Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00319.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: 2912
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28


Found at i:2401 original size:54 final size:56

Alignment explanation


    Indices: 2295--2434  Score: 153
    Period size: 54  Copynumber: 2.5  Consensus size: 56

       2285 GGATGTGGGG

                                                           *        
       2295 GTGGTTGTGGAAGCATAGTGAATAGCGGCAGCTGCGGTGCCGGTGGTTGTGGT-GC
          1 GTGGTTGTGGAAGCATAGTGAATAGCGGCAGCTGCGGTGCCGGTGGTGGTGGTGGC

                                           *  *      *                
       2350 -TGGTTGTGGAAGCATAGTGAATAGCGGCAGTTGTGGCT-CTGGCT-GTGGTGGTGGC
          1 GTGGTTGTGGAAGCATAGTGAATAGCGGCAGCTGCGG-TGCCGG-TGGTGGTGGTGGC

                                *         
       2405 TGTGGAGGTTGTGGAAGCATGGTGAATAGC
          1 -GT---GGTTGTGGAAGCATAGTGAATAGC

       2435 AGTGGTTGTG


Statistics
Matches: 72,  Mismatches: 5, Indels: 11
        0.82            0.06        0.12

Matches are distributed among these distances:
  54   44  0.61
  55    4  0.06
  57    1  0.01
  60   23  0.32

ACGTcount: A:0.16, C:0.12, G:0.44, T:0.27


Consensus pattern (56 bp):   
GTGGTTGTGGAAGCATAGTGAATAGCGGCAGCTGCGGTGCCGGTGGTGGTGGTGGC

Found at i:2489 original size:9 final size:9

Alignment explanation


    Indices: 2475--2521  Score: 64
    Period size: 9  Copynumber: 5.6  Consensus size: 9

       2465 GGTTGTGGCG

                     
       2475 GTGGCGGTT
          1 GTGGCGGTT

                     
       2484 GTGGCGGTT
          1 GTGGCGGTT

                     
       2493 GTGGC-G--
          1 GTGGCGGTT

                     
       2499 GTGGCGGTT
          1 GTGGCGGTT

                *    
       2508 GTGGTGGTT
          1 GTGGCGGTT

                 
       2517 GTGGC
          1 GTGGC

       2522 AGTGGGTGTG


Statistics
Matches: 33,  Mismatches: 2, Indels: 6
        0.80            0.05        0.15

Matches are distributed among these distances:
   6    5  0.15
   7    1  0.03
   8    1  0.03
   9   26  0.79

ACGTcount: A:0.00, C:0.11, G:0.57, T:0.32


Consensus pattern (9 bp):   
GTGGCGGTT

Found at i:2497 original size:24 final size:24

Alignment explanation


    Indices: 2465--2526  Score: 106
    Period size: 24  Copynumber: 2.6  Consensus size: 24

       2455 GGAGAACAGT

                                    
       2465 GGTTGTGGCGGTGGCGGTTGTGGC
          1 GGTTGTGGCGGTGGCGGTTGTGGC

                                   *
       2489 GGTTGTGGCGGTGGCGGTTGTGGT
          1 GGTTGTGGCGGTGGCGGTTGTGGC

                     *    
       2513 GGTTGTGGCAGTGG
          1 GGTTGTGGCGGTGG

       2527 GTGTGGCAAC


Statistics
Matches: 36,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  24   36  1.00

ACGTcount: A:0.02, C:0.10, G:0.58, T:0.31


Consensus pattern (24 bp):   
GGTTGTGGCGGTGGCGGTTGTGGC

Found at i:2812 original size:27 final size:27

Alignment explanation


    Indices: 2782--2835  Score: 99
    Period size: 27  Copynumber: 2.0  Consensus size: 27

       2772 GATTCTGGCT

                               *       
       2782 TTGCATATCTATTTTCCTTCAAAAATA
          1 TTGCATATCTATTTTCCTTAAAAAATA

                                       
       2809 TTGCATATCTATTTTCCTTAAAAAATA
          1 TTGCATATCTATTTTCCTTAAAAAATA

       2836 AACTTTCCTG


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27   26  1.00

ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44


Consensus pattern (27 bp):   
TTGCATATCTATTTTCCTTAAAAAATA
Done.