Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014203.1 Kokia drynarioides strain JFW-HI SEQ_129236, 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: 3906
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.32

Warning! 100 characters in sequence are not A, C, G, or T


Found at i:2064 original size:26 final size:26

Alignment explanation


    Indices: 2035--2104  Score: 81
    Period size: 26  Copynumber: 2.7  Consensus size: 26

       2025 AATGAGTTCC

                                       
       2035 TGCAGCGACAATTTTGGGCAT-GCTCA
          1 TGCAGCGACAATTTTGGGCATCG-TCA

                              *        
       2061 TGCAGCGAC-ATTTCTGGACATCGTCA
          1 TGCAGCGACAATTT-TGGGCATCGTCA

              *  *            
       2087 TGTAGTGACAATTTTGGG
          1 TGCAGCGACAATTTTGGG

       2105 TGCAATTTTG


Statistics
Matches: 37,  Mismatches: 4, Indels: 6
        0.79            0.09        0.13

Matches are distributed among these distances:
  25    4  0.11
  26   28  0.76
  27    5  0.14

ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30


Consensus pattern (26 bp):   
TGCAGCGACAATTTTGGGCATCGTCA

Found at i:2126 original size:38 final size:39

Alignment explanation


    Indices: 2070--2149  Score: 126
    Period size: 38  Copynumber: 2.1  Consensus size: 39

       2060 ATGCAGCGAC

                               *          *    *   
       2070 ATTTCTGGACATCGTCATGTAGTGACAATTTTGGGTGCA
          1 ATTTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCA

                                                   
       2109 ATTT-TGGACATCGTCATGAAGTGACAATTCTGGGCGCA
          1 ATTTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCA

               
       2147 ATT
          1 ATT

       2150 CTAAATAGAC


Statistics
Matches: 38,  Mismatches: 3, Indels: 1
        0.90            0.07        0.02

Matches are distributed among these distances:
  38   34  0.89
  39    4  0.11

ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34


Consensus pattern (39 bp):   
ATTTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCA

Found at i:2883 original size:26 final size:26

Alignment explanation


    Indices: 2854--2923  Score: 72
    Period size: 26  Copynumber: 2.7  Consensus size: 26

       2844 AATGAGTTCC

                                       
       2854 TGCAGCGACAATTTTGGGCAT-GCTCA
          1 TGCAGCGACAATTTTGGGCATCG-TCA

                  *           *        
       2880 TGCAGCAAC-ATTTCTGGACATCGTCA
          1 TGCAGCGACAATTT-TGGGCATCGTCA

              *  *            
       2906 TGTAGTGACAATTTTGGG
          1 TGCAGCGACAATTTTGGG

       2924 TGCAATTCTG


Statistics
Matches: 35,  Mismatches: 6, Indels: 6
        0.74            0.13        0.13

Matches are distributed among these distances:
  25    4  0.11
  26   26  0.74
  27    5  0.14

ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30


Consensus pattern (26 bp):   
TGCAGCGACAATTTTGGGCATCGTCA

Found at i:2942 original size:38 final size:38

Alignment explanation


    Indices: 2891--2970  Score: 133
    Period size: 38  Copynumber: 2.1  Consensus size: 38

       2881 GCAGCAACAT

                             *          *    *    
       2891 TTCTGGACATCGTCATGTAGTGACAATTTTGGGTGCAA
          1 TTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCAA

                                                  
       2929 TTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCAA
          1 TTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCAA

                
       2967 TTCT
          1 TTCT

       2971 AAATAGACTC


Statistics
Matches: 39,  Mismatches: 3, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  38   39  1.00

ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33


Consensus pattern (38 bp):   
TTCTGGACATCGTCATGAAGTGACAATTCTGGGCGCAA
Done.