCGGGAAATCGCATCATTTGCTCTAAATTGT
         66 CATTCCTTCGAGCAATTTTCTGAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATAGT

                          *   *      * *                             *       
       1178 TTGTCATTTTGTTAGA-AGGTTTTGTTGTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTTC
        131 TTGTCATTTTG-TAAACAAG-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTTC

                        
       1242 TCTCTTGGTTCT
        194 TCTCTTGGTTCT

       1254 CGGA


Statistics
Matches: 834,  Mismatches: 151, Indels: 102
        0.77            0.14        0.09

Matches are distributed among these distances:
 186   11  0.01
 187    5  0.01
 188   36  0.04
 191    1  0.00
 192    2  0.00
 193    1  0.00
 196    1  0.00
 197    1  0.00
 198    4  0.00
 199   29  0.03
 200    7  0.01
 201  140  0.17
 202    2  0.00
 203    1  0.00
 204    1  0.00
 209    1  0.00
 210    2  0.00
 212   68  0.08
 213   31  0.04
 214  147  0.18
 215   35  0.04
 216  133  0.16
 217  172  0.21
 218    3  0.00

ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40


Consensus pattern (216 bp):   
CCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATC
CATTCCTTCGAGCAATTTTCTGAACATTCCATACTCGGAAAATCGCATCATTTGGTCTAAATAGT
TTGTCATTTTGTAAACAAGTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAATGTTTTCTC
TCTTGGTTCTTGGACGAACTT
Done.