Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03061.F2

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: 3103
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29


Found at i:1240 original size:150 final size:150

Alignment explanation


    Indices: 965--1300  Score: 390
    Period size: 150  Copynumber: 2.2  Consensus size: 150

        955 ATATAGCAAA

                              *   *            *             *  *  *         
        965 ACACTATTATGATTCAAGCAAGATGAAATCCGAATTGACGGGAAAGATTTTGGCAGTGGCAAGCA
          1 ACACTATTATGATTCAAGTAAGGTGAAATCCGAATCGACGGGAAAGATTCTGACACTGGCAAGCA

                                  *             *            *               
       1030 AATCTTCCTTCAAACATCCCATTGATGACCATAAGAGTTCCAATTCCATTGCTTCATTGGAATAC
         66 AATCTTCCTTCAAACATCCCATCGATGACCATAAGACTTCCAATTCCATCGCTTCATTGGAATAC

               *         *      *
       1095 GAGCAAA-CTGTGTCTGGTGT
        131 GA-AAAACCTGTGCCTGGTGC

                           *        *            **                        * 
       1115 ACACTATTATGATTCTAGTAAGGTAAAATCCGAATCGGTGGGAAAGATTCTGACAACT-GCAATC
          1 ACACTATTATGATTCAAGTAAGGTGAAATCCGAATCGACGGGAAAGATTCTGAC-ACTGGCAAGC

              *                           *           **             *       
       1179 AAGTCTTCC-TCAAAGCATCCCATCGATGATCATAAGACTTCTGATTCCATCGCTTCGTTGGAAT
         65 AAATCTTCCTTCAAA-CATCCCATCGATGACCATAAGACTTCCAATTCCATCGCTTCATTGGAAT

             *                    
       1243 ATGAAAAACCTGTGCCTGGTGC
        129 ACGAAAAACCTGTGCCTGGTGC

                        *  *              *     
       1265 ACACTATTATGACTCGAGTAAGGTGAAATCTGAATC
          1 ACACTATTATGATTCAAGTAAGGTGAAATCCGAATC

       1301 AGTGAGAAGC


Statistics
Matches: 156,  Mismatches: 27, Indels: 6
        0.83            0.14        0.03

Matches are distributed among these distances:
 149    8  0.05
 150  146  0.94
 151    2  0.01

ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28


Consensus pattern (150 bp):   
ACACTATTATGATTCAAGTAAGGTGAAATCCGAATCGACGGGAAAGATTCTGACACTGGCAAGCA
AATCTTCCTTCAAACATCCCATCGATGACCATAAGACTTCCAATTCCATCGCTTCATTGGAATAC
GAAAAACCTGTGCCTGGTGC

Found at i:1420 original size:132 final size:132

Alignment explanation


    Indices: 1182--1432  Score: 353
    Period size: 132  Copynumber: 1.9  Consensus size: 132

       1172 TGCAATCAAG

                                                   * *           *   *       
       1182 TCTTCCTCAAAGCATCCCATCGATGATCATAAGACTTCTGATTCCATCGCTTCGTTGGAATATGA
          1 TCTTCCTCAAAGCATCCCATCGATGATCATAAGACTTCTAACTCCATCGCTTCATTGCAATATGA

                *                               *           *                
       1247 AAAACCTGTGCCTGGTGCACACTATTATGACTCGAGTAAGGTGAAATCTGAATCAGTGAGAAGCA
         66 AAAAACTGTGCCTGGTGCACACTATTATGACTCGAGCAAGGTGAAATCCGAATCAGTGAGAAGCA

              
       1312 AA
        131 AA

                                 *             *           *               * 
       1314 TCTTCCTTCAAA-CATCCCATTGATGATCATAAGAGTTCTAACTCCTTTCG-TTCATTGCAATCT
          1 TCTTCC-TCAAAGCATCCCATCGATGATCATAAGACTTCTAACTCC-ATCGCTTCATTGCAATAT

                               *            *                       
       1377 GAAAAAACTGTGCCTGGTGTACACTATTATGATTCGAGCAAGGTGAAATCCGAATC
         64 GAAAAAACTGTGCCTGGTGCACACTATTATGACTCGAGCAAGGTGAAATCCGAATC

       1433 GGTGGGAAAG


Statistics
Matches: 104,  Mismatches: 13, Indels: 4
        0.86            0.11        0.03

Matches are distributed among these distances:
 132   96  0.92
 133    8  0.08

ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29


Consensus pattern (132 bp):   
TCTTCCTCAAAGCATCCCATCGATGATCATAAGACTTCTAACTCCATCGCTTCATTGCAATATGA
AAAAACTGTGCCTGGTGCACACTATTATGACTCGAGCAAGGTGAAATCCGAATCAGTGAGAAGCA
AA
Done.