Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005287.1 Kokia drynarioides strain JFW-HI SEQ_119211, 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, 660

Length: 1101
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32


Found at i:110 original size:34 final size:32

Alignment explanation


    Indices: 75--136  Score: 81
    Period size: 32  Copynumber: 1.9  Consensus size: 32

         65 AATAAATAAT

                                              
         75 TTTAGTC-AAACTAAAAATTAAGAAAATAACGAA
          1 TTTAGTCAAAAC--AAAATTAAGAAAATAACGAA

                  *             *        
        108 TTTAGTGAAAACAAAATTAATAAAATAAC
          1 TTTAGTCAAAACAAAATTAAGAAAATAAC

        137 AACTTTGAAT


Statistics
Matches: 26,  Mismatches: 2, Indels: 3
        0.84            0.06        0.10

Matches are distributed among these distances:
  32   16  0.62
  33    6  0.23
  34    4  0.15

ACGTcount: A:0.58, C:0.08, G:0.08, T:0.26


Consensus pattern (32 bp):   
TTTAGTCAAAACAAAATTAAGAAAATAACGAA

Found at i:812 original size:18 final size:15

Alignment explanation


    Indices: 786--845  Score: 59
    Period size: 17  Copynumber: 3.7  Consensus size: 15

        776 AACATTTTCC

                             
        786 TTTAATTAATTTAGAAA
          1 TTTAATTAA-TTA-AAA

                            
        803 TTTCAATTAATT-AAA
          1 TTT-AATTAATTAAAA

                *           
        818 TTTATTTAATTAAAAA
          1 TTTAATTAATT-AAAA

                        
        834 TTTTAATTAATT
          1 -TTTAATTAATT

        846 TACCTGGTTG


Statistics
Matches: 37,  Mismatches: 2, Indels: 8
        0.79            0.04        0.17

Matches are distributed among these distances:
  14    7  0.19
  15    6  0.16
  16    3  0.08
  17   15  0.41
  18    6  0.16

ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52


Consensus pattern (15 bp):   
TTTAATTAATTAAAA

Found at i:842 original size:31 final size:32

Alignment explanation


    Indices: 786--845  Score: 86
    Period size: 31  Copynumber: 1.9  Consensus size: 32

        776 AACATTTTCC

                         *                  
        786 TTTAATTAATTTAGAAATTTCAATTAATTAAA
          1 TTTAATTAATTTAAAAATTTCAATTAATTAAA

                *               *        
        818 TTTATTTAA-TTAAAAATTTTAATTAATT
          1 TTTAATTAATTTAAAAATTTCAATTAATT

        846 TACCTGGTTG


Statistics
Matches: 25,  Mismatches: 3, Indels: 1
        0.86            0.10        0.03

Matches are distributed among these distances:
  31   17  0.68
  32    8  0.32

ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52


Consensus pattern (32 bp):   
TTTAATTAATTTAAAAATTTCAATTAATTAAA
Done.