Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009406.1 Kokia drynarioides strain JFW-HI SEQ_124113, 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: 4988
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39


Found at i:333 original size:3 final size:3

Alignment explanation


    Indices: 327--361  Score: 61
    Period size: 3  Copynumber: 11.3  Consensus size: 3

        317 TATCTAATTC

                                                          
        327 ATT ATT ATT ATT ATT ATT ATT ATT ATT AATT ATT A
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT A

        362 AGAAAACTGT


Statistics
Matches: 31,  Mismatches: 0, Indels: 2
        0.94            0.00        0.06

Matches are distributed among these distances:
   3   28  0.90
   4    3  0.10

ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63


Consensus pattern (3 bp):   
ATT

Found at i:1055 original size:17 final size:16

Alignment explanation


    Indices: 1034--1090  Score: 60
    Period size: 17  Copynumber: 3.4  Consensus size: 16

       1024 TAATTAAGTT

                    *       
       1034 TTTAAATCTATTTAAA
          1 TTTAAATCAATTTAAA

                  * *        
       1050 TTTTAATTAAATTTAAA
          1 -TTTAAATCAATTTAAA

                  *          
       1067 TTTAAAGCAAATTTAAA
          1 TTTAAATC-AATTTAAA

                   
       1084 TTTAAAT
          1 TTTAAAT

       1091 TTAAAAATAA


Statistics
Matches: 32,  Mismatches: 7, Indels: 2
        0.78            0.17        0.05

Matches are distributed among these distances:
  16    5  0.16
  17   27  0.84

ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47


Consensus pattern (16 bp):   
TTTAAATCAATTTAAA

Found at i:1057 original size:6 final size:6

Alignment explanation


    Indices: 1043--1095  Score: 65
    Period size: 6  Copynumber: 9.2  Consensus size: 6

       1033 TTTTAAATCT

                       *                         **                
       1043 ATTTAA ATTTTA A-TTAA ATTTAA ATTTAA A-GCAA ATTTAA ATTTAA
          1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA

                    
       1089 ATTTAA A
          1 ATTTAA A

       1096 AATAAATTTG


Statistics
Matches: 39,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
   5    7  0.18
   6   32  0.82

ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45


Consensus pattern (6 bp):   
ATTTAA
Done.