Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006118.1 Kokia drynarioides strain JFW-HI SEQ_120635, 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: 4045
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32


Found at i:1188 original size:25 final size:26

Alignment explanation


    Indices: 1160--1208  Score: 82
    Period size: 25  Copynumber: 1.9  Consensus size: 26

       1150 AAGAAATTTG

                        *             
       1160 AATTTTATTTTATTA-ATTATTTTTA
          1 AATTTTATTTTAATATATTATTTTTA

                                    
       1185 AATTTTATTTTAATATATTATTTT
          1 AATTTTATTTTAATATATTATTTT

       1209 ATTTTTACAT


Statistics
Matches: 22,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  25   14  0.64
  26    8  0.36

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (26 bp):   
AATTTTATTTTAATATATTATTTTTA

Found at i:1188 original size:31 final size:31

Alignment explanation


    Indices: 1153--1215  Score: 74
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       1143 ATCCTTTAAG

                          * *               
       1153 AAATTTGAATTTTATTTTATTA-ATTATTTTT
          1 AAATTT-AATTTTAATATATTATATTATTTTT

                  *               *        
       1184 AAATTTTATTTTAATATATTATTTTATTTTT
          1 AAATTTAATTTTAATATATTATATTATTTTT

             
       1215 A
          1 A

       1216 CATGATATTT


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  30   12  0.44
  31   15  0.56

ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65


Consensus pattern (31 bp):   
AAATTTAATTTTAATATATTATATTATTTTT

Found at i:1209 original size:13 final size:13

Alignment explanation


    Indices: 1164--1209  Score: 51
    Period size: 13  Copynumber: 3.6  Consensus size: 13

       1154 AATTTGAATT

                    *    
       1164 TTATTTTATTA-A
          1 TTATTTTAATATA

                         *
       1176 TTATTTTTAA-ATT
          1 TTA-TTTTAATATA

                         
       1189 TTATTTTAATATA
          1 TTATTTTAATATA

                    
       1202 TTATTTTA
          1 TTATTTTA

       1210 TTTTTACATG


Statistics
Matches: 28,  Mismatches: 3, Indels: 5
        0.78            0.08        0.14

Matches are distributed among these distances:
  12   10  0.36
  13   18  0.64

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (13 bp):   
TTATTTTAATATA

Done.