Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_881 ID=scaffold_881-JGI_221_v2.0

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: 2885
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.28

Warning! 100 characters in sequence are not A, C, G, or T


Found at i:2321 original size:149 final size:149

Alignment explanation


    Indices: 2050--2338  Score: 436
    Period size: 149  Copynumber: 1.9  Consensus size: 149

       2040 TTGGAAATAA

                      *     *                                            *   
       2050 AGACAGAAACTTATCCCATTATTTGATGATCCGATGATGAGTGCACATCCATTCAGCCCTGTCAG
          1 AGACAGAAACGTATCCAATTATTTGATGATCCGATGATGAGTGCACATCCATTCAGCCCTGCCAG

                *      * *  *                          *                     
       2115 TATAGTCCAATTCGTTTAGGAAGCCATGAGACGTTTAATCCACTGGTGCTGCAAAATAATCC-GG
         66 TATAATCCAATACCTTGAGGAAGCCATGAGACGTTTAATCCACCGGTGCTGCAAAATAATCCAGG

                                
       2179 AAGAGACCACTTGCTACCTC
        131 -AGAGACCACTTGCTACCTC

                                           *                       *         
       2199 AGACAGAAACGTATCCAATTATTTGATGATCTGATGATGAGTGCACATCCATTCATCCCTGCCAG
          1 AGACAGAAACGTATCCAATTATTTGATGATCCGATGATGAGTGCACATCCATTCAGCCCTGCCAG

                                     *     *         *          *            
       2264 TATAATCCAATACCTTGAGGAAGCCGTGAGAGGTTTAATCCGCCGGTGCTGCTAAATAATCCAGG
         66 TATAATCCAATACCTTGAGGAAGCCATGAGACGTTTAATCCACCGGTGCTGCAAAATAATCCAGG

                      
       2329 AGAGACCACT
        131 AGAGACCACT

       2339 CGCGAGTTTT


Statistics
Matches: 125,  Mismatches: 14, Indels: 2
        0.89            0.10        0.01

Matches are distributed among these distances:
 149  123  0.98
 150    2  0.02

ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26


Consensus pattern (149 bp):   
AGACAGAAACGTATCCAATTATTTGATGATCCGATGATGAGTGCACATCCATTCAGCCCTGCCAG
TATAATCCAATACCTTGAGGAAGCCATGAGACGTTTAATCCACCGGTGCTGCAAAATAATCCAGG
AGAGACCACTTGCTACCTC
Done.