Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014093.1 Kokia drynarioides strain JFW-HI SEQ_129124, whole genome shotgun sequence

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: 310132
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34

Warning! 176 characters in sequence are not A, C, G, or T


File 2 of 2

Found at i:308398 original size:56 final size:56

Alignment explanation


    Indices: 308312--308533  Score: 259
    Period size: 56  Copynumber: 4.0  Consensus size: 56

     308302 CTGATTTTCT

                               *              *             *      *
     308312 TTATATCCGTGAGGATATTGTGAAAAGGGATGTCCGAAAGGACATCAATGTAAAGA
          1 TTATATCCGTGAGGATATTATGAAAAGGGATGTCTGAAAGGACATCAACGTAAAGG

                    *   *                    *        ** *          
     308368 TTATATCCATGAAGATATTATGAAAAGGGATGTTTGAAAGGATTTTAACGTAAAGG
          1 TTATATCCGTGAGGATATTATGAAAAGGGATGTCTGAAAGGACATCAACGTAAAGG

               *              *       *                      *       
     308424 TTAAATCCGTGAGGATATCATGAAAATGGATGTCTGAATA-GACATCAATGTAAAGG
          1 TTATATCCGTGAGGATATTATGAAAAGGGATGTCTGAA-AGGACATCAACGTAAAGG

                  *                     *                 *        
     308480 TTATATTCGT-AGGGATATTATGAAAAGAGATGTCTGAAAGGACATTAACGTAAA
          1 TTATATCCGTGA-GGATATTATGAAAAGGGATGTCTGAAAGGACATCAACGTAAA

     308534 AAGTTGGGGT


Statistics
Matches: 136,  Mismatches: 27, Indels: 6
        0.80            0.16        0.04

Matches are distributed among these distances:
  55    2  0.01
  56  133  0.98
  57    1  0.01

ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28


Consensus pattern (56 bp):   
TTATATCCGTGAGGATATTATGAAAAGGGATGTCTGAAAGGACATCAACGTAAAGG

Found at i:308518 original size:112 final size:112

Alignment explanation


    Indices: 308316--308533  Score: 296
    Period size: 112  Copynumber: 1.9  Consensus size: 112

     308306 TTTTCTTTAT

                          **                                                 
     308316 ATCCGTGAGGATATTGTGAAAAGGGATGTCCGAAAGGACATCAATGTAAAGATTATATCCATGAA
          1 ATCCGTGAGGATATCATGAAAAGGGATGTCCGAAAGGACATCAATGTAAAGATTATATCCATGAA

                          *     *        **                
     308381 GATATTATGAAAAGGGATGTTTGAAAGGATTTTAACGTAAAGGTTAA
         66 GATATTATGAAAAGAGATGTCTGAAAGGACATTAACGTAAAGGTTAA

                                  *       *                     *      * *   
     308428 ATCCGTGAGGATATCATGAAAATGGATGTCTGAATA-GACATCAATGTAAAGGTTATATTCGT-A
          1 ATCCGTGAGGATATCATGAAAAGGGATGTCCGAA-AGGACATCAATGTAAAGATTATATCCATGA

             *                                         
     308491 GGGATATTATGAAAAGAGATGTCTGAAAGGACATTAACGTAAA
         65 -AGATATTATGAAAAGAGATGTCTGAAAGGACATTAACGTAAA

     308534 AAGTTGGGGT


Statistics
Matches: 92,  Mismatches: 12, Indels: 4
        0.85            0.11        0.04

Matches are distributed among these distances:
 111    1  0.01
 112   90  0.98
 113    1  0.01

ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28


Consensus pattern (112 bp):   
ATCCGTGAGGATATCATGAAAAGGGATGTCCGAAAGGACATCAATGTAAAGATTATATCCATGAA
GATATTATGAAAAGAGATGTCTGAAAGGACATTAACGTAAAGGTTAA

Done.