Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011709.1 Kokia drynarioides strain JFW-HI SEQ_126703, 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: 13316
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35


Found at i:3039 original size:7 final size:7

Alignment explanation


    Indices: 3027--3052  Score: 52
    Period size: 7  Copynumber: 3.7  Consensus size: 7

       3017 TAGTTAGGGG

                   
       3027 TGGAAGA
          1 TGGAAGA

                   
       3034 TGGAAGA
          1 TGGAAGA

                   
       3041 TGGAAGA
          1 TGGAAGA

                 
       3048 TGGAA
          1 TGGAA

       3053 AGGGTGCAAA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   19  1.00

ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15


Consensus pattern (7 bp):   
TGGAAGA

Found at i:3278 original size:32 final size:35

Alignment explanation


    Indices: 3221--3286  Score: 102
    Period size: 33  Copynumber: 2.0  Consensus size: 35

       3211 AAGGGTCTGA

                    *                          
       3221 AATTTTTTTTACCAACTTTTAAAAG-ACCTAAAAG
          1 AATTTTTTCTACCAACTTTTAAAAGAACCTAAAAG

                                              
       3255 AATTTTTTCT-CCAACTTTT-AAAGAACCTAAAA
          1 AATTTTTTCTACCAACTTTTAAAAGAACCTAAAA

       3287 TCTCATTTTA


Statistics
Matches: 30,  Mismatches: 1, Indels: 3
        0.88            0.03        0.09

Matches are distributed among these distances:
  32    4  0.13
  33   17  0.57
  34    9  0.30

ACGTcount: A:0.41, C:0.17, G:0.05, T:0.38


Consensus pattern (35 bp):   
AATTTTTTCTACCAACTTTTAAAAGAACCTAAAAG

Found at i:12024 original size:26 final size:27

Alignment explanation


    Indices: 11991--12056  Score: 98
    Period size: 26  Copynumber: 2.5  Consensus size: 27

      11981 AAGAAAACTC

                                 *     
      11991 GAGAAATTATTAAATAAAAAATTC-AA
          1 GAGAAATTATTAAATAAAAAACTCAAA

                    *                  
      12017 GAGAAATTCTTAAATAAAAAACTCAAA
          1 GAGAAATTATTAAATAAAAAACTCAAA

                 *       
      12044 GAGAATTTATTAA
          1 GAGAAATTATTAA

      12057 CTCAAAGTGA


Statistics
Matches: 35,  Mismatches: 4, Indels: 1
        0.88            0.10        0.03

Matches are distributed among these distances:
  26   22  0.63
  27   13  0.37

ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27


Consensus pattern (27 bp):   
GAGAAATTATTAAATAAAAAACTCAAA

Done.