Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga10g00227.M2

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: 4442
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32


Found at i:846 original size:3 final size:3

Alignment explanation


    Indices: 832--876  Score: 63
    Period size: 3  Copynumber: 15.0  Consensus size: 3

        822 CCATTTTTTC

                     *                       *            *            
        832 TCT TCT TAT TCT TCT TCT TCT TCT TTT TCT TCT TCA TCT TCT TCT
          1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT

        877 CTTATTATTT


Statistics
Matches: 36,  Mismatches: 6, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67


Consensus pattern (3 bp):   
TCT

Found at i:1104 original size:3 final size:3

Alignment explanation


    Indices: 1096--1125  Score: 60
    Period size: 3  Copynumber: 10.0  Consensus size: 3

       1086 TAATTTACAC

                                                   
       1096 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
          1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA

       1126 GTTCAGCAAT


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   27  1.00

ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33


Consensus pattern (3 bp):   
TAA

Found at i:4060 original size:15 final size:15

Alignment explanation


    Indices: 4040--4071  Score: 64
    Period size: 15  Copynumber: 2.1  Consensus size: 15

       4030 TTTATTTCTA

                           
       4040 TAAAATAATAATCTT
          1 TAAAATAATAATCTT

                           
       4055 TAAAATAATAATCTT
          1 TAAAATAATAATCTT

              
       4070 TA
          1 TA

       4072 CATTCTTTTT


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41


Consensus pattern (15 bp):   
TAAAATAATAATCTT

Found at i:4369 original size:27 final size:27

Alignment explanation


    Indices: 4329--4380  Score: 95
    Period size: 27  Copynumber: 1.9  Consensus size: 27

       4319 TCAGTACTGG

                     *                 
       4329 AATGCACTTTACCGAGATATCTAATGA
          1 AATGCACTTCACCGAGATATCTAATGA

                                     
       4356 AATGCACTTCACCGAGATATCTAAT
          1 AATGCACTTCACCGAGATATCTAAT

       4381 TTCATTAAGT


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  27   24  1.00

ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29


Consensus pattern (27 bp):   
AATGCACTTCACCGAGATATCTAATGA
Done.