Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004362.1 Kokia drynarioides strain JFW-HI SEQ_117715, 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, 895

Length: 1493
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40


Found at i:332 original size:30 final size:29

Alignment explanation


    Indices: 249--466  Score: 194
    Period size: 29  Copynumber: 7.4  Consensus size: 29

        239 TTTTATTTTG

                          *     **    *  *
        249 AAAATTACATTTTAGCCCTCTTACTTATCC
          1 AAAATTACATTTTAACCCT-AAACTTTTCT

                  *                       
        279 AAAATTGCATTTTGAA-CCTAAACTTTTCT
          1 AAAATTACATTTT-AACCCTAAACTTTTCT

                  *   *                *  
        308 AAAATTTCATCTTAACCCTTAAACTTTCCT
          1 AAAATTACATTTTAACCC-TAAACTTTTCT

                 *            *           
        338 AAAATCACATTTTAACCCCAAAC-TTTCTT
          1 AAAATTACATTTTAACCCTAAACTTTTC-T

                 *                        
        367 AAAATCACATTTTAACCCTAAACTTTTAC-
          1 AAAATTACATTTTAACCCTAAACTTTT-CT

                                   *    * 
        396 AAAATTACATTTTAACCCCTAAATTTTTTT
          1 AAAATTACATTTTAA-CCCTAAACTTTTCT

                          *          *   
        426 AAAATTACATTTTACCCCTAAA-TTCTCT
          1 AAAATTACATTTTAACCCTAAACTTTTCT

                          
        454 AAAACTT-CATTTT
          1 AAAA-TTACATTTT

        467 TAACTCTTTT


Statistics
Matches: 158,  Mismatches: 21, Indels: 20
        0.79            0.11        0.10

Matches are distributed among these distances:
  28   19  0.12
  29   69  0.44
  30   68  0.43
  31    2  0.01

ACGTcount: A:0.36, C:0.23, G:0.01, T:0.40


Consensus pattern (29 bp):   
AAAATTACATTTTAACCCTAAACTTTTCT

Found at i:361 original size:59 final size:59

Alignment explanation


    Indices: 295--447  Score: 177
    Period size: 59  Copynumber: 2.6  Consensus size: 59

        285 GCATTTTGAA

                               *                     *                   
        295 CCTAAACTTTTCTAAAATTTCATCTTAACCCTTAAAC-TTTCCTAAAATCACATTTTAACC
          1 CCTAAACTTTTCTAAAATTACATCTTAACCC-TAAACTTTTAC-AAAATCACATTTTAACC

                               *    *                       *           
        355 CC-AAAC-TTTCTTAAAATCACATTTTAACCCTAAACTTTTACAAAATTACATTTTAACC
          1 CCTAAACTTTTC-TAAAATTACATCTTAACCCTAAACTTTTACAAAATCACATTTTAACC

                  *    *           *   *       
        413 CCTAAATTTTTTTAAAATTACATTTTACCCCTAAA
          1 CCTAAACTTTTCTAAAATTACATCTTAACCCTAAA

        448 TTCTCTAAAA


Statistics
Matches: 80,  Mismatches: 9, Indels: 9
        0.82            0.09        0.09

Matches are distributed among these distances:
  58   27  0.34
  59   48  0.60
  60    5  0.06

ACGTcount: A:0.37, C:0.24, G:0.00, T:0.39


Consensus pattern (59 bp):   
CCTAAACTTTTCTAAAATTACATCTTAACCCTAAACTTTTACAAAATCACATTTTAACC

Done.