Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005032.1 Kokia drynarioides strain JFW-HI SEQ_118796, 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, 843

Length: 1406
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33


Found at i:199 original size:49 final size:49

Alignment explanation


    Indices: 33--331  Score: 185
    Period size: 49  Copynumber: 6.1  Consensus size: 49

         23 TTCATGTCTC

                   *   *  *    *                     ***     
         33 CATGGTATCGGGTTCGCCGATGCGGCCTCAACCTTTCCCATTTCATC-T
          1 CATGGTACCGGATTTGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT

              ** *       * * *                                *
         81 CACAGAACCGGATCTACTGTTGCGGCCTCAATCC-TTCCCAT-AATATCTG
          1 CATGGTACCGGATTTGCCGTTGCGGCCTCAA-CCTTTCCCATCAA-ATCTT

               *                     *   *          *         
        130 CTAAGGTACCGGATTTGCCGTTGCGACCTTAACCTTTCCCGTCAAATCTT
          1 C-ATGGTACCGGATTTGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT

                       *  *       *  *               ***     
        180 CATGGTACCGGGTTCGCCGTTGTGGTCTCAACCTTTCCCATTTCATCTT
          1 CATGGTACCGGATTTGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT

                 *         **      *               *          *
        229 CATGGAACCGGATTTATCGTTGCTGCCTCAATCC-TTCCTAT-AATATCTG
          1 CATGGTACCGGATTTGCCGTTGCGGCCTCAA-CCTTTCCCATCAA-ATCTT

               *        *                *          *  *      
        278 CTAAGGTACCGGGTTTGCCGTTGCGGCCTTAACCTTTCCCTTCTAATCTT
          1 C-ATGGTACCGGATTTGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT

                
        328 CATG
          1 CATG

        332 TTTTTCTCAG


Statistics
Matches: 182,  Mismatches: 58, Indels: 21
        0.70            0.22        0.08

Matches are distributed among these distances:
  48   31  0.17
  49   80  0.44
  50   68  0.37
  51    3  0.02

ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33


Consensus pattern (49 bp):   
CATGGTACCGGATTTGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTT

Found at i:281 original size:148 final size:147

Alignment explanation


    Indices: 33--331  Score: 456
    Period size: 148  Copynumber: 2.0  Consensus size: 147

         23 TTCATGTCTC

                   *                                                         
         33 CATGGTATCGGGTTCGCCGATGCGGCCTCAACCTTTCCCATTTCATCTCACAGAACCGGATCTAC
          1 CATGGTACCGGGTTCGCCGATGCGGCCTCAACCTTTCCCATTTCATCTCACAGAACCGGATCTAC

                                                                             
         98 TGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCGGATTTGCCGTTGCGACCTTAAC
         66 TGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCGGATTTGCCGTTGCGACCTTAAC

                             
        163 CTTTCCCGTCAAATCTT
        131 CTTTCCCGTCAAATCTT

                               *  *  *                         **         *  
        180 CATGGTACCGGGTTCGCCGTTGTGGTCTCAACCTTTCCCATTTCATCTTCATGGAACCGGATTTA
          1 CATGGTACCGGGTTCGCCGATGCGGCCTCAACCTTTCCCATTTCATC-TCACAGAACCGGATCTA

                    *              *                      *            *     
        245 -TCGTTGCTGCCTCAATCCTTCCTATAATATCTGCTAAGGTACCGGGTTTGCCGTTGCGGCCTTA
         65 CT-GTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCGGATTTGCCGTTGCGACCTTA

                     *  *      
        309 ACCTTTCCCTTCTAATCTT
        129 ACCTTTCCCGTCAAATCTT

                
        328 CATG
          1 CATG

        332 TTTTTCTCAG


Statistics
Matches: 137,  Mismatches: 13, Indels: 3
        0.90            0.08        0.02

Matches are distributed among these distances:
 147   44  0.32
 148   93  0.68

ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33


Consensus pattern (147 bp):   
CATGGTACCGGGTTCGCCGATGCGGCCTCAACCTTTCCCATTTCATCTCACAGAACCGGATCTAC
TGTTGCGGCCTCAATCCTTCCCATAATATCTGCTAAGGTACCGGATTTGCCGTTGCGACCTTAAC
CTTTCCCGTCAAATCTT
Done.