Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_26813

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, 227

Length: 379
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.30


Found at i:158 original size:15 final size:15

Alignment explanation


    Indices: 138--187  Score: 75
    Period size: 15  Copynumber: 3.3  Consensus size: 15

        128 CCCACCATTG

                           
        138 CCATCATTCCCTAAA
          1 CCATCATTCCCTAAA

                         * 
        153 CCATCATTCCCTAGA
          1 CCATCATTCCCTAAA

                           
        168 CCATCATTCCC-AAA
          1 CCATCATTCCCTAAA

                  
        182 GCCATC
          1 -CCATC

        188 CATACCATCA


Statistics
Matches: 32,  Mismatches: 2, Indels: 2
        0.89            0.06        0.06

Matches are distributed among these distances:
  14    2  0.06
  15   30  0.94

ACGTcount: A:0.30, C:0.42, G:0.04, T:0.24


Consensus pattern (15 bp):   
CCATCATTCCCTAAA

Found at i:199 original size:24 final size:24

Alignment explanation


    Indices: 167--228  Score: 124
    Period size: 24  Copynumber: 2.6  Consensus size: 24

        157 CATTCCCTAG

                                    
        167 ACCATCATTCCCAAAGCCATCCAT
          1 ACCATCATTCCCAAAGCCATCCAT

                                    
        191 ACCATCATTCCCAAAGCCATCCAT
          1 ACCATCATTCCCAAAGCCATCCAT

                          
        215 ACCATCATTCCCAA
          1 ACCATCATTCCCAA

        229 GGCGTGGGGT


Statistics
Matches: 38,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  24   38  1.00

ACGTcount: A:0.34, C:0.42, G:0.03, T:0.21


Consensus pattern (24 bp):   
ACCATCATTCCCAAAGCCATCCAT
Done.