Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01015032.1 Kokia drynarioides strain JFW-HI SEQ_130076, 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: 3500
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33


Found at i:533 original size:144 final size:144

Alignment explanation


    Indices: 1--534  Score: 689
    Period size: 144  Copynumber: 3.7  Consensus size: 144

                   *  *                                     *                
          1 TCAAAGCGACAAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTGAGGAATTTGGTTGAAT
          1 TCAAAGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT

               *              *             **       *            *          
         66 TGGCTCTATCCTTCAATAAGCTT-TCAGGTCACGTCCCATCATCTGTCAGG-AACTTAACCAATC
         66 TGGATCTATCCTTCAATAGGCTTGT-AGGTCAAATCCCATCTTCTGTC-GGCAAATTAACCAATC

                    *  **    
        129 TTGAC-TCCTTGTTCCT
        129 TTG-CGTCGTTAATCCT

                       *    *    *                            *           *  
        145 TCAAAGCAACCGACTTGATGGTTCCATTCCAGAAGATATTGGGAGACTAAAGAATTTGGTTGTAT
          1 TCAAAGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT

                *       *            *    *                                  
        210 TGGACCTATCCTACAATAGGCTTGTTGGTCCAATCCCATCTTCTGTCGGCAAATTAACCAATCTT
         66 TGGATCTATCCTTCAATAGGCTTGTAGGTCAAATCCCATCTTCTGTCGGCAAATTAACCAATCTT

                *         
        275 GCGTTGTTAATCCT
        131 GCGTCGTTAATCCT

                            *    *                                           
        289 TCAAAGCAACCAACTTGATGGTTCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT
          1 TCAAAGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT

                        *            *    *                                  
        354 TGGATCTATCCTCCAATAGGCTTGTTGGTCCAATCCCATCTTCTGTCGGCAAATTAACCAATCTT
         66 TGGATCTATCCTTCAATAGGCTTGTAGGTCAAATCCCATCTTCTGTCGGCAAATTAACCAATCTT

                          
        419 GCGTCGTTAATCCT
        131 GCGTCGTTAATCCT

                  *           *            *    *   *   *     *          *   
        433 TCAAAGAAACCAACTTAACGGATCCATTCCACAAGAAATTTGGACACTAACGAATTTGGTTAAAT
          1 TCAAAGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT

                                                  
        498 TGGATCTATCCTTCAATAGGCTT-TCAGGTCAAATCCC
         66 TGGATCTATCCTTCAATAGGCTTGT-AGGTCAAATCCC

        535 TTCCTCTCTG


Statistics
Matches: 345,  Mismatches: 41, Indels: 8
        0.88            0.10        0.02

Matches are distributed among these distances:
 143    4  0.01
 144  340  0.99
 145    1  0.00

ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31


Consensus pattern (144 bp):   
TCAAAGCAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAAGGAATTTGGTTGAAT
TGGATCTATCCTTCAATAGGCTTGTAGGTCAAATCCCATCTTCTGTCGGCAAATTAACCAATCTT
GCGTCGTTAATCCT
Done.