Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g01132.N4

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: 4382
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35


Found at i:245 original size:6 final size:6

Alignment explanation


    Indices: 236--272  Score: 74
    Period size: 6  Copynumber: 6.2  Consensus size: 6

        226 AAAAAAAAAA

                                                       
        236 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
          1 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A

        273 TTTATGCAAT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   31  1.00

ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00


Consensus pattern (6 bp):   
ACCCAC

Found at i:4242 original size:31 final size:31

Alignment explanation


    Indices: 4193--4369  Score: 219
    Period size: 31  Copynumber: 5.7  Consensus size: 31

       4183 TCACAAAAAC

                  *                  *     
       4193 AAATCAGTTACACTACAAACAAGCTGTCGAT
          1 AAATCAATTACACTACAAACAAGCTATCGAT

                *     *           **      *
       4224 AAATTAATTAGACTACAAACAAATTATCGAC
          1 AAATCAATTACACTACAAACAAGCTATCGAT

                  *                        
       4255 AAATCAGTTACACTACAAACAAGCTATCGAT
          1 AAATCAATTACACTACAAACAAGCTATCGAT

                *     *           **       
       4286 AAATTAATTAGACTACAAACAAATTATCGAT
          1 AAATCAATTACACTACAAACAAGCTATCGAT

                                   * *     
       4317 AAATCAATTACACTACAAACAAGTTGTCGAT
          1 AAATCAATTACACTACAAACAAGCTATCGAT

                  *               
       4348 AAATCAGTTACACTACAAACAA
          1 AAATCAATTACACTACAAACAA

       4370 TCTGTCAATC


Statistics
Matches: 123,  Mismatches: 23, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  31  123  1.00

ACGTcount: A:0.48, C:0.19, G:0.08, T:0.24


Consensus pattern (31 bp):   
AAATCAATTACACTACAAACAAGCTATCGAT

Found at i:4288 original size:62 final size:62

Alignment explanation


    Indices: 4191--4369  Score: 295
    Period size: 62  Copynumber: 2.9  Consensus size: 62

       4181 ACTCACAAAA

                                                                          
       4191 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG
          1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG

                                       *                                  
       4253 ACAAATCAGTTACACTACAAACAAGCTATCGATAAATTAATTAGACTACAAACAAATTATCG
          1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG

             *      *                *           * *   *           
       4315 ATAAATCAATTACACTACAAACAAGTTGTCGATAAATCAGTTACACTACAAACAA
          1 ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAA

       4370 TCTGTCAATC


Statistics
Matches: 109,  Mismatches: 8, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  62  109  1.00

ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24


Consensus pattern (62 bp):   
ACAAATCAGTTACACTACAAACAAGCTGTCGATAAATTAATTAGACTACAAACAAATTATCG

Done.