Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Gorai.008G270300.1-JGI_221_v2.1

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: 1978
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30


Found at i:1319 original size:15 final size:16

Alignment explanation


    Indices: 1285--1321  Score: 51
    Period size: 15  Copynumber: 2.4  Consensus size: 16

       1275 AACAACCAGT

                         *  
       1285 TCAA-ACAATGGGTCA
          1 TCAATACAATGGGACA

                            
       1300 TCAATACAATGGGACA
          1 TCAATACAATGGGACA

                   
       1316 -CAATAC
          1 TCAATAC

       1322 GCTCCAGGTG


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  15   10  0.50
  16   10  0.50

ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19


Consensus pattern (16 bp):   
TCAATACAATGGGACA

Found at i:1539 original size:4 final size:4

Alignment explanation


    Indices: 1530--1556  Score: 54
    Period size: 4  Copynumber: 6.8  Consensus size: 4

       1520 ATGTAATAGC

                                             
       1530 ATCT ATCT ATCT ATCT ATCT ATCT ATC
          1 ATCT ATCT ATCT ATCT ATCT ATCT ATC

       1557 AAGTATGAAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   4   23  1.00

ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48


Consensus pattern (4 bp):   
ATCT

Done.