Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001636.1 Kokia drynarioides strain JFW-HI SEQ_113278, 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: 3126
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.28


Found at i:1240 original size:53 final size:52

Alignment explanation


    Indices: 1094--1281  Score: 187
    Period size: 53  Copynumber: 3.6  Consensus size: 52

       1084 TGCGTCTGAA

                             *       *         *  *     *    *   
       1094 AACAATATACACACACCTTGACACATGCTCATGTGTCAGCCCATATGCCCTAG
          1 AACAATATACACACACCCTGACACACGC-CATGTGCCAACCCATGTGCCTTAG

                *                              *           *     
       1147 AACAGTATACACACACCCTGACACACGCCAATGTGTCAACCCATGTGTCTTAG
          1 AACAATATACACACACCCTGACACACGCC-ATGTGCCAACCCATGTGCCTTAG

                             *            *          **       * *
       1200 AACAATATACACACACCATGACACACGTCCGTGTGCCAACCTGTGTGCCTCAA
          1 AACAATATACACACACCCTGACACACG-CCATGTGCCAACCCATGTGCCTTAG

                **             *         
       1253 AACAGCATACACACACCCTAACACACGCC
          1 AACAATATACACACACCCTGACACACGCC

       1282 CGTGTGCTAA


Statistics
Matches: 113,  Mismatches: 20, Indels: 5
        0.82            0.14        0.04

Matches are distributed among these distances:
  52    3  0.03
  53  108  0.96
  54    2  0.02

ACGTcount: A:0.34, C:0.35, G:0.13, T:0.19


Consensus pattern (52 bp):   
AACAATATACACACACCCTGACACACGCCATGTGCCAACCCATGTGCCTTAG

Found at i:1285 original size:53 final size:53

Alignment explanation


    Indices: 1092--1303  Score: 183
    Period size: 53  Copynumber: 4.0  Consensus size: 53

       1082 CATGCGTCTG

                  *            *       *  * *    *  *     *      
       1092 AAAACAATATACACACACCTTGACACATGCTCATGTGTCAGCCCATATGCC-C
          1 AAAACAGTATACACACACCCTGACACACGCCCGTGTGCCAACCCATGTGCCTC

              *                             **    *           *  *
       1144 TAGAACAGTATACACACACCCTGACACACGCCAATGTGTCAACCCATGTGTCTT
          1 -AAAACAGTATACACACACCCTGACACACGCCCGTGTGCCAACCCATGTGCCTC

             *    *            *         *             **        
       1198 AGAACAATATACACACACCATGACACACGTCCGTGTGCCAACCTGTGTGCCTC
          1 AAAACAGTATACACACACCCTGACACACGCCCGTGTGCCAACCCATGTGCCTC

                   *             *                *  *    *      
       1251 AAAACAGCATACACACACCCTAACACACGCCCGTGTGCTAAACCATTTGCCTC
          1 AAAACAGTATACACACACCCTGACACACGCCCGTGTGCCAACCCATGTGCCTC

       1304 CTCCAACTTA


Statistics
Matches: 127,  Mismatches: 31, Indels: 2
        0.79            0.19        0.01

Matches are distributed among these distances:
  53  127  1.00

ACGTcount: A:0.33, C:0.34, G:0.14, T:0.20


Consensus pattern (53 bp):   
AAAACAGTATACACACACCCTGACACACGCCCGTGTGCCAACCCATGTGCCTC
Done.