Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008949.1 Kokia drynarioides strain JFW-HI SEQ_123645, 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: 12164
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35


Found at i:9361 original size:14 final size:14

Alignment explanation


    Indices: 9322--9369  Score: 51
    Period size: 14  Copynumber: 3.1  Consensus size: 14

       9312 GAGCGAAAAA

                            
       9322 GAGAGAAAAGAAAGAG
          1 GAGAG-AAAGAAAG-G

                            
       9338 GAAGGAGAAAGAAAGG
          1 G-A-GAGAAAGAAAGG

                    *     
       9354 GAGAGAAAAAAAGG
          1 GAGAGAAAGAAAGG

              
       9368 GA
          1 GA

       9370 AATCTCGGAG


Statistics
Matches: 29,  Mismatches: 1, Indels: 6
        0.81            0.03        0.17

Matches are distributed among these distances:
  14   13  0.45
  15    1  0.03
  16    3  0.10
  17    9  0.31
  18    3  0.10

ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00


Consensus pattern (14 bp):   
GAGAGAAAGAAAGG

Found at i:11656 original size:119 final size:119

Alignment explanation


    Indices: 11508--11746  Score: 460
    Period size: 119  Copynumber: 2.0  Consensus size: 119

      11498 GTCTAACATC

                                                                             
      11508 TAATGATGATTAGGATTACATTTTCTTGGACATATTTGTTGTTGTTATGCCTTGGATTTGTGATT
          1 TAATGATGATTAGGATTACATTTTCTTGGACATATTTGTTGTTGTTATGCCTTGGATTTGTGATT

                                                                  
      11573 GTTTTTGTTGAACTTGGTATCAGTAATTCTTATTTCCATCCTTAGGCTGAATAG
         66 GTTTTTGTTGAACTTGGTATCAGTAATTCTTATTTCCATCCTTAGGCTGAATAG

                                                                             
      11627 TAATGATGATTAGGATTACATTTTCTTGGACATATTTGTTGTTGTTATGCCTTGGATTTGTGATT
          1 TAATGATGATTAGGATTACATTTTCTTGGACATATTTGTTGTTGTTATGCCTTGGATTTGTGATT

                                                       *     *    
      11692 GTTTTTGTTGAACTTGGTATCAGTAATTCTTATTTCCATCCTTTGGCTGGATAG
         66 GTTTTTGTTGAACTTGGTATCAGTAATTCTTATTTCCATCCTTAGGCTGAATAG

             
      11746 T
          1 T

      11747 CGATTTTTCT


Statistics
Matches: 118,  Mismatches: 2, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 119  118  1.00

ACGTcount: A:0.21, C:0.11, G:0.21, T:0.48


Consensus pattern (119 bp):   
TAATGATGATTAGGATTACATTTTCTTGGACATATTTGTTGTTGTTATGCCTTGGATTTGTGATT
GTTTTTGTTGAACTTGGTATCAGTAATTCTTATTTCCATCCTTAGGCTGAATAG
Done.