Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000754.1 Kokia drynarioides strain JFW-HI SEQ_111799, 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: 5799
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34


Found at i:148 original size:16 final size:17

Alignment explanation


    Indices: 109--149  Score: 50
    Period size: 16  Copynumber: 2.4  Consensus size: 17

         99 ATGCAACTAC

                              
        109 AATAAAGATGCTAGGATA
          1 AATAAA-ATGCTAGGATA

                              
        127 AATAAAATG-TAGAGAT-
          1 AATAAAATGCTAG-GATA

                   
        143 AATAAAA
          1 AATAAAA

        150 ATGCAATGAC


Statistics
Matches: 22,  Mismatches: 0, Indels: 4
        0.85            0.00        0.15

Matches are distributed among these distances:
  16   10  0.45
  17    6  0.27
  18    6  0.27

ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22


Consensus pattern (17 bp):   
AATAAAATGCTAGGATA

Found at i:568 original size:3 final size:3

Alignment explanation


    Indices: 560--616  Score: 73
    Period size: 3  Copynumber: 19.0  Consensus size: 3

        550 CAGGGCAACA

                         *                                              
        560 TCT TCT TCT TTT TCT TCCT TC- TCT TCT TCT TCT TCT TCT TCT T-T
          1 TCT TCT TCT TCT TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TCT

                            
        604 TCTT TCT TCT TCT
          1 TC-T TCT TCT TCT

        617 GCCTCAATAC


Statistics
Matches: 48,  Mismatches: 2, Indels: 8
        0.83            0.03        0.14

Matches are distributed among these distances:
   2    4  0.08
   3   38  0.79
   4    6  0.12

ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68


Consensus pattern (3 bp):   
TCT

Done.