Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01498.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: 7540
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33


Found at i:3492 original size:31 final size:31

Alignment explanation


    Indices: 3457--3517  Score: 113
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       3447 AATGAAAAAA

                                           
       3457 CACCTCTGACTGATTTTTCATAAAATATATT
          1 CACCTCTGACTGATTTTTCATAAAATATATT

                     *                    
       3488 CACCTCTGAGTGATTTTTCATAAAATATAT
          1 CACCTCTGACTGATTTTTCATAAAATATAT

       3518 CCATGTTATT


Statistics
Matches: 29,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  31   29  1.00

ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41


Consensus pattern (31 bp):   
CACCTCTGACTGATTTTTCATAAAATATATT

Found at i:5190 original size:31 final size:31

Alignment explanation


    Indices: 5153--5262  Score: 85
    Period size: 31  Copynumber: 3.4  Consensus size: 31

       5143 CTTCTCCCTC

                                           
       5153 TTTTTCATTCTCACGTCTGAAGCAACTTCTT
          1 TTTTTCATTCTCACGTCTGAAGCAACTTCTT

                         * * *  ****            *
       5184 TTTTTCATTCTTCCCATTTCCTTCCAACCTCTCCCTC
          1 TTTTTCATTC-TCACGTCT-GAAGCAA-CT-T--CTT

                                    *      
       5221 TTTTTCATTCTCACGTCTGAAGCATCTTCTT
          1 TTTTTCATTCTCACGTCTGAAGCAACTTCTT

                       
       5252 TTTTTCATTCT
          1 TTTTTCATTCT

       5263 TCTTCCCATT


Statistics
Matches: 56,  Mismatches: 17, Indels: 12
        0.66            0.20        0.14

Matches are distributed among these distances:
  31   23  0.41
  32    5  0.09
  33    4  0.07
  34    4  0.07
  35    3  0.05
  36    5  0.09
  37   12  0.21

ACGTcount: A:0.15, C:0.31, G:0.05, T:0.49


Consensus pattern (31 bp):   
TTTTTCATTCTCACGTCTGAAGCAACTTCTT

Found at i:5225 original size:68 final size:70

Alignment explanation


    Indices: 5142--5300  Score: 268
    Period size: 68  Copynumber: 2.3  Consensus size: 70

       5132 TCAACTTTAC

                                                                             
       5142 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-TTCTTCCCATTTCCT
          1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT

                 
       5206 TCCAA
         66 TCCAA

                                               *                             
       5211 CC-TCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
          1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCA-T-TTCTTCCCATTTC

                   
       5275 CTTCCAA
         64 CTTCCAA

                   *           
       5282 CCTTCTCACTCTTTTTCAT
          1 CCTTCTCCCTCTTTTTCAT

       5301 GCTTCTATCC


Statistics
Matches: 84,  Mismatches: 2, Indels: 5
        0.92            0.02        0.05

Matches are distributed among these distances:
  68   45  0.54
  69    2  0.02
  71   22  0.26
  72   15  0.18

ACGTcount: A:0.13, C:0.35, G:0.04, T:0.48


Consensus pattern (70 bp):   
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCAACTTCTTTTTTTCATTTCTTCCCATTTCCT
TCCAA
Done.