Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01102.P2

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: 5350
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36


Found at i:2475 original size:18 final size:19

Alignment explanation


    Indices: 2452--2488  Score: 58
    Period size: 19  Copynumber: 2.0  Consensus size: 19

       2442 AATTTAGCTT

                               
       2452 TTAAACTC-TAAATGAAAA
          1 TTAAACTCTTAAATGAAAA

                          *    
       2470 TTAAACTCTTAAATTAAAA
          1 TTAAACTCTTAAATGAAAA

       2489 ATTTTTGTTT


Statistics
Matches: 17,  Mismatches: 1, Indels: 1
        0.89            0.05        0.05

Matches are distributed among these distances:
  18    8  0.47
  19    9  0.53

ACGTcount: A:0.54, C:0.11, G:0.03, T:0.32


Consensus pattern (19 bp):   
TTAAACTCTTAAATGAAAA

Found at i:3373 original size:28 final size:28

Alignment explanation


    Indices: 3341--3395  Score: 65
    Period size: 28  Copynumber: 1.9  Consensus size: 28

       3331 TTATTTTGAC

                *                        
       3341 TTTTTAAAATTTAGTTAAATATTTTAAAA
          1 TTTTCAAAATTT-GTTAAATATTTTAAAA

                 *      *  *          
       3370 TTTTCTAAATTTTTTTAATATTTTAA
          1 TTTTCAAAATTTGTTAAATATTTTAA

       3396 TATATTATAT


Statistics
Matches: 22,  Mismatches: 4, Indels: 1
        0.81            0.15        0.04

Matches are distributed among these distances:
  28   12  0.55
  29   10  0.45

ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58


Consensus pattern (28 bp):   
TTTTCAAAATTTGTTAAATATTTTAAAA

Found at i:3387 original size:20 final size:18

Alignment explanation


    Indices: 3341--3384  Score: 52
    Period size: 20  Copynumber: 2.3  Consensus size: 18

       3331 TTATTTTGAC

                                
       3341 TTTTTAAAATTTAGTTAAAT
          1 TTTTTAAAATTT--TTAAAT

            *                  
       3361 ATTTTAAAATTTTCTAAAT
          1 TTTTTAAAATTTT-TAAAT

                 
       3380 TTTTT
          1 TTTTT

       3385 TAATATTTTA


Statistics
Matches: 21,  Mismatches: 2, Indels: 3
        0.81            0.08        0.12

Matches are distributed among these distances:
  18    1  0.05
  19    9  0.43
  20   11  0.52

ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59


Consensus pattern (18 bp):   
TTTTTAAAATTTTTAAAT

Found at i:4346 original size:4 final size:4

Alignment explanation


    Indices: 4337--4361  Score: 50
    Period size: 4  Copynumber: 6.2  Consensus size: 4

       4327 GAAGCATGGT

                                           
       4337 CCAC CCAC CCAC CCAC CCAC CCAC C
          1 CCAC CCAC CCAC CCAC CCAC CCAC C

       4362 TTAAAAGGTA


Statistics
Matches: 21,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   21  1.00

ACGTcount: A:0.24, C:0.76, G:0.00, T:0.00


Consensus pattern (4 bp):   
CCAC

Done.