Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008701.1 Kokia drynarioides strain JFW-HI SEQ_123383, 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: 11188
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32


Found at i:4226 original size:13 final size:13

Alignment explanation


    Indices: 4208--4233  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       4198 TTAAAATAAA

                         
       4208 AATTATATAAATT
          1 AATTATATAAATT

                         
       4221 AATTATATAAATT
          1 AATTATATAAATT

       4234 TTTAAGTGAT


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

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46


Consensus pattern (13 bp):   
AATTATATAAATT

Found at i:9091 original size:12 final size:12

Alignment explanation


    Indices: 9074--9119  Score: 51
    Period size: 12  Copynumber: 3.8  Consensus size: 12

       9064 ATAGGTTTTT

                        
       9074 TCTTCTTCTTTC
          1 TCTTCTTCTTTC

                         
       9086 TCTTCTTCCTTTC
          1 TCTTCTT-CTTTC

                *       
       9099 -CTTTTTC-TTC
          1 TCTTCTTCTTTC

                       
       9109 TTCTTCTTCTT
          1 -TCTTCTTCTT

       9120 GATCCTTCTC


Statistics
Matches: 28,  Mismatches: 2, Indels: 7
        0.76            0.05        0.19

Matches are distributed among these distances:
  10    3  0.11
  11    1  0.04
  12   18  0.64
  13    6  0.21

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (12 bp):   
TCTTCTTCTTTC

Found at i:9126 original size:30 final size:31

Alignment explanation


    Indices: 9070--9132  Score: 85
    Period size: 30  Copynumber: 2.1  Consensus size: 31

       9060 CTCGATAGGT

                                 *         
       9070 TTTTTCTTCTTCTTTCTCTTCTTCCTT-TCC
          1 TTTTTCTTCTTCTTTCTCTTCATCCTTCTCC

                                 *          
       9100 TTTTTCTTCTTC-TTCTTCTTGATCCTTCTCC
          1 TTTTTCTTCTTCTTTC-TCTTCATCCTTCTCC

              
       9131 TT
          1 TT

       9133 CAATTGATCC


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  29    3  0.10
  30   21  0.72
  31    5  0.17

ACGTcount: A:0.02, C:0.32, G:0.02, T:0.65


Consensus pattern (31 bp):   
TTTTTCTTCTTCTTTCTCTTCATCCTTCTCC
Done.