Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000492.1 Kokia drynarioides strain JFW-HI SEQ_111367, 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: 1782
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35


Found at i:387 original size:27 final size:29

Alignment explanation


    Indices: 356--441  Score: 79
    Period size: 29  Copynumber: 3.0  Consensus size: 29

        346 AATTTACAAG

                                          
        356 AATTGAATC-AAATC-AA-TTCATGTATAC
          1 AATTGAA-CAAAATCAAAGTTCATGTATAC

                 *                     * 
        383 AATTGCACAAAATCAAAGTTCATGTATGC
          1 AATTGAACAAAATCAAAGTTCATGTATAC

                 *        *  *            
        412 AATTGTACATTAAACCATAGTTCATGTATA
          1 AATTGAACA--AAATCAAAGTTCATGTATA

        442 GTTTTGGTAT


Statistics
Matches: 48,  Mismatches: 6, Indels: 6
        0.80            0.10        0.10

Matches are distributed among these distances:
  26    1  0.02
  27   11  0.23
  28    2  0.04
  29   18  0.38
  31   16  0.33

ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33


Consensus pattern (29 bp):   
AATTGAACAAAATCAAAGTTCATGTATAC

Found at i:414 original size:29 final size:30

Alignment explanation


    Indices: 365--441  Score: 88
    Period size: 29  Copynumber: 2.6  Consensus size: 30

        355 GAATTGAATC

                                          
        365 AAATC-AA-TTCATGTATACAATTGCACA-
          1 AAATCAAAGTTCATGTATACAATTGCACAT

                              *      *     
        392 AAATCAAAGTTCATGTATGCAATTGTACATT
          1 AAATCAAAGTTCATGTATACAATTGCACA-T

               *  *            
        423 AAACCATAGTTCATGTATA
          1 AAATCAAAGTTCATGTATA

        442 GTTTTGGTAT


Statistics
Matches: 41,  Mismatches: 5, Indels: 4
        0.82            0.10        0.08

Matches are distributed among these distances:
  27    5  0.12
  28    2  0.05
  29   18  0.44
  31   16  0.39

ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32


Consensus pattern (30 bp):   
AAATCAAAGTTCATGTATACAATTGCACAT

Done.