Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008612.1 Kokia drynarioides strain JFW-HI SEQ_123290, 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: 13566
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36


Found at i:2145 original size:59 final size:59

Alignment explanation


    Indices: 2061--2195  Score: 198
    Period size: 59  Copynumber: 2.3  Consensus size: 59

       2051 ACATTTTATG

                 *    *    *                 *  *             *        
       2061 AAAGTGCAAGCACCATAATAAAGCATATTAATAGTTTAGGTATCACATTGGGTATTTTC
          1 AAAGTACAAGTACCACAATAAAGCATATTAATAATTCAGGTATCACATTGAGTATTTTC

                                                                       
       2120 AAAGTACAAGTACCACAATAAAGCATATTAATAATTCAGGTATCACATTGAGTATTTTC
          1 AAAGTACAAGTACCACAATAAAGCATATTAATAATTCAGGTATCACATTGAGTATTTTC

               *  *          
       2179 AAAATATAAGTACCACA
          1 AAAGTACAAGTACCACA

       2196 TTGGACATTT


Statistics
Matches: 68,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  59   68  1.00

ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30


Consensus pattern (59 bp):   
AAAGTACAAGTACCACAATAAAGCATATTAATAATTCAGGTATCACATTGAGTATTTTC

Found at i:8722 original size:24 final size:25

Alignment explanation


    Indices: 8695--8748  Score: 65
    Period size: 24  Copynumber: 2.2  Consensus size: 25

       8685 TCATCTCCAA

                    *      *        *
       8695 TAACCTTCCACCTTTTATCTT-TTT
          1 TAACCTTCAACCTTTCATCTTCTTG

                   *                 
       8719 TAACCTTTAACCTTTCATCTTCTTG
          1 TAACCTTCAACCTTTCATCTTCTTG

                 
       8744 TAACC
          1 TAACC

       8749 CATTTTCTAG


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
  24   18  0.72
  25    7  0.28

ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48


Consensus pattern (25 bp):   
TAACCTTCAACCTTTCATCTTCTTG

Found at i:12113 original size:15 final size:15

Alignment explanation


    Indices: 12093--12132  Score: 55
    Period size: 15  Copynumber: 2.7  Consensus size: 15

      12083 TTTATTTTTG

                            
      12093 TTTTAATATTTTCAT-
          1 TTTTAAT-TTTTCATA

                       *   
      12108 TTTTAATTTTTTATA
          1 TTTTAATTTTTCATA

                      
      12123 TTTTAATTTT
          1 TTTTAATTTT

      12133 CCCCTTTTGA


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14    6  0.26
  15   17  0.74

ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72


Consensus pattern (15 bp):   
TTTTAATTTTTCATA
Done.