Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014315.1 Kokia drynarioides strain JFW-HI SEQ_129352, 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, 718

Length: 1197
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33


Found at i:577 original size:24 final size:26

Alignment explanation


    Indices: 550--597  Score: 66
    Period size: 24  Copynumber: 1.9  Consensus size: 26

        540 AGAGAAATGT

                                       
        550 AAATG-TGATATATGA-A-ATTATGAG
          1 AAATGATGA-ATATGAGAGATTATGAG

                                    
        574 AAATGATGAATATGAGAGATTATG
          1 AAATGATGAATATGAGAGATTATG

        598 CCCATGTAGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
  24   11  0.52
  25    4  0.19
  26    6  0.29

ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31


Consensus pattern (26 bp):   
AAATGATGAATATGAGAGATTATGAG

Found at i:731 original size:46 final size:46

Alignment explanation


    Indices: 660--755  Score: 149
    Period size: 46  Copynumber: 2.1  Consensus size: 46

        650 ACACTAGCGC

                    *                                     
        660 GCTCTCTGTTTAGCACGTCTCGTGCTCTCTGGTTAGCACTGTGTGT
          1 GCTCTCTGATTAGCACGTCTCGTGCTCTCTGGTTAGCACTGTGTGT

                            *                        *     
        706 GCTCTCTGATTAGCACTTCAT-GTGCTCTCTGGTTAGCACTTTGTGT
          1 GCTCTCTGATTAGCACGTC-TCGTGCTCTCTGGTTAGCACTGTGTGT

                
        752 GCTC
          1 GCTC

        756 AGTACTTTGT


Statistics
Matches: 46,  Mismatches: 3, Indels: 2
        0.90            0.06        0.04

Matches are distributed among these distances:
  46   45  0.98
  47    1  0.02

ACGTcount: A:0.10, C:0.26, G:0.24, T:0.40


Consensus pattern (46 bp):   
GCTCTCTGATTAGCACGTCTCGTGCTCTCTGGTTAGCACTGTGTGT

Found at i:745 original size:23 final size:23

Alignment explanation


    Indices: 660--755  Score: 115
    Period size: 23  Copynumber: 4.2  Consensus size: 23

        650 ACACTAGCGC

                    *       *       
        660 GCTCTCTGTTTAGCACGTC-TCGT
          1 GCTCTCTGGTTAGCACTTCGT-GT

                                    
        683 GCTCTCTGGTTAGCACTGT-GTGT
          1 GCTCTCTGGTTAGCACT-TCGTGT

                    *          *   
        706 GCTCTCTGATTAGCACTTCATGT
          1 GCTCTCTGGTTAGCACTTCGTGT

                              *    
        729 GCTCTCTGGTTAGCACTTTGTGT
          1 GCTCTCTGGTTAGCACTTCGTGT

                
        752 GCTC
          1 GCTC

        756 AGTACTTTGT


Statistics
Matches: 63,  Mismatches: 7, Indels: 6
        0.83            0.09        0.08

Matches are distributed among these distances:
  22    1  0.02
  23   60  0.95
  24    2  0.03

ACGTcount: A:0.10, C:0.26, G:0.24, T:0.40


Consensus pattern (23 bp):   
GCTCTCTGGTTAGCACTTCGTGT
Done.