Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004844.1 Kokia drynarioides strain JFW-HI SEQ_118493, 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: 3152
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34


Found at i:558 original size:36 final size:36

Alignment explanation


    Indices: 504--597  Score: 145
    Period size: 36  Copynumber: 2.6  Consensus size: 36

        494 GATAACAAAG

                *        *                      
        504 ATGATCTTTGGGTCAACAGGGAGTAAAATGAGCATC
          1 ATGACCTTTGGGTTAACAGGGAGTAAAATGAGCATC

                                    *           
        540 ATGACCTTTGGGTTAACAGGGAGTGAAATGAGCATC
          1 ATGACCTTTGGGTTAACAGGGAGTAAAATGAGCATC

                                   
        576 ATGACCTTT-GGTTCAACAGGGA
          1 ATGACCTTTGGGTT-AACAGGGA

        598 TTAAGCATGG


Statistics
Matches: 54,  Mismatches: 3, Indels: 2
        0.92            0.05        0.03

Matches are distributed among these distances:
  35    4  0.07
  36   50  0.93

ACGTcount: A:0.31, C:0.15, G:0.29, T:0.26


Consensus pattern (36 bp):   
ATGACCTTTGGGTTAACAGGGAGTAAAATGAGCATC

Found at i:1272 original size:36 final size:36

Alignment explanation


    Indices: 1225--1322  Score: 160
    Period size: 36  Copynumber: 2.7  Consensus size: 36

       1215 GATAACAGGG

                 *                              
       1225 ATGACTTTTGGGTCAACAGGGAGTAAAATGAGCATC
          1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC

                         *          *           
       1261 ATGACCTTTGGGTTAACAGGGAGTGAAATGAGCATC
          1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC

                            *         
       1297 ATGACCTTTGGGTCAATAGGGAGTAA
          1 ATGACCTTTGGGTCAACAGGGAGTAA

       1323 GCATGAATAT


Statistics
Matches: 56,  Mismatches: 6, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  36   56  1.00

ACGTcount: A:0.32, C:0.13, G:0.30, T:0.26


Consensus pattern (36 bp):   
ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
Done.