Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005525.1 Kokia drynarioides strain JFW-HI SEQ_119611, 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, 640

Length: 1068
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46


Found at i:451 original size:20 final size:20

Alignment explanation


    Indices: 424--481  Score: 73
    Period size: 20  Copynumber: 3.0  Consensus size: 20

        414 GTAATTTCTC

                                
        424 TAATCTAATATTTAAATTTT
          1 TAATCTAATATTTAAATTTT

             *            *     
        444 TTATCTAAT-TTTATATTTT
          1 TAATCTAATATTTAAATTTT

                * *            
        463 TAATTTTATATTTAAATTT
          1 TAATCTAATATTTAAATTT

        482 AATTTGATAA


Statistics
Matches: 31,  Mismatches: 6, Indels: 2
        0.79            0.15        0.05

Matches are distributed among these distances:
  19   15  0.48
  20   16  0.52

ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62


Consensus pattern (20 bp):   
TAATCTAATATTTAAATTTT

Found at i:462 original size:18 final size:20

Alignment explanation


    Indices: 426--481  Score: 69
    Period size: 19  Copynumber: 2.9  Consensus size: 20

        416 AATTTCTCTA

                                
        426 ATCTAATATTTAAATTTTTT
          1 ATCTAATATTTAAATTTTTT

                        *      *
        446 ATCTAAT-TTTATATTTTTA
          1 ATCTAATATTTAAATTTTTT

              * *            
        465 ATTTTATATTTAAATTT
          1 ATCTAATATTTAAATTT

        482 AATTTGATAA


Statistics
Matches: 30,  Mismatches: 5, Indels: 2
        0.81            0.14        0.05

Matches are distributed among these distances:
  19   15  0.50
  20   15  0.50

ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62


Consensus pattern (20 bp):   
ATCTAATATTTAAATTTTTT

Found at i:468 original size:14 final size:14

Alignment explanation


    Indices: 449--475  Score: 54
    Period size: 14  Copynumber: 1.9  Consensus size: 14

        439 ATTTTTTATC

                          
        449 TAATTTTATATTTT
          1 TAATTTTATATTTT

                         
        463 TAATTTTATATTT
          1 TAATTTTATATTT

        476 AAATTTAATT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   13  1.00

ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70


Consensus pattern (14 bp):   
TAATTTTATATTTT

Found at i:482 original size:26 final size:25

Alignment explanation


    Indices: 429--486  Score: 62
    Period size: 26  Copynumber: 2.2  Consensus size: 25

        419 TTCTCTAATC

                    *      *       *  
        429 TAATATTTAAATTTTTTATCTAATTT
          1 TAAT-TTTTAATTTTATATCTAAATT

                               *      
        455 TATATTTTTAATTTTATATTTAAATT
          1 TA-ATTTTTAATTTTATATCTAAATT

                  
        481 TAATTT
          1 TAATTT

        487 GATAATATTT


Statistics
Matches: 27,  Mismatches: 4, Indels: 3
        0.79            0.12        0.09

Matches are distributed among these distances:
  25    4  0.15
  26   21  0.78
  27    2  0.07

ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64


Consensus pattern (25 bp):   
TAATTTTTAATTTTATATCTAAATT
Done.