Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01610.P13

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: 6408
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40


Found at i:529 original size:34 final size:35

Alignment explanation


    Indices: 486--556  Score: 135
    Period size: 35  Copynumber: 2.1  Consensus size: 35

        476 CATTCTTTAC

                                               
        486 CTAGAGTTTCT-CCTCTTTTTTGGTACATAATTAG
          1 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG

                                               
        520 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG
          1 CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG

              
        555 CT
          1 CT

        557 TTCTTCTCTA


Statistics
Matches: 36,  Mismatches: 0, Indels: 1
        0.97            0.00        0.03

Matches are distributed among these distances:
  34   11  0.31
  35   25  0.69

ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46


Consensus pattern (35 bp):   
CTAGAGTTTCTCCCTCTTTTTTGGTACATAATTAG

Found at i:1820 original size:39 final size:39

Alignment explanation


    Indices: 1766--1848  Score: 130
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       1756 CCACTGGCCA

                    *                              
       1766 CCACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                                     *        **   
       1805 CCACCATCATCGTTCACCAGTCAGGTAGTCACCATTGGT
          1 CCACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGT

                 
       1844 CCACC
          1 CCACC

       1849 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:4169 original size:31 final size:31

Alignment explanation


    Indices: 4133--4195  Score: 126
    Period size: 31  Copynumber: 2.0  Consensus size: 31

       4123 TTCCTTATTT

                                           
       4133 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
          1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC

                                           
       4164 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC
          1 CCTTTTTGTTTTCATTATTCTCTCTTCCTCC

             
       4195 C
          1 C

       4196 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:5721 original size:39 final size:39

Alignment explanation


    Indices: 5671--5751  Score: 126
    Period size: 39  Copynumber: 2.1  Consensus size: 39

       5661 ACCGGCCACA

                  *                                
       5671 ACCATCGTCGTTCACCAGTCAGGCAGTCACCACCGGTAC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

                                   *        *    * 
       5710 ACCATCATCGTTCACCAGTCAGGTAGTCACCATCGGTCC
          1 ACCATCATCGTTCACCAGTCAGGCAGTCACCACCGGTAC

               
       5749 ACC
          1 ACC

       5752 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.