Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g00576.F1

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, 504

Length: 841
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40


Found at i:82 original size:37 final size:37

Alignment explanation


    Indices: 41--146  Score: 178
    Period size: 37  Copynumber: 2.9  Consensus size: 37

         31 CTAGCTGCTT

                                                 
         41 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC
          1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC

                            *                    
         78 ATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTC
          1 ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC

                                    *        
        115 ATAATCTTCTTTGCTGAGG-TTTGTTGAGTTCT
          1 ATAATCTTCTTTGCTG-GGTTTTGCTGAGTTCT

        147 GAGTTCATTT


Statistics
Matches: 65,  Mismatches: 3, Indels: 2
        0.93            0.04        0.03

Matches are distributed among these distances:
  37   64  0.98
  38    1  0.02

ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47


Consensus pattern (37 bp):   
ATAATCTTCTTTGCTGGGTTTTGCTGAGTTCTAAGTC

Found at i:274 original size:42 final size:42

Alignment explanation


    Indices: 227--311  Score: 143
    Period size: 42  Copynumber: 2.0  Consensus size: 42

        217 TGCTGAGTTC

                                        *         *   
        227 TGCTGAGTTCCAAGTTCATTTCTAGCTATTCATAATCTTCTT
          1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT

                      *                               
        269 TGCTGAGTTCTAAGTTCATTTCTAGCTACTCATAATCTACTT
          1 TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT

             
        311 T
          1 T

        312 CAACTATGCC


Statistics
Matches: 40,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  42   40  1.00

ACGTcount: A:0.22, C:0.21, G:0.12, T:0.45


Consensus pattern (42 bp):   
TGCTGAGTTCCAAGTTCATTTCTAGCTACTCATAATCTACTT

Found at i:292 original size:91 final size:89

Alignment explanation


    Indices: 76--277  Score: 307
    Period size: 91  Copynumber: 2.2  Consensus size: 89

         66 GAGTTCTAAG

                                                 *                        *  
         76 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGTCATAATCTTCTTTGCTGAGGTTTGTTG
          1 TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG

                 **                 
        141 AGTTCTGAGTTCATTTCTAGCTAC
         66 AGTTCCAAGTTCATTTCTAGCTAC

                            *                          *                     
        165 TCATAAAATCTTCTTTACTGAGTTTTGCTGAGTTCTAAGCCATTATCTTCTTTGCTGA-GTTCTG
          1 TCAT--AATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTT-TG

                                      *
        229 CTGAGTTCCAAGTTCATTTCTAGCTAT
         63 CTGAGTTCCAAGTTCATTTCTAGCTAC

                                  
        256 TCATAATCTTCTTTGCTGAGTT
          1 TCATAATCTTCTTTGCTGAGTT

        278 CTAAGTTCAT


Statistics
Matches: 102,  Mismatches: 8, Indels: 6
        0.88            0.07        0.05

Matches are distributed among these distances:
  89   21  0.21
  90    3  0.03
  91   78  0.76

ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46


Consensus pattern (89 bp):   
TCATAATCTTCTTTGCTGAGTTTTGCTGAGTTCTAAGCCATAATCTTCTTTGCTGAGGTTTGCTG
AGTTCCAAGTTCATTTCTAGCTAC
Done.