Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01610.P17

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: 4918
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39


Found at i:502 original size:16 final size:16

Alignment explanation


    Indices: 481--512  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

        471 GCGTGGAAGA

                            
        481 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

                            
        497 AAGAGAATAGTTTCAG
          1 AAGAGAATAGTTTCAG

        513 TTGAATATTA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25


Consensus pattern (16 bp):   
AAGAGAATAGTTTCAG

Found at i:1322 original size:39 final size:39

Alignment explanation


    Indices: 1268--1350  Score: 130
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       1258 CCACTGGCCA

                    *                              
       1268 CCACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                                     *        **   
       1307 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                 
       1346 CCACC
          1 CCACC

       1351 CGTCACCACC


Statistics
Matches: 40,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  39   40  1.00

ACGTcount: A:0.22, C:0.40, G:0.18, T:0.20


Consensus pattern (39 bp):   
CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

Found at i:3671 original size:31 final size:31

Alignment explanation


    Indices: 3635--3697  Score: 126
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       3625 TTCCTTATTT

                                           
       3635 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
          1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC

                                           
       3666 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
          1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC

             
       3697 C
          1 C

       3698 TTCTCGTACT


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  31   32  1.00

ACGTcount: A:0.06, C:0.33, G:0.03, T:0.57


Consensus pattern (31 bp):   
CCTTTTTGTTTTCATTATTCTCTCTTCCTCC

Found at i:4231 original size:39 final size:39

Alignment explanation


    Indices: 4181--4261  Score: 126
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       4171 ACCGGCCACA

                  *                                
       4181 ACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGTAC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

                                   *        *    * 
       4220 ACCATCATCGTTCACCAGTCAGGTAGTCACCATCGGTCC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

               
       4259 ACC
          1 ACC

       4262 CGTCACCACC


Statistics
Matches: 38,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  39   38  1.00

ACGTcount: A:0.23, C:0.38, G:0.19, T:0.20


Consensus pattern (39 bp):   
ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC
Done.