Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00580.P1

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: 13040
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34


Found at i:324 original size:22 final size:22

Alignment explanation


    Indices: 294--354  Score: 65
    Period size: 22  Copynumber: 2.9  Consensus size: 22

        284 ATTGAACATG

                                  
        294 TGCA-TGTGCGAACCTCTTCCA
          1 TGCATTGTGCGAACCTCTTCCA

                      *          * 
        315 TGCATTGTGCAAACCT-TATCTA
          1 TGCATTGTGCGAACCTCT-TCCA

               *               
        337 TGCGTTGTGCGAA-CTCTT
          1 TGCATTGTGCGAACCTCTT

        355 AGCATGAATC


Statistics
Matches: 33,  Mismatches: 4, Indels: 6
        0.77            0.09        0.14

Matches are distributed among these distances:
  21    8  0.24
  22   25  0.76

ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34


Consensus pattern (22 bp):   
TGCATTGTGCGAACCTCTTCCA

Found at i:5789 original size:20 final size:20

Alignment explanation


    Indices: 5764--5805  Score: 84
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       5754 CGAATGAGCC

                                
       5764 TTCTCTTTTCCAACATAATA
          1 TTCTCTTTTCCAACATAATA

                                
       5784 TTCTCTTTTCCAACATAATA
          1 TTCTCTTTTCCAACATAATA

              
       5804 TT
          1 TT

       5806 GCATTGTTTG


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   22  1.00

ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48


Consensus pattern (20 bp):   
TTCTCTTTTCCAACATAATA

Found at i:8084 original size:47 final size:47

Alignment explanation


    Indices: 8013--8168  Score: 231
    Period size: 47  Copynumber: 3.3  Consensus size: 47

       8003 CCCTTCGGGA

                      *               *      * *     * *   
       8013 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
          1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC

             *                                             
       8060 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
          1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC

                                                             
       8107 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
          1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC

                         
       8156 CTTATCACATATA
          1 CTTATCACATATA

       8169 CTATCATGTA


Statistics
Matches: 99,  Mismatches: 8, Indels: 4
        0.89            0.07        0.04

Matches are distributed among these distances:
  47   52  0.53
  49   47  0.47

ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32


Consensus pattern (47 bp):   
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC

Found at i:8139 original size:49 final size:49

Alignment explanation


    Indices: 8013--8168  Score: 230
    Period size: 49  Copynumber: 3.3  Consensus size: 49

       8003 CCCTTCGGGA

                                        *      * *     * *   
       8013 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
          1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC

             *                                               
       8060 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
          1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC

                                                             
       8107 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
          1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC

                         
       8156 CTTATCACATATA
          1 CTTATCACATATA

       8169 CTATCATGTA


Statistics
Matches: 98,  Mismatches: 7, Indels: 6
        0.88            0.06        0.05

Matches are distributed among these distances:
  46    1  0.01
  47   45  0.46
  49   52  0.53

ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32


Consensus pattern (49 bp):   
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.