Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold4106

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, 351

Length: 585
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46


Found at i:100 original size:9 final size:9

Alignment explanation


    Indices: 88--118  Score: 62
    Period size: 9  Copynumber: 3.4  Consensus size: 9

         78 TATATTTCAT

                     
         88 ATTTTTATA
          1 ATTTTTATA

                     
         97 ATTTTTATA
          1 ATTTTTATA

                     
        106 ATTTTTATA
          1 ATTTTTATA

                
        115 ATTT
          1 ATTT

        119 ATTTATTTAT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   22  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (9 bp):   
ATTTTTATA

Found at i:513 original size:110 final size:110

Alignment explanation


    Indices: 320--584  Score: 367
    Period size: 110  Copynumber: 2.4  Consensus size: 110

        310 TTCAAAAAAG

                      *            *      *                   * *        *   
        320 AAAAATTTTCTAAATAAGGCAATATTTTGCATTT--GAAAGTTCGAGAAAGCGTGCCCTAATGTG
          1 AAAAATTTT-AAAATAAGGCAATGTTTTGCGTTTGGGAAA-TTCGAGAAAACATGCCCTAAGGTG

                  *                *  **                    
        383 CTGGGTTTCGATTTTTCTCGTTCGACCTAATAGC-CAAATATCCTTTC
         64 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTC-AATATCCTTTC

                                                                             
        430 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
          1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT

                                         *              *
        495 GGGTGTCGATTTTTCTCGTTCAACAAAATGGCTCAATATCCTTTT
         66 GGGTGTCGATTTTTCTCGTTCAACAAAATAGCTCAATATCCTTTC

                                                          
        540 AAAAA-TTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGA
          1 AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGA

        585 G


Statistics
Matches: 140,  Mismatches: 12, Indels: 7
        0.88            0.08        0.04

Matches are distributed among these distances:
 109   61  0.44
 110   74  0.53
 111    5  0.04

ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34


Consensus pattern (110 bp):   
AAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGATTTTTCTCGTTCAACAAAATAGCTCAATATCCTTTC
Done.