Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00101.F1

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: 3133
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34


Found at i:240 original size:104 final size:103

Alignment explanation


    Indices: 28--239  Score: 275
    Period size: 104  Copynumber: 2.1  Consensus size: 103

         18 TCACTTCCAA

                                                                             
         28 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA
          1 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA

                      *        *                  
         93 TCTAAGCTCCCTCAATCACTTTTTCGCTAATCAATTCC
         66 TCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC

                      *         *         *                   *              
        131 ATTTTTAATTTTTTTTCTTGTATTTGTTTTTGAG-TTTACGTTGTTTATCGATGCCTTTGTCGCT
          1 ATTTTT-ATTATTTTTCTTGAATTTG-TTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCT

             *      *     **   *          *   *     
        195 GCTCTAAGGTCCATTGATCGCATTTT-GCTCATCGATTCC
         64 GATCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC

                  
        234 ATTTTT
          1 ATTTTT

        240 TTTGTGAATT


Statistics
Matches: 94,  Mismatches: 13, Indels: 4
        0.85            0.12        0.04

Matches are distributed among these distances:
 103   23  0.24
 104   65  0.69
 105    6  0.06

ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51


Consensus pattern (103 bp):   
ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA
TCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC

Found at i:1487 original size:3 final size:3

Alignment explanation


    Indices: 1479--1512  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

       1469 GCTCAAATGC

                                                         
       1479 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
          1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A

       1513 GATTTCTGGA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00


Consensus pattern (3 bp):   
AAG

Found at i:2131 original size:32 final size:32

Alignment explanation


    Indices: 2090--2152  Score: 126
    Period size: 32  Copynumber: 2.0  Consensus size: 32

       2080 CCATGTTGTC

                                            
       2090 GAGTATCAGTTTGTCACCATAAGCAACTATGA
          1 GAGTATCAGTTTGTCACCATAAGCAACTATGA

                                           
       2122 GAGTATCAGTTTGTCACCATAAGCAACTATG
          1 GAGTATCAGTTTGTCACCATAAGCAACTATG

       2153 TTAATTAGAT


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  32   31  1.00

ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29


Consensus pattern (32 bp):   
GAGTATCAGTTTGTCACCATAAGCAACTATGA
Done.