Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003842.1 Kokia drynarioides strain JFW-HI SEQ_116861, 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, 854

Length: 1424
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33


Found at i:854 original size:13 final size:13

Alignment explanation


    Indices: 830--854  Score: 50
    Period size: 13  Copynumber: 1.9  Consensus size: 13

        820 TATTTTATAA

                         
        830 TTATTTTTTATTT
          1 TTATTTTTTATTT

                        
        843 TTATTTTTTATT
          1 TTATTTTTTATT

        855 CAAATAATTT


Statistics
Matches: 12,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   12  1.00

ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84


Consensus pattern (13 bp):   
TTATTTTTTATTT

Found at i:1044 original size:21 final size:21

Alignment explanation


    Indices: 1018--1091  Score: 94
    Period size: 21  Copynumber: 3.5  Consensus size: 21

       1008 AGTGCAGACC

                                 
       1018 TCTACCGATACAAGTAATAGT
          1 TCTACCGATACAAGTAATAGT

                           * *   
       1039 TCTACCGATACAAGTGACAGT
          1 TCTACCGATACAAGTAATAGT

                *          **  * 
       1060 TCTATCGATACAAGTCTTACT
          1 TCTACCGATACAAGTAATAGT

                       
       1081 TCTACCGATAC
          1 TCTACCGATAC

       1092 CAAAATCTCC


Statistics
Matches: 45,  Mismatches: 8, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   45  1.00

ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30


Consensus pattern (21 bp):   
TCTACCGATACAAGTAATAGT

Found at i:1168 original size:21 final size:22

Alignment explanation


    Indices: 1131--1206  Score: 59
    Period size: 21  Copynumber: 3.5  Consensus size: 22

       1121 GCTGCAACTT

                      **          
       1131 CTACCGATACAAG-TAAACAAA
          1 CTACCGATACTTGCTAAACAAA

                                     
       1152 CTACCGATACTT-CTAAACACATAA
          1 CTACCGATACTTGCT-AA-ACA-AA

                 *          **    
       1176 CTACCAATACTTGCTATTC-AA
          1 CTACCGATACTTGCTAAACAAA

                      
       1197 CTACCGATAC
          1 CTACCGATAC

       1207 AACCCAAGTC


Statistics
Matches: 44,  Mismatches: 6, Indels: 10
        0.73            0.10        0.17

Matches are distributed among these distances:
  21   22  0.50
  22    2  0.05
  23    4  0.09
  24   14  0.32
  25    2  0.05

ACGTcount: A:0.41, C:0.29, G:0.07, T:0.24


Consensus pattern (22 bp):   
CTACCGATACTTGCTAAACAAA
Done.