Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000574.1 Kokia drynarioides strain JFW-HI SEQ_111494, 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: 22569
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36

Warning! 8 characters in sequence are not A, C, G, or T


Found at i:90 original size:14 final size:14

Alignment explanation


    Indices: 71--98  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

         61 ATATCTCGAA

                          
         71 ATATACAATTCCTT
          1 ATATACAATTCCTT

                          
         85 ATATACAATTCCTT
          1 ATATACAATTCCTT

         99 TTAATTCACT


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43


Consensus pattern (14 bp):   
ATATACAATTCCTT

Found at i:17302 original size:29 final size:29

Alignment explanation


    Indices: 17239--17304  Score: 71
    Period size: 29  Copynumber: 2.2  Consensus size: 29

      17229 CTTGGTTTTG

                    *    *            *   
      17239 TTTGATTCTATTTTATAGTACAAGGATTAA
          1 TTTGA-TCCATTTAATAGTACAAGGACTAA

            *                             
      17269 ATTGATCCATTTAATAGTA-AAGGAACTAA
          1 TTTGATCCATTTAATAGTACAAGG-ACTAA

                   
      17298 TTTGATC
          1 TTTGATC

      17305 TCGTCCCTAT


Statistics
Matches: 30,  Mismatches: 5, Indels: 3
        0.79            0.13        0.08

Matches are distributed among these distances:
  28    4  0.13
  29   22  0.73
  30    4  0.13

ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41


Consensus pattern (29 bp):   
TTTGATCCATTTAATAGTACAAGGACTAA

Found at i:18108 original size:31 final size:30

Alignment explanation


    Indices: 18073--18131  Score: 75
    Period size: 30  Copynumber: 1.9  Consensus size: 30

      18063 TACAATAATA

                           *                
      18073 AATTTATATTTTAACTCT-CATAAAAAATTAT
          1 AATTTA-ATTTTAACCCTCCA-AAAAAATTAT

                       *                
      18104 AATTTAATTTTTACCCTCCAAAAAAATT
          1 AATTTAATTTTAACCCTCCAAAAAAATT

      18132 CCCCGACTTG


Statistics
Matches: 25,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  30   17  0.68
  31    8  0.32

ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42


Consensus pattern (30 bp):   
AATTTAATTTTAACCCTCCAAAAAAATTAT
Done.