Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03127.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, 831

Length: 1385
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33


Found at i:93 original size:6 final size:6

Alignment explanation


    Indices: 82--118  Score: 58
    Period size: 6  Copynumber: 6.3  Consensus size: 6

         72 TTGAAACGCT

                                    *                   
         82 TTCTCC TTCTCC TTCTCC TTCCCC TTCTCC TTC-CC TT
          1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TT

        119 TATTGTGTCC


Statistics
Matches: 29,  Mismatches: 2, Indels: 1
        0.91            0.06        0.03

Matches are distributed among these distances:
   5    4  0.14
   6   25  0.86

ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49


Consensus pattern (6 bp):   
TTCTCC

Found at i:918 original size:15 final size:16

Alignment explanation


    Indices: 898--927  Score: 53
    Period size: 15  Copynumber: 1.9  Consensus size: 16

        888 GGCTGGGGCG

                            
        898 AATCTTC-AGAGTGCA
          1 AATCTTCAAGAGTGCA

                           
        913 AATCTTCAAGAGTGC
          1 AATCTTCAAGAGTGC

        928 TGATCTTACT


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  15    7  0.50
  16    7  0.50

ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27


Consensus pattern (16 bp):   
AATCTTCAAGAGTGCA

Found at i:1129 original size:20 final size:20

Alignment explanation


    Indices: 1104--1143  Score: 80
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       1094 ATTATCCTCC

                                
       1104 TGAAACTTGTTGAAGGGTTG
          1 TGAAACTTGTTGAAGGGTTG

                                
       1124 TGAAACTTGTTGAAGGGTTG
          1 TGAAACTTGTTGAAGGGTTG

       1144 AGGAGTGATA


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.25, C:0.05, G:0.35, T:0.35


Consensus pattern (20 bp):   
TGAAACTTGTTGAAGGGTTG
Done.