Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g02123.C1

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: 4002
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33


Found at i:1177 original size:117 final size:117

Alignment explanation


    Indices: 821--1396  Score: 583
    Period size: 117  Copynumber: 4.9  Consensus size: 117

        811 GTGATTCGAT

                         *          *     **     *  **                       
        821 GTTTCAAGTGAATAATTGCAGTTGATTGGTTTGTGATAGCCAGAAAACTGAGTTTAGGGTGTTTG
          1 GTTTCAAGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTG

                *                *                    *         *
        886 AGATTTA-AGTATAGGAGTGAGGATTTTAGTCTTGAAACGTCTGTGAGTTCAA
         66 AGATATACA-TATAGGAGTGAAGATTTTAGTCTTGAAACGTCGGTGAGTTCAG

            *    *                                 *                *        
        938 TTTTCGAGTGAATTATTGCATTTGGTTGGTAACTTGGTATGTGATTGCTGGAAAACCGAGTTTAG
          1 GTTTCAAGTGAATTATTGCA----GTTGG----TTGGTACGTGATTGCTGGAAAACTGAGTTTAG

                                              *              *           
       1003 GGTGTTTGAGATATACATATAGGAGTGAAGATTTCAGTCTTG-AACTGTTGGTGAGTTC-G
         58 GGTGTTTGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAAC-GTCGGTGAGTTCAG

                  *          *    *              *                       *   
       1062 GTTT-AGGTGTAATTTACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTT
          1 GTTTCAAGTG-AA-TTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTT

                            *     *                 *   *         
       1126 TGAGATATACATATAGTAGTGAGGATTTTAGTCTTGAAACATCGTTGAGTTCAG
         64 TGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACGTCGGTGAGTTCAG

            *                                               *         * *    
       1180 TTTTCAAGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACCGAGTTTA--TTATTTG
          1 GTTTCAAGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTG

                    *          *             *                   
       1243 AGAT-TAATATATAGGAGTTAAGATTTTAGTCTCGAAACGTCGGTGAGTTC-G
         66 AGATAT-ACATATAGGAGTGAAGATTTTAGTCTTGAAACGTCGGTGAGTTCAG

                         *  *                *                        *      
       1294 GTTTACAAGTGAGTTTTTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTATGGTGTT
          1 GTTT-CAAGTGA-ATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTT

                  *  **   *        *              
       1359 TGAGATTTATGTATGGGAGTGAACATTTTAGTCTTGAA
         64 TGAGATATACATATAGGAGTGAAGATTTTAGTCTTGAA

       1397 CAGTTGGTGA


Statistics
Matches: 380,  Mismatches: 58, Indels: 41
        0.79            0.12        0.09

Matches are distributed among these distances:
 114    5  0.01
 115   52  0.14
 116   41  0.11
 117  133  0.35
 118   43  0.11
 119    5  0.01
 121    8  0.02
 123    3  0.01
 124    8  0.02
 125   81  0.21
 126    1  0.00

ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38


Consensus pattern (117 bp):   
GTTTCAAGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTG
AGATATACATATAGGAGTGAAGATTTTAGTCTTGAAACGTCGGTGAGTTCAG

Done.