Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008128.1 Kokia drynarioides strain JFW-HI SEQ_122786, 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, 793

Length: 1322
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28


Found at i:1063 original size:24 final size:24

Alignment explanation


    Indices: 950--1056  Score: 160
    Period size: 24  Copynumber: 4.5  Consensus size: 24

        940 TTTAGCCCAC

                     *              
        950 ACGAGCCCAAAATGATTAGCTCTT
          1 ACGAGCCCAGAATGATTAGCTCTT

             *            *         
        974 ATGAGCCCAGAATGTTTAGCTCTT
          1 ACGAGCCCAGAATGATTAGCTCTT

             *                      
        998 AAGAGCCCAGAATGATTAGCTCTT
          1 ACGAGCCCAGAATGATTAGCTCTT

                   *      *         
       1022 ACGAGCCTAGAATGGTTAGCTCTT
          1 ACGAGCCCAGAATGATTAGCTCTT

                       
       1046 ACGAGCCCAGA
          1 ACGAGCCCAGA

       1057 TTGGTTAACC


Statistics
Matches: 74,  Mismatches: 9, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  24   74  1.00

ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25


Consensus pattern (24 bp):   
ACGAGCCCAGAATGATTAGCTCTT

Found at i:1211 original size:82 final size:82

Alignment explanation


    Indices: 1073--1292  Score: 359
    Period size: 82  Copynumber: 2.7  Consensus size: 82

       1063 AACCAGTGTA

                                                               *     *       
       1073 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAACCATCGATACGAT
          1 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATCAATACGAT

                             
       1138 CCAGAATTTCTCACTCT
         66 CCAGAATTTCTCACTCT

                                *                             *          * * 
       1155 CGATGCTGCTCACACAAGCTAATGAGAATCCGCAACATATGCGAAGACTCGGCCATCAATATGGT
          1 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATCAATACGAT

                             
       1220 CCAGAATTTCTCACTCT
         66 CCAGAATTTCTCACTCT

                                          *          **             
       1237 CGATGCTGCTCACACAAGCTGATGAGAATCTGCAACATATGTAAAGACTCAGCCAT
          1 CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCAT

       1293 TGAAGGAATC


Statistics
Matches: 127,  Mismatches: 11, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  82  127  1.00

ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22


Consensus pattern (82 bp):   
CGATGCTGCTCACACAAGCTGATGAGAATCCGCAACATATGCGAAGACTCAGCCATCAATACGAT
CCAGAATTTCTCACTCT
Done.