Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010034.1 Kokia drynarioides strain JFW-HI SEQ_124802, 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: 6455
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:3874 original size:94 final size:94

Alignment explanation


    Indices: 3776--4226  Score: 526
    Period size: 94  Copynumber: 4.8  Consensus size: 94

       3766 TTACAGGCCA

                             *    *     *    *      *             *        * 
       3776 TATCGATGGCTGAGGTATCGCACATGTTGCGAGCCCTCATTAGCTTAGTGTGAGAAGCATCGTTT
          1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT

                                      *  
       3841 ACTGGTAACAATTATATGTACAGATATCG
         66 ACTGGTAACAATTATATGTACAGATACCG

                     *           *       * *   *           *        *        
       3870 TATCGATGGTTGAGGTACCGCTTATGTTANGGGTCTTCATCAGCTTATTGTGAGCAACATCGTAT
          1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT

                      *                **
       3935 ACTGGTAACAGTTATATGTACAGATACTA
         66 ACTGGTAACAATTATATGTACAGATACCG

                *  * *               *           **             *            
       3964 TATCAATAGTTGAGGTACCGCATATTTTACGAGTCCTTTTCAGCTTAGTGTGTGCAGCATCGTAT
          1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT

               *               * * *      
       4029 ACTAGTAAC-ATGTATATGGATAAATACCG
         66 ACTGGTAACAAT-TATATGTACAGATACCG

               *               * *      * *      *                      *    
       4058 TATTGATGGCTGAGGTACCACTTATGTTGCAAGTCCTTATCAGCTTAGTGTGAGCAGCATTGTAT
          1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT

                   *                     
       4123 ACTGGTAGCAATTATATGTACAGATACCG
         66 ACTGGTAACAATTATATGTACAGATACCG

                          **                                 *               
       4152 TATCGATGGCTGAGACACCGCATATGTTACGAGTCCTCATCAGCTTAGTATGAGCAGCATCGTAT
          1 TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT

                      
       4217 ACTGGTAACA
         66 ACTGGTAACA

       4227 GAGACAATTT


Statistics
Matches: 290,  Mismatches: 65, Indels: 4
        0.81            0.18        0.01

Matches are distributed among these distances:
  93    1  0.00
  94  287  0.99
  95    2  0.01

ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32


Consensus pattern (94 bp):   
TATCGATGGCTGAGGTACCGCATATGTTACGAGTCCTCATCAGCTTAGTGTGAGCAGCATCGTAT
ACTGGTAACAATTATATGTACAGATACCG

Found at i:4997 original size:21 final size:21

Alignment explanation


    Indices: 4971--5026  Score: 76
    Period size: 21  Copynumber: 2.7  Consensus size: 21

       4961 TTGGAGTTTG

                                 
       4971 TTGTATCGGTAGAAGTAATAA
          1 TTGTATCGGTAGAAGTAATAA

                        *   *   *
       4992 TTGTATCGGTAGTAGTTATAC
          1 TTGTATCGGTAGAAGTAATAA

                  *       
       5013 TTGTATGGGTAGAA
          1 TTGTATCGGTAGAA

       5027 CTTTCCCAAC


Statistics
Matches: 30,  Mismatches: 5, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  21   30  1.00

ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38


Consensus pattern (21 bp):   
TTGTATCGGTAGAAGTAATAA
Done.