Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008738.1 Kokia drynarioides strain JFW-HI SEQ_123420, 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: 2108
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25


Found at i:1519 original size:48 final size:48

Alignment explanation


    Indices: 1458--1576  Score: 220
    Period size: 48  Copynumber: 2.5  Consensus size: 48

       1448 TGAACCCCGG

                *                                           
       1458 CTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAC
          1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAC

                                                           *
       1506 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
          1 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAC

                                   
       1554 CTTCCTGATGAGATACTGAGAAG
          1 CTTCCTGATGAGATACTGAGAAG

       1577 TGGACCAAAT


Statistics
Matches: 69,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  48   69  1.00

ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24


Consensus pattern (48 bp):   
CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAC

Found at i:1871 original size:209 final size:209

Alignment explanation


    Indices: 1506--1887  Score: 566
    Period size: 209  Copynumber: 1.8  Consensus size: 209

       1496 AAATGGTTAC

                         *                           **    *                *
       1506 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
          1 CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAACAGTTACCTTCCTGATGAGATACA

                    *       **           *   *   *          **             * 
       1571 GAGAAGTGGACCAAATTTGTCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGG
         66 GAGAAGTGAACCAAATCCGTCTTCCTGATAAGACACAAAGAAGTGGATCAAAACAAGTGATGCAG

                               *        *                                    
       1636 TCATCTTCCTGATGAGATATTGAGAAGTGGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAA
        131 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAA

                          
       1701 TCTTCGAACCCCAG
        196 TCTTCGAACCCCAG

                                        *           *                        
       1715 CTTCCTGATGAGACACTGAGAAGCAGGTTGAAGCAATAAAGCAGTTACCTTCCTGATGAGATACA
          1 CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAACAGTTACCTTCCTGATGAGATACA

                         *                                                   
       1780 GAGAAGTGAACCAGATCCGTCTTCCTGATAAGACACAAAGAAGTGGATCAAAACAAGTGATGCAG
         66 GAGAAGTGAACCAAATCCGTCTTCCTGATAAGACACAAAGAAGTGGATCAAAACAAGTGATGCAG

                           *               * *         
       1845 TCATCTTCCTGATGATATACTGAGAAGTAGATCGAATCAATGA
        131 TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGA

       1888 TCCCAAACCA


Statistics
Matches: 151,  Mismatches: 22, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
 209  151  1.00

ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23


Consensus pattern (209 bp):   
CTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAACAGTTACCTTCCTGATGAGATACA
GAGAAGTGAACCAAATCCGTCTTCCTGATAAGACACAAAGAAGTGGATCAAAACAAGTGATGCAG
TCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAAGCTCAAAGTGAGCAAA
TCTTCGAACCCCAG
Done.