Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00255.C2

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: 3965
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34


Found at i:1377 original size:162 final size:162

Alignment explanation


    Indices: 1110--1431  Score: 644
    Period size: 162  Copynumber: 2.0  Consensus size: 162

       1100 GCTTGAAATG

                                                                             
       1110 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
          1 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA

                                                                             
       1175 ATATTTTTGTATGTCTCTTGAAATTATCTTCAATCTTATTTTCACGTTTGAGTCACCCGTTCATT
         66 ATATTTTTGTATGTCTCTTGAAATTATCTTCAATCTTATTTTCACGTTTGAGTCACCCGTTCATT

                                            
       1240 TCTTTCAGTGGTATGTTTTCAGTGCTTTATCT
        131 TCTTTCAGTGGTATGTTTTCAGTGCTTTATCT

                                                                             
       1272 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
          1 TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA

                                                                             
       1337 ATATTTTTGTATGTCTCTTGAAATTATCTTCAATCTTATTTTCACGTTTGAGTCACCCGTTCATT
         66 ATATTTTTGTATGTCTCTTGAAATTATCTTCAATCTTATTTTCACGTTTGAGTCACCCGTTCATT

                                          
       1402 TCTTTCAGTGGTATGTTTTCAGTGCTTTAT
        131 TCTTTCAGTGGTATGTTTTCAGTGCTTTAT

       1432 TCGATATGTA


Statistics
Matches: 160,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
 162  160  1.00

ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41


Consensus pattern (162 bp):   
TCAAGCTGATAATCACCTGCATCTATGGCCTCCATGCTCTGCACGTTTGCAACAGGAATTTAGCA
ATATTTTTGTATGTCTCTTGAAATTATCTTCAATCTTATTTTCACGTTTGAGTCACCCGTTCATT
TCTTTCAGTGGTATGTTTTCAGTGCTTTATCT

Found at i:2552 original size:21 final size:21

Alignment explanation


    Indices: 2528--2571  Score: 79
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       2518 ATGTGCGTGC

                                 
       2528 TTGGGCAAACATGGGTATCAG
          1 TTGGGCAAACATGGGTATCAG

                            *    
       2549 TTGGGCAAACATGGGTTTCAG
          1 TTGGGCAAACATGGGTATCAG

              
       2570 TT
          1 TT

       2572 ATGCCAACCA


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  21   22  1.00

ACGTcount: A:0.25, C:0.14, G:0.32, T:0.30


Consensus pattern (21 bp):   
TTGGGCAAACATGGGTATCAG
Done.