Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007626.1 Kokia drynarioides strain JFW-HI SEQ_122257, 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: 6728
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:1677 original size:31 final size:31

Alignment explanation


    Indices: 1639--1712  Score: 85
    Period size: 31  Copynumber: 2.4  Consensus size: 31

       1629 ATTTCAATAC

                            *              
       1639 TAAATCAATCACTAACGTTTATAAAAAATGA
          1 TAAATCAATCACTAACATTTATAAAAAATGA

                       *   *    * *    *   
       1670 TAAATCAATCATTAATATTTTTGAAAAGTGA
          1 TAAATCAATCACTAACATTTATAAAAAATGA

                 *      
       1701 TAAATTAATCAC
          1 TAAATCAATCAC

       1713 CCAAGCTCAT


Statistics
Matches: 35,  Mismatches: 8, Indels: 0
        0.81            0.19        0.00

Matches are distributed among these distances:
  31   35  1.00

ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34


Consensus pattern (31 bp):   
TAAATCAATCACTAACATTTATAAAAAATGA

Found at i:5471 original size:15 final size:15

Alignment explanation


    Indices: 5451--5486  Score: 63
    Period size: 15  Copynumber: 2.4  Consensus size: 15

       5441 CTGTAAGTTG

                           
       5451 AAAAAAAAAAAATAA
          1 AAAAAAAAAAAATAA

                  *        
       5466 AAAAAATAAAAATAA
          1 AAAAAAAAAAAATAA

                  
       5481 AAAAAA
          1 AAAAAA

       5487 GGAAAAACAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  15   20  1.00

ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08


Consensus pattern (15 bp):   
AAAAAAAAAAAATAA

Found at i:5492 original size:15 final size:13

Alignment explanation


    Indices: 5451--5486  Score: 54
    Period size: 14  Copynumber: 2.6  Consensus size: 13

       5441 CTGTAAGTTG

                         
       5451 AAAAAAAAAAAAT
          1 AAAAAAAAAAAAT

                           
       5464 AAAAAAAATAAAAAT
          1 -AAAAAAA-AAAAAT

                    
       5479 AAAAAAAA
          1 AAAAAAAA

       5487 GGAAAAACAA


Statistics
Matches: 21,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  13    1  0.05
  14   14  0.67
  15    6  0.29

ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08


Consensus pattern (13 bp):   
AAAAAAAAAAAAT
Done.