Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014415.1 Kokia drynarioides strain JFW-HI SEQ_129453, 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: 9146
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33


Found at i:997 original size:14 final size:15

Alignment explanation


    Indices: 978--1006  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

        968 ATAAAGCCAA

                           
        978 TTCACT-CTACTTCC
          1 TTCACTGCTACTTCC

                           
        992 TTCACTGCTACTTCC
          1 TTCACTGCTACTTCC

       1007 ATTATTCGCA


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    6  0.43
  15    8  0.57

ACGTcount: A:0.14, C:0.41, G:0.03, T:0.41


Consensus pattern (15 bp):   
TTCACTGCTACTTCC

Found at i:2621 original size:72 final size:72

Alignment explanation


    Indices: 2486--2622  Score: 168
    Period size: 72  Copynumber: 1.9  Consensus size: 72

       2476 CATTTAATAA

                       *                     *                       **      
       2486 ATTTTCTGAAATATCAAAGAACTTCAAAGATGATAACTCCCCTATAGACAATGGAATTTGACCAG
          1 ATTTTCTGAAACATCAAAGAACTTCAAAGATGACAACTCCCCTATAGACAATGGAATGGGACCAG

                   
       2551 TTAATTG
         66 TTAATTG

                 *               *                 *      *  **              
       2558 ATTTTTTGAAACATCAAAG-ATTTCCAAAGATGACAACTTCCCTATCGATGATGGAATGGGACCA
          1 ATTTTCTGAAACATCAAAGAACTT-CAAAGATGACAACTCCCCTATAGACAATGGAATGGGACCA

             
       2622 G
         65 G

       2623 AAATTTTGTT


Statistics
Matches: 54,  Mismatches: 10, Indels: 2
        0.82            0.15        0.03

Matches are distributed among these distances:
  71    3  0.06
  72   51  0.94

ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29


Consensus pattern (72 bp):   
ATTTTCTGAAACATCAAAGAACTTCAAAGATGACAACTCCCCTATAGACAATGGAATGGGACCAG
TTAATTG

Found at i:3867 original size:69 final size:69

Alignment explanation


    Indices: 3790--3940  Score: 293
    Period size: 69  Copynumber: 2.2  Consensus size: 69

       3780 AAACCCCAAA

                                              *                              
       3790 TTTCCACAAAATGCCTTTAATTTCCACAAAATTTTCTATCAAGGAAATTTCTAATTAATTGCATT
          1 TTTCCACAAAATGCCTTTAATTTCCACAAAATTTGCTATCAAGGAAATTTCTAATTAATTGCATT

                
       3855 TAAT
         66 TAAT

                                                                             
       3859 TTTCCACAAAATGCCTTTAATTTCCACAAAATTTGCTATCAAGGAAATTTCTAATTAATTGCATT
          1 TTTCCACAAAATGCCTTTAATTTCCACAAAATTTGCTATCAAGGAAATTTCTAATTAATTGCATT

                
       3924 TAAT
         66 TAAT

                         
       3928 TTTCCACAAAATG
          1 TTTCCACAAAATG

       3941 TAATATGAAT


Statistics
Matches: 81,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
  69   81  1.00

ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39


Consensus pattern (69 bp):   
TTTCCACAAAATGCCTTTAATTTCCACAAAATTTGCTATCAAGGAAATTTCTAATTAATTGCATT
TAAT
Done.