Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001975.1 Kokia drynarioides strain JFW-HI SEQ_113821, 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: 5041
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35


Found at i:1635 original size:18 final size:17

Alignment explanation


    Indices: 1614--1684  Score: 54
    Period size: 18  Copynumber: 3.9  Consensus size: 17

       1604 CCAATTTAAC

                              
       1614 CCAAAATATTTATTTTTA
          1 CCAAAA-ATTTATTTTTA

                   *       ** 
       1632 CCAAAAAATTATTTAAAA
          1 CCAAAAATTTATTT-TTA

                              
       1650 CCATAAAATTTATTTTT-
          1 CCA-AAAATTTATTTTTA

             *                
       1667 CTAAAATATTTTATTTTT
          1 CCAAAA-A-TTTATTTTT

       1685 TGGAATATTA


Statistics
Matches: 42,  Mismatches: 7, Indels: 8
        0.74            0.12        0.14

Matches are distributed among these distances:
  16    3  0.07
  17   10  0.24
  18   19  0.45
  19   10  0.24

ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48


Consensus pattern (17 bp):   
CCAAAAATTTATTTTTA

Found at i:3741 original size:20 final size:20

Alignment explanation


    Indices: 3718--3758  Score: 57
    Period size: 20  Copynumber: 2.0  Consensus size: 20

       3708 CATTGTACAT

                                 
       3718 ACTTCAATG-CCCTTGTATGC
          1 ACTTCAATGACCC-TGTATGC

                 *              
       3738 ACTTCGATGACCCTGTATGC
          1 ACTTCAATGACCCTGTATGC

             
       3758 A
          1 A

       3759 ATACCCTGCC


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  20   16  0.84
  21    3  0.16

ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32


Consensus pattern (20 bp):   
ACTTCAATGACCCTGTATGC

Found at i:5021 original size:2 final size:2

Alignment explanation


    Indices: 5014--5041  Score: 56
    Period size: 2  Copynumber: 14.0  Consensus size: 2

       5004 GTGATTAAAC

                                                     
       5014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   26  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
AT

Done.