Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009978.1 Kokia drynarioides strain JFW-HI SEQ_124728, 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: 2281
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33


Found at i:881 original size:30 final size:29

Alignment explanation


    Indices: 840--1001  Score: 136
    Period size: 30  Copynumber: 5.4  Consensus size: 29

        830 TTTACCCTCG

                  *                     * 
        840 AACTTCTAAAAATCTCATTTTTGACCTCAA
          1 AACTTCCAAAAATCTCATTTTTGACC-CCA

                                    *  *  *
        870 AACTTCCAAAAAT-TACCA-TTTTAACACCG
          1 AACTTCCAAAAATCT--CATTTTTGACCCCA

                          *               
        899 AACTTCCAAAAATCCCATTTTTGACCCTCA
          1 AACTTCCAAAAATCTCATTTTTGACCC-CA

                                            *
        929 AACTTCCAAAAAAT-TACCA-TTTT-ACCCCCG
          1 AACTTCC-AAAAATCT--CATTTTTGA-CCCCA

                          *               
        959 AACTTCCAAAAATCCCATTTTTGACCCCGA
          1 AACTTCCAAAAATCTCATTTTTGACCCC-A

                         
        989 AACTTCCAAAAAT
          1 AACTTCCAAAAAT

       1002 TACCATTTTT


Statistics
Matches: 106,  Mismatches: 13, Indels: 26
        0.73            0.09        0.18

Matches are distributed among these distances:
  28    4  0.04
  29   36  0.34
  30   49  0.46
  31   15  0.14
  32    2  0.02

ACGTcount: A:0.38, C:0.30, G:0.04, T:0.29


Consensus pattern (29 bp):   
AACTTCCAAAAATCTCATTTTTGACCCCA

Found at i:960 original size:60 final size:60

Alignment explanation


    Indices: 809--1010  Score: 302
    Period size: 59  Copynumber: 3.4  Consensus size: 60

        799 GAAGGTCCCT

                     *                  *        *       *               
        809 AAACTGTCCGAAAATTACCATTTTACCCTCGAACTTCTAAAAATCTCATTTTTGA-CCTCA
          1 AAACT-TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCTCA

                                    * *                                 
        869 AAACTTCCAAAAATTACCATTTTAACACCGAACTTCCAAAAATCCCATTTTTGACCCTC-
          1 AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCTCA

                                                                        *
        928 AAACTTCCAAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCC-CG
          1 AAACTTCC-AAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCTCA

                                   
        988 AAACTTCCAAAAATTACCATTTT
          1 AAACTTCCAAAAATTACCATTTT

       1011 TACTCCCGGT


Statistics
Matches: 131,  Mismatches: 8, Indels: 7
        0.90            0.05        0.05

Matches are distributed among these distances:
  59   67  0.51
  60   64  0.49

ACGTcount: A:0.36, C:0.29, G:0.04, T:0.30


Consensus pattern (60 bp):   
AAACTTCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCTCA

Done.