Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005788.1 Kokia drynarioides strain JFW-HI SEQ_120059, 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: 3874
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38


Found at i:1646 original size:18 final size:17

Alignment explanation


    Indices: 1631--1667  Score: 51
    Period size: 17  Copynumber: 2.2  Consensus size: 17

       1621 ATATAAAACC

                             
       1631 TAAAA-AATAAAAAAAA
          1 TAAAACAATAAAAAAAA

                              
       1647 TAAAAGCAAT-AAAAAAA
          1 TAAAA-CAATAAAAAAAA

                
       1664 TAAA
          1 TAAA

       1668 GCAAACAAGT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  16    5  0.26
  17   11  0.58
  18    3  0.16

ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14


Consensus pattern (17 bp):   
TAAAACAATAAAAAAAA

Found at i:1668 original size:16 final size:17

Alignment explanation


    Indices: 1640--1671  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       1630 CTAAAAAATA

                             
       1640 AAAAAAATAAAAGCAAT
          1 AAAAAAATAAAAGCAAT

                            
       1657 AAAAAAAT-AAAGCAA
          1 AAAAAAATAAAAGCAA

       1672 ACAAGTGAGG


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  16    7  0.47
  17    8  0.53

ACGTcount: A:0.78, C:0.06, G:0.06, T:0.09


Consensus pattern (17 bp):   
AAAAAAATAAAAGCAAT

Found at i:2556 original size:20 final size:21

Alignment explanation


    Indices: 2524--2562  Score: 62
    Period size: 20  Copynumber: 1.9  Consensus size: 21

       2514 TAATAATAAA

                                 
       2524 AAAAGATATCTTTTACTTTAG
          1 AAAAGATATCTTTTACTTTAG

                          *    
       2545 AAAAGA-ATCTTTTGCTTT
          1 AAAAGATATCTTTTACTTT

       2563 TTATTCATCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  20   11  0.65
  21    6  0.35

ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44


Consensus pattern (21 bp):   
AAAAGATATCTTTTACTTTAG
Done.