Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005055.1 Kokia drynarioides strain JFW-HI SEQ_118845, 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: 12331
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:5894 original size:104 final size:103

Alignment explanation


    Indices: 5737--6060  Score: 373
    Period size: 104  Copynumber: 3.1  Consensus size: 103

       5727 TAATATTAGT

                       *              *                                      
       5737 TGTGAACGTAGGTCAGTGAGCTGTTAGGAGTTGCGATATTAAATCAACGAACTCAAATAATCAGA
          1 TGTGAACGTAGATCAGTGAGCTGTTAAGAGTTGCGATATTAAATCAACGAACTCAAATAATC-GA

             *       *      *       *              
       5802 GACTGCGATCTTAAATTAGCTAGCTTTAATAACATCAAC
         65 GGCTGCGATATTAAATCAGCTAGCCTTAATAACATCAAC

                           **                 *  *        ***                
       5841 TGTGAACGTAGATCAACGAGCTGTTAAGAGTTGCAATCTTAAATCAGTTAACTCAAATAATCGAA
          1 TGTGAACGTAGATCAGTGAGCTGTTAAGAGTTGCGATATTAAATCAACGAACTCAAATAATCG-A

              * * *  *         *                   
       5906 GGTTACAATTTTAAATCAGTTAGCCTTAATAACATCAAC
         65 GGCTGCGATATTAAATCAGCTAGCCTTAATAACATCAAC

            *                      *           *                             
       5945 CGTGAACGTA-AGTCAGTGAGCTATT-AGAAGTTGTGATATTAAATCAACGAACTCAAATAATCG
          1 TGTGAACGTAGA-TCAGTGAGCTGTTAAG-AGTTGCGATATTAAATCAACGAACTCAAATAATC-

                                *                  **
       6008 GAGGCTGCGATATTAAATCAACTAGCCTTAATAACATCAGT
         63 GAGGCTGCGATATTAAATCAGCTAGCCTTAATAACATCAAC

                        
       6049 TGTGAACGTAGA
          1 TGTGAACGTAGA

       6061 AATAACAATA


Statistics
Matches: 179,  Mismatches: 36, Indels: 9
        0.80            0.16        0.04

Matches are distributed among these distances:
 103    4  0.02
 104  173  0.97
 105    2  0.01

ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28


Consensus pattern (103 bp):   
TGTGAACGTAGATCAGTGAGCTGTTAAGAGTTGCGATATTAAATCAACGAACTCAAATAATCGAG
GCTGCGATATTAAATCAGCTAGCCTTAATAACATCAAC

Found at i:11295 original size:19 final size:19

Alignment explanation


    Indices: 11254--11296  Score: 52
    Period size: 19  Copynumber: 2.3  Consensus size: 19

      11244 CTATGCGTGG

                        * *    
      11254 AATTTTATTTATTTTTAAT
          1 AATTTTATTTATATATAAT

                                
      11273 AATTTTATTTATAATATAA-
          1 AATTTTATTTAT-ATATAAT

                 
      11292 AATTT
          1 AATTT

      11297 AAATATAAAA


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  19   17  0.81
  20    4  0.19

ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60


Consensus pattern (19 bp):   
AATTTTATTTATATATAAT
Done.