Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000236.1 Kokia drynarioides strain JFW-HI SEQ_110960, 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: 6619
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35


Found at i:799 original size:19 final size:19

Alignment explanation


    Indices: 763--800  Score: 51
    Period size: 19  Copynumber: 2.0  Consensus size: 19

        753 ACAAATATCG

                         *     
        763 AATCATTTTATAATTTTCT
          1 AATCATTTTATAAATTTCT

                                
        782 AATCA-TTTATGAAATTTCT
          1 AATCATTTTAT-AAATTTCT

        801 TCCTCAAAAT


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  18    5  0.29
  19   12  0.71

ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53


Consensus pattern (19 bp):   
AATCATTTTATAAATTTCT

Found at i:1485 original size:13 final size:13

Alignment explanation


    Indices: 1453--1482  Score: 53
    Period size: 13  Copynumber: 2.4  Consensus size: 13

       1443 AATAATTATA

                         
       1453 TATTTATTATTTG
          1 TATTTATTATTTG

                         
       1466 TATTTATTATTTG
          1 TATTTATTATTTG

                 
       1479 -ATTT
          1 TATTT

       1483 TATAAATAAA


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12    4  0.24
  13   13  0.76

ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70


Consensus pattern (13 bp):   
TATTTATTATTTG

Found at i:1917 original size:15 final size:15

Alignment explanation


    Indices: 1874--1921  Score: 53
    Period size: 15  Copynumber: 3.2  Consensus size: 15

       1864 GTTAAATGCG

                 *         
       1874 AATTTTAGAACCCAA
          1 AATTTCAGAACCCAA

                * *         
       1889 AA-TGCTGAAGCCCAA
          1 AATTTCAGAA-CCCAA

                           
       1904 AATTTCAGAACCCAA
          1 AATTTCAGAACCCAA

               
       1919 AAT
          1 AAT

       1922 GACAGTTAAA


Statistics
Matches: 26,  Mismatches: 5, Indels: 4
        0.74            0.14        0.11

Matches are distributed among these distances:
  14    4  0.15
  15   17  0.65
  16    5  0.19

ACGTcount: A:0.46, C:0.23, G:0.10, T:0.21


Consensus pattern (15 bp):   
AATTTCAGAACCCAA
Done.