Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold10314.1

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: 3774
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35


Found at i:2941 original size:15 final size:15

Alignment explanation


    Indices: 2902--2981  Score: 83
    Period size: 15  Copynumber: 5.4  Consensus size: 15

       2892 GTATCTTGGG

                     *     
       2902 TTTCTTTATCCTGGA
          1 TTTCTTTATTCTGGA

             *             
       2917 TCTCTTTATTCTGGA
          1 TTTCTTTATTCTGGA

                       *  *
       2932 TTTCTTTATTCCGGG
          1 TTTCTTTATTCTGGA

                 *          
       2947 TTTCTCTA-TCTTGGA
          1 TTTCTTTATTC-TGGA

                          *
       2962 TTTCTTTATTC-GGT
          1 TTTCTTTATTCTGGA

                  
       2976 TTTCTT
          1 TTTCTT

       2982 GTTATCTTTG


Statistics
Matches: 53,  Mismatches: 10, Indels: 5
        0.78            0.15        0.07

Matches are distributed among these distances:
  14   10  0.19
  15   41  0.77
  16    2  0.04

ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57


Consensus pattern (15 bp):   
TTTCTTTATTCTGGA

Found at i:2971 original size:30 final size:30

Alignment explanation


    Indices: 2893--2980  Score: 92
    Period size: 30  Copynumber: 3.0  Consensus size: 30

       2883 CATAGTATCG

                    *                 *   *
       2893 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
          1 TATCTTGGATTTCTTTATTCC-GGATTTCTC

                                    *      
       2923 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
          1 TATCT-TGGATTTCTTTATTCCGGATTTCTC

                                   *     
       2953 TATCTTGGATTTCTTTATT-CGGTTTTCT
          1 TATCTTGGATTTCTTTATTCCGGATTTCT

       2981 TGTTATCTTT


Statistics
Matches: 50,  Mismatches: 5, Indels: 7
        0.81            0.08        0.11

Matches are distributed among these distances:
  29    9  0.18
  30   37  0.74
  31    4  0.08

ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56


Consensus pattern (30 bp):   
TATCTTGGATTTCTTTATTCCGGATTTCTC
Done.