Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g01455.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: 8899
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34


Found at i:2266 original size:42 final size:41

Alignment explanation


    Indices: 2186--2268  Score: 107
    Period size: 42  Copynumber: 2.0  Consensus size: 41

       2176 GTCCCCTTAT

                                     *                
       2186 TCTAATAAACTACTAAAGCATAAAAGAAAATAGTTTCCTAAC
          1 TCTAATAAACTACTAAAGCATAAAAAAAAATAG-TTCCTAAC

                                                       
       2228 TCTAATAAACTACTAAAAAG-ATAAAATAAAAATA-TTCCTAA
          1 TCTAATAAACTACT--AAAGCATAAAA-AAAAATAGTTCCTAA

       2269 AATATGAATA


Statistics
Matches: 37,  Mismatches: 1, Indels: 6
        0.84            0.02        0.14

Matches are distributed among these distances:
  42   21  0.57
  43    6  0.16
  44   10  0.27

ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27


Consensus pattern (41 bp):   
TCTAATAAACTACTAAAGCATAAAAAAAAATAGTTCCTAAC

Found at i:2305 original size:19 final size:18

Alignment explanation


    Indices: 2283--2322  Score: 71
    Period size: 19  Copynumber: 2.2  Consensus size: 18

       2273 TGAATAAAAC

                               
       2283 TTATCTACCTAAATAATAT
          1 TTATCTACCTAAATAA-AT

                              
       2302 TTATCTACCTAAATAAAT
          1 TTATCTACCTAAATAAAT

               
       2320 TTA
          1 TTA

       2323 AAATATATAC


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  18    5  0.24
  19   16  0.76

ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42


Consensus pattern (18 bp):   
TTATCTACCTAAATAAAT

Found at i:6972 original size:42 final size:42

Alignment explanation


    Indices: 6909--6997  Score: 124
    Period size: 42  Copynumber: 2.1  Consensus size: 42

       6899 TCCTAATTGG

                          * *                         
       6909 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
          1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA

                      *               *        *      
       6951 GAAAATAGTTTCCTAACTCTAATAAATTACTAAAAGATAAAA
          1 GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA

            *    
       6993 TAAAA
          1 GAAAA

       6998 ATATGAATAA


Statistics
Matches: 41,  Mismatches: 6, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  42   41  1.00

ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28


Consensus pattern (42 bp):   
GAAAATAGTTCCCTAACTCTAATAAACTACTAAAACATAAAA
Done.