Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01456.N2

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, 768

Length: 1281
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32


Found at i:1168 original size:22 final size:22

Alignment explanation


    Indices: 1100--1188  Score: 92
    Period size: 22  Copynumber: 4.0  Consensus size: 22

       1090 GATACTTTTA

                                   
       1100 ATGTGGTGTAATATTAGTTATGC
          1 ATGTGGTGTAATATTAGTTAT-C

                    **        *      
       1123 ACT-TGG-ACAATATTGTTGTTATC
          1 A-TGTGGTGTAATA-T-TAGTTATC

                                  
       1146 ATGTGGTGTAATATTAGTTATC
          1 ATGTGGTGTAATATTAGTTATC

              *                  
       1168 ATATGGTGTAATATTAGTTAT
          1 ATGTGGTGTAATATTAGTTAT

       1189 GCACTTGGAT


Statistics
Matches: 54,  Mismatches: 7, Indels: 11
        0.75            0.10        0.15

Matches are distributed among these distances:
  22   32  0.59
  23   11  0.20
  24   11  0.20

ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45


Consensus pattern (22 bp):   
ATGTGGTGTAATATTAGTTATC

Found at i:1248 original size:68 final size:68

Alignment explanation


    Indices: 1103--1251  Score: 210
    Period size: 68  Copynumber: 2.2  Consensus size: 68

       1093 ACTTTTAATG

                *                                                   *  *     
       1103 TGGTGTAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATATTAGTTATC
          1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC

               
       1168 ATA
         66 ATA

                *                      *   *                                 
       1171 TGGTGTAATATTAGTTATGCACTTGGATAATGTTGTTGTTATCATGTGGTGTAATACTAATTATG
          1 TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTAT-

            *  *
       1236 TATT
         65 CATA

                         
       1240 TGG-ATAATATTA
          1 TGGTATAATATTA

       1252 TTAATTTCTA


Statistics
Matches: 73,  Mismatches: 7, Indels: 2
        0.89            0.09        0.02

Matches are distributed among these distances:
  68   68  0.93
  69    5  0.07

ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45


Consensus pattern (68 bp):   
TGGTATAATATTAGTTATGCACTTGGACAATATTGTTGTTATCATGTGGTGTAATACTAATTATC
ATA
Done.