Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009877.1 Kokia drynarioides strain JFW-HI SEQ_124612, 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: 3757
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34


Found at i:1424 original size:8 final size:8

Alignment explanation


    Indices: 1406--1440  Score: 52
    Period size: 8  Copynumber: 4.4  Consensus size: 8

       1396 CTAGGGAAAA

                *   
       1406 AAGAAAAG
          1 AAGAGAAG

                  * 
       1414 AAGAGAGG
          1 AAGAGAAG

                    
       1422 AAGAGAAG
          1 AAGAGAAG

                    
       1430 AAGAGAAG
          1 AAGAGAAG

               
       1438 AAG
          1 AAG

       1441 GCAAGGCAAA


Statistics
Matches: 24,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
   8   24  1.00

ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00


Consensus pattern (8 bp):   
AAGAGAAG

Found at i:1658 original size:18 final size:18

Alignment explanation


    Indices: 1637--1675  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       1627 ATTAAAAATT

                       **     
       1637 ATTTTAATATTTTATTTA
          1 ATTTTAATATTCCATTTA

                              
       1655 ATTTTAATATTCCATTTA
          1 ATTTTAATATTCCATTTA

               
       1673 ATT
          1 ATT

       1676 AAATTTTAAG


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62


Consensus pattern (18 bp):   
ATTTTAATATTCCATTTA

Found at i:1869 original size:18 final size:19

Alignment explanation


    Indices: 1846--1888  Score: 54
    Period size: 18  Copynumber: 2.4  Consensus size: 19

       1836 AAAAAAAAGT

                       *       
       1846 TAAAAAATATATAA-TAAA
          1 TAAAAAATATAAAATTAAA

                  *            
       1864 TAAAAACTATAAAATTAAA
          1 TAAAAAATATAAAATTAAA

                   
       1883 -AAAAAA
          1 TAAAAAA

       1889 GTTTAAAAAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 2
        0.81            0.12        0.08

Matches are distributed among these distances:
  18   17  0.81
  19    4  0.19

ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23


Consensus pattern (19 bp):   
TAAAAAATATAAAATTAAA
Done.