Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002083.1 Kokia drynarioides strain JFW-HI SEQ_113995, 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: 15367
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37


Found at i:1200 original size:19 final size:17

Alignment explanation


    Indices: 1163--1196  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

       1153 ATCGAAAAAA

                             
       1163 TTAAAAAATATTTATAT
          1 TTAAAAAATATTTATAT

                        *    
       1180 TTAAAAAATATTAATAT
          1 TTAAAAAATATTTATAT

       1197 ATTTGTAACT


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44


Consensus pattern (17 bp):   
TTAAAAAATATTTATAT

Found at i:5025 original size:2 final size:2

Alignment explanation


    Indices: 5018--5048  Score: 62
    Period size: 2  Copynumber: 15.5  Consensus size: 2

       5008 CCACATCCTT

                                                          
       5018 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

       5049 TAGAATTTTT


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   29  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:6753 original size:3 final size:3

Alignment explanation


    Indices: 6745--6783  Score: 78
    Period size: 3  Copynumber: 13.0  Consensus size: 3

       6735 CTACTTCTTA

                                                               
       6745 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
          1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT

       6784 TTACACTCCT


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

Matches are distributed among these distances:
   3   36  1.00

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


Consensus pattern (3 bp):   
ATT

Found at i:9994 original size:19 final size:20

Alignment explanation


    Indices: 9951--9995  Score: 65
    Period size: 20  Copynumber: 2.3  Consensus size: 20

       9941 GATAAATAAT

                  *             
       9951 TATATTTTAAAAATAAAATA
          1 TATATTCTAAAAATAAAATA

                        *       
       9971 TATATTCTAAAATTAAAATA
          1 TATATTCTAAAAATAAAATA

                  
       9991 -ATATT
          1 TATATT

       9996 ATTATTGTAT


Statistics
Matches: 23,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  19    5  0.22
  20   18  0.78

ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42


Consensus pattern (20 bp):   
TATATTCTAAAAATAAAATA
Done.