Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00504.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: 2687
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32


Found at i:1456 original size:17 final size:17

Alignment explanation


    Indices: 1434--1487  Score: 53
    Period size: 17  Copynumber: 3.4  Consensus size: 17

       1424 TCAGATACAT

                             
       1434 ATATGTGTCCTACATGG
          1 ATATGTGTCCTACATGG

                            **
       1451 ATATGT-T-C-A-ATTCT
          1 ATATGTGTCCTACA-TGG

                             
       1465 ATATGTGTCCTACATGG
          1 ATATGTGTCCTACATGG

                  
       1482 ATATGT
          1 ATATGT

       1488 TCAATTCTTT


Statistics
Matches: 28,  Mismatches: 4, Indels: 10
        0.67            0.10        0.24

Matches are distributed among these distances:
  13    1  0.04
  14    8  0.29
  15    2  0.07
  16    2  0.07
  17   14  0.50
  18    1  0.04

ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41


Consensus pattern (17 bp):   
ATATGTGTCCTACATGG

Found at i:1471 original size:31 final size:31

Alignment explanation


    Indices: 1433--1495  Score: 126
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       1423 ATCAGATACA

                                           
       1433 TATATGTGTCCTACATGGATATGTTCAATTC
          1 TATATGTGTCCTACATGGATATGTTCAATTC

                                           
       1464 TATATGTGTCCTACATGGATATGTTCAATTC
          1 TATATGTGTCCTACATGGATATGTTCAATTC

             
       1495 T
          1 T

       1496 TTAAAGTTTT


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   32  1.00

ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43


Consensus pattern (31 bp):   
TATATGTGTCCTACATGGATATGTTCAATTC

Found at i:2043 original size:92 final size:92

Alignment explanation


    Indices: 1930--2114  Score: 334
    Period size: 92  Copynumber: 2.0  Consensus size: 92

       1920 AAGTGTCAGA

                                     *                                       
       1930 TACTGTAATGTGTTCAACATGAGTATGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
          1 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG

                            *          
       1995 TTTCCATATAATTCTCGAATTTGGGTG
         66 TTTCCATATAATTCTCAAATTTGGGTG

                                                             *      *        
       2022 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATCATGCCTTTATGCTCG
          1 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG

                                       
       2087 TTTCCATATAATTCTCAAATTTGGGTG
         66 TTTCCATATAATTCTCAAATTTGGGTG

             
       2114 T
          1 T

       2115 CATACATGAG


Statistics
Matches: 89,  Mismatches: 4, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  92   89  1.00

ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43


Consensus pattern (92 bp):   
TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
TTTCCATATAATTCTCAAATTTGGGTG

Found at i:2130 original size:38 final size:38

Alignment explanation


    Indices: 2088--2161  Score: 139
    Period size: 38  Copynumber: 1.9  Consensus size: 38

       2078 TTATGCTCGT

                                                  
       2088 TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC
          1 TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC

                           *                    
       2126 TTCCATATAATTCTCGAATTTGGGTGTCATACATGA
          1 TTCCATATAATTCTCAAATTTGGGTGTCATACATGA

       2162 TTACTTCAGA


Statistics
Matches: 35,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  38   35  1.00

ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38


Consensus pattern (38 bp):   
TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC
Done.