Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_795 ID=scaffold_795-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: 3751
ACGTcount: A:0.29, C:0.11, G:0.21, T:0.36

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


Found at i:2311 original size:137 final size:136

Alignment explanation


    Indices: 2060--2334  Score: 419
    Period size: 137  Copynumber: 2.0  Consensus size: 136

       2050 TGTAAGTGAC

                                              *             *                
       2060 TTTTTACTCCGTTTTTAATGATTCTATGTTTTTGGAGTCGTTGTGGACTAACCTAGCTAGCCCAG
          1 TTTTTACTCCGTTTTTAATGATTCTATGTTTTTGAAGTCGTTGTGGACGAACCTAGCTAGCCCAG

                      *                         *                        *   
       2125 CGACTCATTTGTGAAACTGTTAAAGTATTAAGGTTTTAACATTGATGAATGTG-TGTGTTTTGAT
         66 CGACTCATTTCTGAAACTGTTAAAGTATTAAGGTTTAAACATTGATGAATGTGATGTGTTTCGAT

                  
       2189 GTTTGA
        131 GTTTGA

                                                                             
       2195 TTTTATACTCCGTTTTTAATGATTTCTATG-TTTTGAAGTCGTTGTGGACGAACCTAGCTAGCCG
          1 TTTT-TACTCCGTTTTTAATGA-TTCTATGTTTTTGAAGTCGTTGTGGACGAACCTAGCTAGCC-

            ** *  *                                                          
       2259 GGGGGATTCATTTCTGAAACTGTTAAAGTATTAAGGTTTAAACATTGATGAATGTGTATGTGTTT
         63 CAGCGACTCATTTCTGAAACTGTTAAAGTATTAAGGTTTAAACATTGATGAATGTG-ATGTGTTT

                      
       2324 CGATGTTTGA
        127 CGATGTTTGA

             
       2334 T
          1 T

       2335 GGTAGAAAAT


Statistics
Matches: 126,  Mismatches: 9, Indels: 6
        0.89            0.06        0.04

Matches are distributed among these distances:
 135    4  0.03
 136   48  0.38
 137   57  0.45
 139   17  0.13

ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42


Consensus pattern (136 bp):   
TTTTTACTCCGTTTTTAATGATTCTATGTTTTTGAAGTCGTTGTGGACGAACCTAGCTAGCCCAG
CGACTCATTTCTGAAACTGTTAAAGTATTAAGGTTTAAACATTGATGAATGTGATGTGTTTCGAT
GTTTGA
Done.