Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01006925.1 Kokia drynarioides strain JFW-HI SEQ_121528, 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: 5437
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36


Found at i:1415 original size:22 final size:21

Alignment explanation


    Indices: 1350--1418  Score: 84
    Period size: 22  Copynumber: 3.1  Consensus size: 21

       1340 TATATTATTA

                                 *
       1350 TTTTGGTGCTGTTTTTTTACTA
          1 TTTTGGTGCTG-TTTTTTACTG

                       *          
       1372 TTTTGGTTGCTATTTTTTACTG
          1 TTTTGG-TGCTGTTTTTTACTG

                    *             
       1394 TTTTGGTGTTGTGTTTTTACTG
          1 TTTTGGTGCTGT-TTTTTACTG

               
       1416 TTT
          1 TTT

       1419 ATGTGGCCAT


Statistics
Matches: 41,  Mismatches: 4, Indels: 4
        0.84            0.08        0.08

Matches are distributed among these distances:
  21    4  0.10
  22   33  0.80
  23    4  0.10

ACGTcount: A:0.07, C:0.07, G:0.20, T:0.65


Consensus pattern (21 bp):   
TTTTGGTGCTGTTTTTTACTG

Found at i:1501 original size:11 final size:12

Alignment explanation


    Indices: 1459--1500  Score: 57
    Period size: 12  Copynumber: 3.5  Consensus size: 12

       1449 TTTTGATTGT

                    * * 
       1459 TATTTTTGTTTC
          1 TATTTTTGCTAC

                   *    
       1471 TATTTTTTCTAC
          1 TATTTTTGCTAC

                        
       1483 TATTTTTGCTAC
          1 TATTTTTGCTAC

                  
       1495 TATTTT
          1 TATTTT

       1501 GGTTGTTATT


Statistics
Matches: 26,  Mismatches: 4, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  12   26  1.00

ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69


Consensus pattern (12 bp):   
TATTTTTGCTAC

Found at i:1510 original size:24 final size:23

Alignment explanation


    Indices: 1427--1513  Score: 65
    Period size: 24  Copynumber: 3.8  Consensus size: 23

       1417 TTATGTGGCC

                      *          * 
       1427 ATTTTGG-TGCTATTTTT-TATT
          1 ATTTTGGTTGTTATTTTTGTACT

                  *              *  
       1448 ATTTTGATTGTTATTTTTGTTTCT
          1 ATTTTGGTTGTTATTTTTG-TACT

                     *                
       1472 ATTTT--TTCTACTATTTTTGCTACT
          1 ATTTTGGTTGT--TATTTTTG-TACT

                              
       1496 ATTTTGGTTGTTATTTTT
          1 ATTTTGGTTGTTATTTTT

       1514 ATGTGTTTTT


Statistics
Matches: 51,  Mismatches: 8, Indels: 11
        0.73            0.11        0.16

Matches are distributed among these distances:
  21    6  0.12
  22   12  0.24
  24   30  0.59
  26    3  0.06

ACGTcount: A:0.14, C:0.07, G:0.11, T:0.68


Consensus pattern (23 bp):   
ATTTTGGTTGTTATTTTTGTACT
Done.