Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g03648.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: 3929
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26


Found at i:1291 original size:18 final size:18

Alignment explanation


    Indices: 1270--1310  Score: 64
    Period size: 18  Copynumber: 2.3  Consensus size: 18

       1260 TGAGCGTGAT

                              
       1270 CGTGACCATGATAGAGAC
          1 CGTGACCATGATAGAGAC

                 * *          
       1288 CGTGATCGTGATAGAGAC
          1 CGTGACCATGATAGAGAC

                 
       1306 CGTGA
          1 CGTGA

       1311 GCGTTATAGG


Statistics
Matches: 21,  Mismatches: 2, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  18   21  1.00

ACGTcount: A:0.29, C:0.20, G:0.32, T:0.20


Consensus pattern (18 bp):   
CGTGACCATGATAGAGAC

Found at i:1319 original size:18 final size:18

Alignment explanation


    Indices: 1278--1319  Score: 66
    Period size: 18  Copynumber: 2.3  Consensus size: 18

       1268 ATCGTGACCA

                           *  
       1278 TGATAGAGACCGTGATCG
          1 TGATAGAGACCGTGAGCG

                              
       1296 TGATAGAGACCGTGAGCG
          1 TGATAGAGACCGTGAGCG

             *    
       1314 TTATAG
          1 TGATAG

       1320 GGAGAGGGAG


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  18   22  1.00

ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24


Consensus pattern (18 bp):   
TGATAGAGACCGTGAGCG

Found at i:1355 original size:18 final size:18

Alignment explanation


    Indices: 1301--1382  Score: 56
    Period size: 18  Copynumber: 4.6  Consensus size: 18

       1291 GATCGTGATA

                *            *
       1301 GAGACCGTGAGCGTTATA
          1 GAGAGCGTGAGCGTTATC

             *   * *     **   
       1319 GGGAGAGGGAGCGGGATC
          1 GAGAGCGTGAGCGTTATC

                              
       1337 GAGAGCGTGAGCGTTATC
          1 GAGAGCGTGAGCGTTATC

             *  *     * *     
       1355 GTGATCGTGACCATTATC
          1 GAGAGCGTGAGCGTTATC

                *     
       1373 GAGAACGTGA
          1 GAGAGCGTGA

       1383 CCGCAACCGT


Statistics
Matches: 46,  Mismatches: 18, Indels: 0
        0.72            0.28        0.00

Matches are distributed among these distances:
  18   46  1.00

ACGTcount: A:0.26, C:0.16, G:0.39, T:0.20


Consensus pattern (18 bp):   
GAGAGCGTGAGCGTTATC

Found at i:1383 original size:18 final size:18

Alignment explanation


    Indices: 1334--1384  Score: 57
    Period size: 18  Copynumber: 2.8  Consensus size: 18

       1324 AGGGAGCGGG

                   *     * *  
       1334 ATCGAGAGCGTGAGCGTT
          1 ATCGAGAACGTGACCATT

                *  *          
       1352 ATCGTGATCGTGACCATT
          1 ATCGAGAACGTGACCATT

                           
       1370 ATCGAGAACGTGACC
          1 ATCGAGAACGTGACC

       1385 GCAACCGTGA


Statistics
Matches: 27,  Mismatches: 6, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  18   27  1.00

ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24


Consensus pattern (18 bp):   
ATCGAGAACGTGACCATT
Done.