Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03271.N4

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: 10709
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31


Found at i:2054 original size:47 final size:46

Alignment explanation


    Indices: 1842--2160  Score: 179
    Period size: 47  Copynumber: 6.7  Consensus size: 46

       1832 GGTAGAGAGT

                                                     *        
       1842 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCATCGAGGC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CT-TCATAATCGAGGC

            *  *        *  *  *         *              **   * *
       1891 AGACGCCATGTCACAAACTTGGTCTTACTCTAGCTCTCGCATACCCG-TGT
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T--CATAATCGAGGC

                                           *    *    *        
       1941 CGATGCCATGTCCCAGACATGGTCTTACA-TTGAC-ACAT-CTCGTA-GC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCATAATCG-AGGC

                           *     *                         
       1987 CGATGCATGTCCCAGGCATGTTTTACACTAGCTTACAT-ATCGAGGC
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-CATAATCGAGGC

                           *                    *   *  * * *
       2033 CGATGCAATGTCCCAAACATGTCTTACACTAGC-TCCTGACTCAATGT
          1 CGATGC-ATGTCCCAGACATGTCTTACACTAGCTTCAT-AATCGAGGC

                                                         *   
       2080 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCATAAT-GTGGC
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TCATAATCGAGGC

                             *         *     
       2128 CGATGCATGTCCCAGACGTGTCTTACATTAGCT
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCT

       2161 CACGATAACC


Statistics
Matches: 209,  Mismatches: 44, Indels: 37
        0.72            0.15        0.13

Matches are distributed among these distances:
  44    8  0.04
  45   21  0.10
  46   37  0.18
  47   57  0.27
  48   20  0.10
  49   32  0.15
  50   29  0.14
  51    5  0.02

ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27


Consensus pattern (46 bp):   
CGATGCATGTCCCAGACATGTCTTACACTAGCTTCATAATCGAGGC

Found at i:2150 original size:94 final size:93

Alignment explanation


    Indices: 1987--2161  Score: 239
    Period size: 94  Copynumber: 1.9  Consensus size: 93

       1977 ATCTCGTAGC

                           *     *                                           
       1987 CGATGCATGTCCCAGGCATGTTTTACACTAGCTTACATATCGAGGCCGATGCAATGTCCCAAACA
          1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCAATGTCCCAAACA

                                        
       2052 TGTCTTACACTAGCTCCTGACTCAATGT
         66 TGTCTTACACTAGCTCCTGACTCAATGT

                                                          *                  
       2080 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGC-ATGTCCCA
          1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCAATGTCCCA

            *  *         *      
       2142 GACGTGTCTTACATTAGCTC
         62 AACATGTCTTACACTAGCTC

       2162 ACGATAACCC


Statistics
Matches: 72,  Mismatches: 6, Indels: 7
        0.85            0.07        0.08

Matches are distributed among these distances:
  93    5  0.07
  94   38  0.53
  95   26  0.36
  96    3  0.04

ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28


Consensus pattern (93 bp):   
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCAATGTCCCAAACA
TGTCTTACACTAGCTCCTGACTCAATGT
Done.