Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009722.1 Kokia drynarioides strain JFW-HI SEQ_124441, 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: 19820
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32


Found at i:774 original size:25 final size:25

Alignment explanation


    Indices: 746--816  Score: 126
    Period size: 25  Copynumber: 2.8  Consensus size: 25

        736 AACAACTTCT

                                     
        746 AAGAAAAACTCAAGAGCAATTCTTG
          1 AAGAAAAACTCAAGAGCAATTCTTG

                                     
        771 AAGAAAAACTCAAGAGCAATTCTTG
          1 AAGAAAAACTCAAGAGCAATTCTTG

                                  
        796 AAGAAAAACTCAAAGAG-AATT
          1 AAGAAAAACTC-AAGAGCAATT

        817 ATTATTAACT


Statistics
Matches: 45,  Mismatches: 0, Indels: 2
        0.96            0.00        0.04

Matches are distributed among these distances:
  25   40  0.89
  26    5  0.11

ACGTcount: A:0.52, C:0.14, G:0.15, T:0.18


Consensus pattern (25 bp):   
AAGAAAAACTCAAGAGCAATTCTTG

Found at i:8444 original size:8 final size:8

Alignment explanation


    Indices: 8431--8475  Score: 63
    Period size: 8  Copynumber: 5.4  Consensus size: 8

       8421 CCATGGAATA

                    
       8431 TTTTTTTC
          1 TTTTTTTC

                    
       8439 TTTTTTTC
          1 TTTTTTTC

                    
       8447 TTTTTTTC
          1 TTTTTTTC

                 *  
       8455 TTTTTCTC
          1 TTTTTTTC

                      
       8463 ATATTTTTTC
          1 -T-TTTTTTC

               
       8473 TTT
          1 TTT

       8476 ACTTTTCTGA


Statistics
Matches: 33,  Mismatches: 2, Indels: 4
        0.85            0.05        0.10

Matches are distributed among these distances:
   8   25  0.76
   9    2  0.06
  10    6  0.18

ACGTcount: A:0.04, C:0.13, G:0.00, T:0.82


Consensus pattern (8 bp):   
TTTTTTTC

Found at i:14064 original size:26 final size:26

Alignment explanation


    Indices: 14030--14091  Score: 124
    Period size: 26  Copynumber: 2.4  Consensus size: 26

      14020 CAATTCCAAT

                                      
      14030 CATTCATTCAAAAATAGCAGATTCAA
          1 CATTCATTCAAAAATAGCAGATTCAA

                                      
      14056 CATTCATTCAAAAATAGCAGATTCAA
          1 CATTCATTCAAAAATAGCAGATTCAA

                      
      14082 CATTCATTCA
          1 CATTCATTCA

      14092 TACTCATCCA


Statistics
Matches: 36,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   36  1.00

ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29


Consensus pattern (26 bp):   
CATTCATTCAAAAATAGCAGATTCAA

Done.