Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1272

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: 2205
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29


Found at i:746 original size:154 final size:151

Alignment explanation


    Indices: 402--826  Score: 597
    Period size: 154  Copynumber: 2.8  Consensus size: 151

        392 AAGGTATCAT

                                 *                          *                
        402 TTTCC-ATGTAATTTTGGTCGCAGATTTCA-TATTTGAAGTCAAAACAACCCCCCGGTCAAAATT
          1 TTTCCTATGTAATTTTGGTCGTAGATTTCATTA-TTGAAGTCAAAACAGCCCCCCGGTCAAAATT

                    *            * *                                         
        465 GGTGCCCCCAATCCAAGATGGCGTCCAGATTTGAAAGGCAGGAGGGTGCATTTTTTAAACTTTTA
         65 GGTG-CCCAAATCCAAGATGGTGGCCA-ATTTGAAAGGCAGGAGGGTGCATTTTTTAAACTTTTA

                                    
        530 CGCGATAAGGCAAGTGATATGTCA
        128 CGCGATAAGGCAAGTGATATGTCA

                                             *              *  *             
        554 TTTCCTATGTAATTTTGGTCGTAGATTTCATTACTGAAGTCAAAACAGTCCTCCGGTCAAAATTG
          1 TTTCCTATGTAATTTTGGTCGTAGATTTCATTATTGAAGTCAAAACAGCCCCCCGGTCAAAATTG

                                           *                                 
        619 GTGCCTCAAATCCAAGATGGTGGCCAACTTTTAAAGGCAGGAGGGTGCATTTTTTCAAA-TCTTT
         66 GTGCC-CAAATCCAAGATGGTGGCCAA-TTTGAAAGGCAGGAGGGTGCATTTTTT-AAACT-TTT

               *                     
        683 ACGTGATAAGGCAAGTGATATGTCA
        127 ACGCGATAAGGCAAGTGATATGTCA

                                                         *                   
        708 TTTCCTATGTAATTTTGGTCGTAGATTTCATTATTGAAGTCAAAAAAGCCCCCCGGTCAAAATTG
          1 TTTCCTATGTAATTTTGGTCGTAGATTTCATTATTGAAGTCAAAACAGCCCCCCGGTCAAAATTG

                     *  *                               *   *      
        773 GTGCCCGAAGTCTAAGAT-GTCGGCCAAATTTGAAAGGCAGGAGTGTGAATTTTT
         66 GTGCCC-AAATCCAAGATGGT-GGCC-AATTTGAAAGGCAGGAGGGTGCATTTTT

        827 ATGAGAAAAA


Statistics
Matches: 245,  Mismatches: 19, Indels: 16
        0.88            0.07        0.06

Matches are distributed among these distances:
 152    8  0.03
 153  101  0.41
 154  134  0.55
 155    2  0.01

ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31


Consensus pattern (151 bp):   
TTTCCTATGTAATTTTGGTCGTAGATTTCATTATTGAAGTCAAAACAGCCCCCCGGTCAAAATTG
GTGCCCAAATCCAAGATGGTGGCCAATTTGAAAGGCAGGAGGGTGCATTTTTTAAACTTTTACGC
GATAAGGCAAGTGATATGTCA
Done.