Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006665.1 Kokia drynarioides strain JFW-HI SEQ_121257, 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: 9539
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34


Found at i:864 original size:7 final size:6

Alignment explanation


    Indices: 832--865  Score: 52
    Period size: 6  Copynumber: 5.7  Consensus size: 6

        822 CACATTCCTC

                                                    
        832 TTTTC- TTTTCT TTTTCT TTTTCT TTTTCAT TTTT
          1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTC-T TTTT

        866 GGTAAACTAC


Statistics
Matches: 27,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   5    5  0.19
   6   17  0.63
   7    5  0.19

ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82


Consensus pattern (6 bp):   
TTTTCT

Found at i:5828 original size:2 final size:2

Alignment explanation


    Indices: 5821--5854  Score: 68
    Period size: 2  Copynumber: 17.0  Consensus size: 2

       5811 GAGGATTAAA

                                                              
       5821 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       5855 TATGCTGTAA


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   32  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Found at i:7004 original size:62 final size:61

Alignment explanation


    Indices: 6877--7005  Score: 134
    Period size: 62  Copynumber: 2.1  Consensus size: 61

       6867 ATCCTAAATA

                                                    **    *     *     * *
       6877 TAAAAAATTAACAAATTTAACCCTCAATATTTACAAAAAATTGTCATTTTAGTTCTAATTT
          1 TAAAAAATTAACAAATTTAACCCTCAATATTTACAAAAAACCGTCAATTTAGATCTAACTC

                        *       * *  *              *                      
       6938 TAAAAAATTTAATAAATTTAGCTCTTAATATTTACAAAAACCCGTCAATTTA-ATCATAACTC
          1 TAAAAAA-TTAACAAATTTAACCCTCAATATTTACAAAAAACCGTCAATTTAGATC-TAACTC

                  
       7000 TAAAAA
          1 TAAAAA

       7006 TAAAAATAAT


Statistics
Matches: 55,  Mismatches: 11, Indels: 3
        0.80            0.16        0.04

Matches are distributed among these distances:
  61    9  0.16
  62   46  0.84

ACGTcount: A:0.47, C:0.14, G:0.03, T:0.36


Consensus pattern (61 bp):   
TAAAAAATTAACAAATTTAACCCTCAATATTTACAAAAAACCGTCAATTTAGATCTAACTC
Done.