Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00378.P2

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: 4037
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31


Found at i:605 original size:35 final size:35

Alignment explanation


    Indices: 566--635  Score: 131
    Period size: 35  Copynumber: 2.0  Consensus size: 35

        556 AAGATATCAG

                                               
        566 CAAAACTATGTCAGACATATCAAGTTACTCATAGC
          1 CAAAACTATGTCAGACATATCAAGTTACTCATAGC

                                 *             
        601 CAAAACTATGTCAGACATATCCAGTTACTCATAGC
          1 CAAAACTATGTCAGACATATCAAGTTACTCATAGC

        636 GACTTGGTTG


Statistics
Matches: 34,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  35   34  1.00

ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26


Consensus pattern (35 bp):   
CAAAACTATGTCAGACATATCAAGTTACTCATAGC

Found at i:2832 original size:153 final size:152

Alignment explanation


    Indices: 2569--3073  Score: 762
    Period size: 153  Copynumber: 3.3  Consensus size: 152

       2559 GATATTCCAC

                               * *       * *                                 
       2569 GTGATATTTCTGGTCTATCTTGTTTGGAAAAACTTGATCTTAGTGGTAACAATTTCATCAGCATA
          1 GTGATATTTCTGGTCTATCCTCTTTGG-ACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA

                                   *       * *                               
       2634 CCTGCATCTCTTACTCGACTCTCGAAGCTTGGATATCTTGA-ATTGTCAAATTGCAACATGTGCA
         65 CCTGCATCTCTTACTCGACTCTCAAAGCTTGAAAATCTT-ATATTGTCAAATTGCAACATGTGCA

                                    
       2698 CTCTTGGTGAAGCAGATACTCATA
        129 CTCTTGGTGAAGCAGATACTCATA

                                        *                                    
       2722 GTGATATTTCTGGTCTATCCTCTTTGTGGCATCTTGATCTTAGTGGTAACAATTTCATCAGCATA
          1 GTGATATTTCTGGTCTATCCTCTTTG-GACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA

             *                                                               
       2787 CATGCATCTCTTACTCGACTCTCAAAGCTTGAAAATCTTATATTGTCAAATTGCAACATGTGCAC
         65 CCTGCATCTCTTACTCGACTCTCAAAGCTTGAAAATCTTATATTGTCAAATTGCAACATGTGCAC

                                   
       2852 TCTTGGTGAAGCAGATACTCATA
        130 TCTTGGTGAAGCAGATACTCATA

                                        *        *                           
       2875 GTGATATTTCTGGTCTATCCTCTTTGCGTCATCTTGACCTTAGTGGTAACAATTTCATCAGCATA
          1 GTGATATTTCTGGTCTATCCTCTTTG-GACATCTTGATCTTAGTGGTAACAATTTCATCAGCATA

                                          * ***                              
       2940 CCTGCATCTCTTACTCGACTCTCAAAGCTTCATGTTCTT-TACTTGTCAAATTGCAACATGTGCA
         65 CCTGCATCTCTTACTCGACTCTCAAAGCTTGAAAATCTTATA-TTGTCAAATTGCAACATGTGCA

                                   *
       3004 CTCTTGGTGAAGCAGATACTCATT
        129 CTCTTGGTGAAGCAGATACTCATA

                 *                     *  *    *          
       3028 GTGATCTTTCTGGTCTATCCTCTTTGATACGTCTTCATCTTAGTGG
          1 GTGATATTTCTGGTCTATCCTCTTTG-GACATCTTGATCTTAGTGG

       3074 CACTTCCAAA


Statistics
Matches: 324,  Mismatches: 25, Indels: 6
        0.91            0.07        0.02

Matches are distributed among these distances:
 152    3  0.01
 153  320  0.99
 154    1  0.00

ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37


Consensus pattern (152 bp):   
GTGATATTTCTGGTCTATCCTCTTTGGACATCTTGATCTTAGTGGTAACAATTTCATCAGCATAC
CTGCATCTCTTACTCGACTCTCAAAGCTTGAAAATCTTATATTGTCAAATTGCAACATGTGCACT
CTTGGTGAAGCAGATACTCATA
Done.