Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008064.1 Kokia drynarioides strain JFW-HI SEQ_122720, 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: 11757
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32


Found at i:75 original size:20 final size:23

Alignment explanation


    Indices: 50--94  Score: 69
    Period size: 20  Copynumber: 2.1  Consensus size: 23

         40 ATGATGTTAA

                                   
         50 ATATGTGATA-A-A-ATGATGAT
          1 ATATGTGATATATACATGATGAT

                                   
         70 ATATGTGATATATACATGATGAT
          1 ATATGTGATATATACATGATGAT

              
         93 AT
          1 AT

         95 GTTTGTGTTT


Statistics
Matches: 22,  Mismatches: 0, Indels: 3
        0.88            0.00        0.12

Matches are distributed among these distances:
  20   10  0.45
  21    1  0.05
  22    1  0.05
  23   10  0.45

ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38


Consensus pattern (23 bp):   
ATATGTGATATATACATGATGAT

Found at i:287 original size:23 final size:23

Alignment explanation


    Indices: 239--386  Score: 106
    Period size: 23  Copynumber: 6.3  Consensus size: 23

        229 TTAGCATTGC

                                  * 
        239 GTGTGCTCT-TCGATTAGCACTGT
          1 GTGTGCTCTCT-GATTAGCACTTT

                             *     
        262 GTGTGCTCTCTGATTAGTACTTT
          1 GTGTGCTCTCTGATTAGCACTTT

                *    *   *      *   
        285 GTGTACT-TTTCGTTTAGCATTTT
          1 GTGTGCTCTCT-GATTAGCACTTT

                       **   *       
        308 GTGTGCTCTCTTTTTAACA-TGTT
          1 GTGTGCTCTCTGATTAGCACT-TT

                          *          *
        331 -TCGTGCTCTCCGTTATTAGCACTTC
          1 GT-GTGCTCT-C-TGATTAGCACTTT

                       *           
        356 GTGTGCTCTCTAATTAGCACTTT
          1 GTGTGCTCTCTGATTAGCACTTT

                    
        379 GTGTGCTC
          1 GTGTGCTC

        387 AGTACTTTGT


Statistics
Matches: 100,  Mismatches: 16, Indels: 18
        0.75            0.12        0.13

Matches are distributed among these distances:
  22    4  0.04
  23   74  0.74
  24    5  0.05
  25   15  0.15
  26    2  0.02

ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46


Consensus pattern (23 bp):   
GTGTGCTCTCTGATTAGCACTTT

Found at i:287 original size:25 final size:23

Alignment explanation


    Indices: 220--316  Score: 79
    Period size: 23  Copynumber: 4.2  Consensus size: 23

        210 GAATACTAGC

                 *  *      *  *    
        220 GCTCTCCGGTTAGCATTGCGTGT
          1 GCTCTTCGATTAGCACTGTGTGT

                                   
        243 GCTCTTCGATTAGCACTGTGTGT
          1 GCTCTTCGATTAGCACTGTGTGT

                          *   *     
        266 GCTC-TCTGATTAGTACTTTGTGT
          1 GCTCTTC-GATTAGCACTGTGTGT

            *  *    *      * *     
        289 ACTTTTCGTTTAGCATTTTGTGT
          1 GCTCTTCGATTAGCACTGTGTGT

                 
        312 GCTCT
          1 GCTCT

        317 CTTTTTAACA


Statistics
Matches: 59,  Mismatches: 13, Indels: 4
        0.78            0.17        0.05

Matches are distributed among these distances:
  22    2  0.03
  23   55  0.93
  24    2  0.03

ACGTcount: A:0.11, C:0.21, G:0.24, T:0.44


Consensus pattern (23 bp):   
GCTCTTCGATTAGCACTGTGTGT
Done.