Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01383.F1

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: 3083
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32


Found at i:909 original size:114 final size:114

Alignment explanation


    Indices: 737--968  Score: 455
    Period size: 114  Copynumber: 2.0  Consensus size: 114

        727 GTAGGGTTTT

                                                                             
        737 AAATATATCTTAGTACTGTTTACCCCTTAAATAGTCAAATAGCTAGCTGAATATATTTCATAGGT
          1 AAATATATCTTAGTACTGTTTACCCCTTAAATAGTCAAATAGCTAGCTGAATATATTTCATAGGT

                                                             
        802 TTATAGATCGAGGTTTTAAGTTTGAATATCGGCGGCGTTGTTTCCTGAG
         66 TTATAGATCGAGGTTTTAAGTTTGAATATCGGCGGCGTTGTTTCCTGAG

                          *                                                  
        851 AAATATATCTTAGTTCTGTTTACCCCTTAAATAGTCAAATAGCTAGCTGAATATATTTCATAGGT
          1 AAATATATCTTAGTACTGTTTACCCCTTAAATAGTCAAATAGCTAGCTGAATATATTTCATAGGT

                                                             
        916 TTATAGATCGAGGTTTTAAGTTTGAATATCGGCGGCGTTGTTTCCTGAG
         66 TTATAGATCGAGGTTTTAAGTTTGAATATCGGCGGCGTTGTTTCCTGAG

                
        965 AAAT
          1 AAAT

        969 CTTTTTATCG


Statistics
Matches: 117,  Mismatches: 1, Indels: 0
        0.99            0.01        0.00

Matches are distributed among these distances:
 114  117  1.00

ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38


Consensus pattern (114 bp):   
AAATATATCTTAGTACTGTTTACCCCTTAAATAGTCAAATAGCTAGCTGAATATATTTCATAGGT
TTATAGATCGAGGTTTTAAGTTTGAATATCGGCGGCGTTGTTTCCTGAG

Found at i:1183 original size:18 final size:18

Alignment explanation


    Indices: 1162--1239  Score: 66
    Period size: 18  Copynumber: 4.3  Consensus size: 18

       1152 TACGGGTCCT

                   *       *  
       1162 CCTGCAAGTACAGATGCA
          1 CCTGCAACTACAGATCCA

                       *      
       1180 CCTGCAACTACGGATCCA
          1 CCTGCAACTACAGATCCA

               *    *  *     *
       1198 CCTACAACAACTGATCCG
          1 CCTGCAACTACAGATCCA

               *   *      *   
       1216 CCTACAAGTACAGAGCCA
          1 CCTGCAACTACAGATCCA

                  
       1234 CCTGCA
          1 CCTGCA

       1240 GGTGATGTAG


Statistics
Matches: 47,  Mismatches: 13, Indels: 0
        0.78            0.22        0.00

Matches are distributed among these distances:
  18   47  1.00

ACGTcount: A:0.32, C:0.36, G:0.17, T:0.15


Consensus pattern (18 bp):   
CCTGCAACTACAGATCCA

Found at i:2604 original size:81 final size:81

Alignment explanation


    Indices: 2474--2668  Score: 223
    Period size: 81  Copynumber: 2.4  Consensus size: 81

       2464 TCCCCACCTT

                      *             *     *    *  *   *         *      * *   
       2474 TAAAGAAAGAGAGTGAAGAAGCTTCCAAAAATGAAGTCGAAGCTCCTGAAGCCAACCCAGCTTCA
          1 TAAAGAAAGATAGTGAAGAAGCTTGCAAAACTGAAATCAAAGATCCTGAAGCAAACCCACCATCA

                      *     
       2539 CAAGAAGTTCCACCA-
         66 CAAGAAGTTCAACCAG

              *                                          *          *        
       2554 TCGAAGAAAGATAGTGAAGAAGCTTGCAAAACTGAAATCAAAGATTCTGAAGCAAAGCCACCATC
          1 T-AAAGAAAGATAGTGAAGAAGCTTGCAAAACTGAAATCAAAGATCCTGAAGCAAACCCACCATC

                      *      
       2619 ACAAGAAGTTGAACCAG
         65 ACAAGAAGTTCAACCAG

                             *                
       2636 TAAAGAAAGATAGTGAACAAGCTTTG-AAAACTG
          1 TAAAGAAAGATAGTGAAGAAGC-TTGCAAAACTG

       2669 TTGTCAAGGA


Statistics
Matches: 96,  Mismatches: 16, Indels: 5
        0.82            0.14        0.04

Matches are distributed among these distances:
  80    1  0.01
  81   91  0.95
  82    4  0.04

ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16


Consensus pattern (81 bp):   
TAAAGAAAGATAGTGAAGAAGCTTGCAAAACTGAAATCAAAGATCCTGAAGCAAACCCACCATCA
CAAGAAGTTCAACCAG
Done.