Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01470.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: 2703
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32


Found at i:747 original size:123 final size:124

Alignment explanation


    Indices: 592--868  Score: 409
    Period size: 123  Copynumber: 2.2  Consensus size: 124

        582 TAATTTATTA

                                                  *                          
        592 TTTAT-AATGAAATTAAAACTAAAAAATGATTTTTTTTTAATTGAATGGTTATTTGTAGTGATAG
          1 TTTATAAAT-AAATTAAAACTAAAAAATGATTTTTTTTGAATTGAATGGTTATTTGTAGTGATAG

                     ***                                 *       *       
        656 ATATTTATTGCGACTCTTAAATA-TCTTCGGCAAAAA-GGAAAAAGAATCTTATAAAAGAT
         65 ATATTTATTAAAACTCTTAAATACT-TTCGGCAAAAAGGGAAAAAAAATCTTAAAAAAGAT

                                     *            *                          
        715 TTTATAAATAAATTAAAACTAAAAAGTGA-TTTTTTTGCATTGAATGGTTATTTGTAGTGATAGA
          1 TTTATAAATAAATTAAAACTAAAAAATGATTTTTTTTGAATTGAATGGTTATTTGTAGTGATAGA

                        *             *                                
        779 TATTTATTAAAAGTCTTAAATACTTTTGGCAAAAAGGGAAAAAAAATCTTAAAAAAGAT
         66 TATTTATTAAAACTCTTAAATACTTTCGGCAAAAAGGGAAAAAAAATCTTAAAAAAGAT

                                     *     
        838 TTTATAAATAAATTAAAACTAAAAACTGATT
          1 TTTATAAATAAATTAAAACTAAAAAATGATT

        869 AAAAAACTGA


Statistics
Matches: 139,  Mismatches: 11, Indels: 7
        0.89            0.07        0.04

Matches are distributed among these distances:
 122   61  0.44
 123   74  0.53
 124    4  0.03

ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37


Consensus pattern (124 bp):   
TTTATAAATAAATTAAAACTAAAAAATGATTTTTTTTGAATTGAATGGTTATTTGTAGTGATAGA
TATTTATTAAAACTCTTAAATACTTTCGGCAAAAAGGGAAAAAAAATCTTAAAAAAGAT

Found at i:2613 original size:10 final size:11

Alignment explanation


    Indices: 2590--2623  Score: 52
    Period size: 11  Copynumber: 3.2  Consensus size: 11

       2580 CATTCACTAG

                       
       2590 TTATTTTTTCT
          1 TTATTTTTTCT

                       
       2601 TTATTTTTT-T
          1 TTATTTTTTCT

                  *    
       2611 TTATTTATTCT
          1 TTATTTTTTCT

              
       2622 TT
          1 TT

       2624 CATTCTTGAT


Statistics
Matches: 21,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  10    9  0.43
  11   12  0.57

ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82


Consensus pattern (11 bp):   
TTATTTTTTCT
Done.