Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010118.1 Kokia drynarioides strain JFW-HI SEQ_124905, 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: 3050
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31


Found at i:2347 original size:345 final size:345

Alignment explanation


    Indices: 1711--2352  Score: 896
    Period size: 345  Copynumber: 1.9  Consensus size: 345

       1701 CATTGGGGAA

                                    *                                * *     
       1711 GAAATACCAGCTCATTAATTACACTTGCAGCAACGAGTATCGATACCTACAAAAAGGTTGTCGAT
          1 GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACAAAAAGGGTATCGAT

                 *         *          *   *          *           *     *     
       1776 ATTTTCTGTAATTAATGCAGATTTCAGTGATCGTTGGAACATGAATATAGAGACACATTGGATTT
         66 ATTTTATGTAATTAACGCAGATTTCAATGACCGTTGGAACAGGAATATAGAGAAACATTAGATTT

                                         *                               *   
       1841 TATCGATATCTTACAAAAGGTATCGATACCAGATCGATACTTCCTAGGGTTCGATAAAACAGAAT
        131 TATCGATATCTTACAAAAGGTATCGATACAAGATCGATACTTCCTAGGGTTCGATAAAACAAAAT

                                         *  *                                
       1906 GCTCATTTGGTATCGTTTATCACAGGGGTGTTGATATTTTGTAAAATATCGATACAAAGACAAAA
        196 GCTCATTTGGTATCGTTTATCACAGGGGTATTAATATTTTGTAAAATATCGATACAAAGACAAAA

                 *           *                                               
       1971 AGTACTGATACTGTTTGCCCTGGAACAATTCTAACTTTTTTTTTTTTAAATGGTTAAAACATAAT
        261 AGTACCGATACTGTTTGACCTGGAACAATTCTAACTTTTTTTTTTTTAAATGGTTAAAACATAAT

                                
       2036 TAAAAATGTTTAACTCAATT
        326 TAAAAATGTTTAACTCAATT

                                  *             *           * *   *          
       2056 GAAATACCAGCTCATTAATTACTCCTGCAGCAACGATTATCGATACCTTCTAAATGGGTATC-AG
          1 GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACAAAAAGGGTATCGA-

                    *         *                  * *          * *            
       2120 TATTTTATTTAATTAACGTAGATTTCAATGACCGTTGTAGCAGGAATATATATAAACATTAGATT
         65 TATTTTATGTAATTAACGCAGATTTCAATGACCGTTGGAACAGGAATATAGAGAAACATTAGATT

              *             **                                   * *         
       2185 TTCTCGATA-CGTTACTTAAGGTATCGATACAAGATCGATACTTCCTAGGGTTTGGTAAAACAAA
        130 TTATCGATATC-TTACAAAAGGTATCGATACAAGATCGATACTTCCTAGGGTTCGATAAAACAAA

                      *             *                                 *      
       2249 ATGCTCATTTTGTATCGTTTATCAGAGGGGTATTAATATCTTT-TAAAATATCGATACTAAGACA
        194 ATGCTCATTTGGTATCGTTTATCACAGGGGTATTAATAT-TTTGTAAAATATCGATACAAAGACA

                                        *            
       2313 AAAAGTACCGATACTGTTTGTACC-GGAGCAATTCTAACTT
        258 AAAAGTACCGATACTGTTTG-ACCTGGAACAATTCTAACTT

       2353 GCTTGAAAAT


Statistics
Matches: 257,  Mismatches: 36, Indels: 8
        0.85            0.12        0.03

Matches are distributed among these distances:
 344    2  0.01
 345  250  0.97
 346    5  0.02

ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Consensus pattern (345 bp):   
GAAATACCAGCTCATTAATTACACCTGCAGCAACGAGTATCGATACCTACAAAAAGGGTATCGAT
ATTTTATGTAATTAACGCAGATTTCAATGACCGTTGGAACAGGAATATAGAGAAACATTAGATTT
TATCGATATCTTACAAAAGGTATCGATACAAGATCGATACTTCCTAGGGTTCGATAAAACAAAAT
GCTCATTTGGTATCGTTTATCACAGGGGTATTAATATTTTGTAAAATATCGATACAAAGACAAAA
AGTACCGATACTGTTTGACCTGGAACAATTCTAACTTTTTTTTTTTTAAATGGTTAAAACATAAT
TAAAAATGTTTAACTCAATT
Done.