Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006952.1 Kokia drynarioides strain JFW-HI SEQ_121557, 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: 6939
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:4440 original size:26 final size:25

Alignment explanation


    Indices: 4407--4485  Score: 68
    Period size: 29  Copynumber: 3.0  Consensus size: 25

       4397 GGAAGTTTTC

                                     
       4407 TAAGACTATCTTATGTGGAAGTCTA
          1 TAAGACTATCTTATGTGGAAGTCTA

                                 *     * 
       4432 TAAGAACTATCTGATATGTAGAAAGTCCA
          1 TAAG-ACTATCT--TATGT-GGAAGTCTA

             * *            *        
       4461 CCAGGACTATCTTATGCGGAAGTCT
          1 -TAAGACTATCTTATGTGGAAGTCT

       4486 GCAAAGACCA


Statistics
Matches: 42,  Mismatches: 7, Indels: 9
        0.72            0.12        0.16

Matches are distributed among these distances:
  25    4  0.10
  26   13  0.31
  27    4  0.10
  28    5  0.12
  29   14  0.33
  30    2  0.05

ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30


Consensus pattern (25 bp):   
TAAGACTATCTTATGTGGAAGTCTA

Found at i:4499 original size:55 final size:55

Alignment explanation


    Indices: 4410--4538  Score: 172
    Period size: 55  Copynumber: 2.3  Consensus size: 55

       4400 AGTTTTCTAA

                                         *                         
       4410 GACTATCTTATGTGGAAGTCTATAAGAACTATCTGATATGTAGAAAGTCCACCAG
          1 GACTATCTTATGTGGAAGTCTATAAGAACCATCTGATATGTAGAAAGTCCACCAG

                        *                              *   *    *    
       4465 GACTATCTTATGCGGAAGTCTGCA-AAG-ACCATCTGATATGTGGAAGGTCCGCCAG
          1 GACTATCTTATGTGGAAGTCT--ATAAGAACCATCTGATATGTAGAAAGTCCACCAG

                     *         
       4520 GACTATCTTTTGTGGAAGT
          1 GACTATCTTATGTGGAAGT

       4539 TTGTGAGGAC


Statistics
Matches: 65,  Mismatches: 7, Indels: 4
        0.86            0.09        0.05

Matches are distributed among these distances:
  55   61  0.94
  56    3  0.05
  57    1  0.02

ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29


Consensus pattern (55 bp):   
GACTATCTTATGTGGAAGTCTATAAGAACCATCTGATATGTAGAAAGTCCACCAG
Done.