Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011840.1 Kokia drynarioides strain JFW-HI SEQ_126836, 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, 756

Length: 1261
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34


Found at i:975 original size:431 final size:433

Alignment explanation


    Indices: 180--975  Score: 1000
    Period size: 431  Copynumber: 1.8  Consensus size: 433

        170 AACACAAAAT

                                **                 * *        *        * *   
        180 AAGTGGTATACAATGTTAAATGATAAAAGAAAAAGATTACTGTTTTTGAATATATTTAAGCGAAA
          1 AAGTGGTATACAATGTTAAAAAATAAAAGAAAAAGATTAATATTTTTGAAGATATTTAAACAAAA

               *               *  *   *                               *  *   
        245 TTTTCAAAGAAAGATTAGAGTCTTAATTACAATGGAAACAACAAACAAATATGGTAGGGAATATG
         66 TTTCCAAAGAAAGATTAGAATCATAACTACAATGGAAACAACAAACAAATATGGTAGGAAACATG

                               *               *                        **   
        310 TATCATGGTTAGCATCTAAGAAATTGGATACACTCTATTTCTAGACTTTTTAAATGGGTCCGCCT
        131 TATCATGGTTAGCATCTAACAAATTGGATACACTCAATTTCTAGACTTTTTAAATGGGTCAACCT

                                                 *             **            
        375 CGATTTTGTCTTCACTTCTCTTTTTTATTTATTTCCAGCCCTCAATATCGCTGCATGTTGCAATG
        196 CGATTTTGTCTTCACTTCTCTTTTTTATTTATTTCCACCCCTCAATATCGCAACATGTTGCAATG

                                                                    *        
        440 CAATTACACTCTATTTATTTATATGGATATTCTGGAAACATACAGAAACTTGGCACTTTTACCGT
        261 CAATTACACTCTATTTATTTATATGGATATTCTGGAAACATACAGAAACTTGGCACATTTACCGT

                                          *                                  
        505 GAGCTGTTACTTTCTTCTTGAGATTGTTTAGACAATTTTTGTGCCATCCTTTTTCCACTCGGTTC
        326 GAGCTGTTACTTTCTTCTTGAGATTGTTTAAACAATTTTTGTGCCATCCTTTTTCCACTCGGTTC

                                                       
        570 ATGTAGGAAACTTGAATTGCTGTGAATGTTCGTAATGCGAAAC
        391 ATGTAGGAAACTTGAATTGCTGTGAATGTTCGTAATGCGAAAC

                      *                                                      
        613 AAGTGGTATATAATGTTAAAAAAATAAAAG-AAAA-A-TAATATTTTTGAAGATATTTAAACAAA
          1 AAGTGGTATACAATGTT-AAAAAATAAAAGAAAAAGATTAATATTTTTGAAGATATTTAAACAAA

                    *     *  *             *            *                    
        675 ATTTCCAATGAAAGGTTGGAATCATAACTACGATGGAAACAACAGACAAATATGGTAGGAAACAT
         65 ATTTCCAAAGAAAGATTAGAATCATAACTACAATGGAAACAACAAACAAATATGGTAGGAAACAT

                    *  *  *                 **                               
        740 GTATCATGTTTGGCCTCTAACAAATTGGATACTTTCAATTT-TCAGACTTTTTAAATGGGTCAAC
        130 GTATCATGGTTAGCATCTAACAAATTGGATACACTCAATTTCT-AGACTTTTTAAATGGGTCAAC

                                             *                 *    *        
        804 CTCGATTTTGTCTTCA--TCTCTCTTTTTATTTGTTTCC-CCCCTCAATATTGCAATATGTTGCA
        194 CTCGATTTTGTCTTCACTTCTCT-TTTTTATTTATTTCCACCCCTCAATATCGCAACATGTTGCA

            *  * *    *               *   *      *  *     *  *      *        
        866 CTGTAGTTACTCTCTATTTATTTTATTTGGTTATTCTTGAGACATATAGGAACTTGTCACATTTA
        258 ATGCAATTACACTCTATTTA-TTTATATGGATATTCTGGAAACATACAGAAACTTGGCACATTTA

             *            *       *                         
        931 CTGTGAG-TCGTTAGTTTAC-TGTTGAGATAT-TTTAAACAAATTTTT
        322 CCGTGAGCT-GTTACTTT-CTTCTTGAGAT-TGTTTAAAC-AATTTTT

        976 ATGTATAAAA


Statistics
Matches: 305,  Mismatches: 50, Indels: 18
        0.82            0.13        0.05

Matches are distributed among these distances:
 429   42  0.14
 430   78  0.26
 431  154  0.50
 432    1  0.00
 433   20  0.07
 434   10  0.03

ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38


Consensus pattern (433 bp):   
AAGTGGTATACAATGTTAAAAAATAAAAGAAAAAGATTAATATTTTTGAAGATATTTAAACAAAA
TTTCCAAAGAAAGATTAGAATCATAACTACAATGGAAACAACAAACAAATATGGTAGGAAACATG
TATCATGGTTAGCATCTAACAAATTGGATACACTCAATTTCTAGACTTTTTAAATGGGTCAACCT
CGATTTTGTCTTCACTTCTCTTTTTTATTTATTTCCACCCCTCAATATCGCAACATGTTGCAATG
CAATTACACTCTATTTATTTATATGGATATTCTGGAAACATACAGAAACTTGGCACATTTACCGT
GAGCTGTTACTTTCTTCTTGAGATTGTTTAAACAATTTTTGTGCCATCCTTTTTCCACTCGGTTC
ATGTAGGAAACTTGAATTGCTGTGAATGTTCGTAATGCGAAAC
Done.