Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014067.1 Kokia drynarioides strain JFW-HI SEQ_129098, 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: 11372
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31


Found at i:1359 original size:37 final size:37

Alignment explanation


    Indices: 1314--1401  Score: 131
    Period size: 37  Copynumber: 2.4  Consensus size: 37

       1304 GATGAGGTAT

                                       *         
       1314 TGGGTACCACTTTACTTCGACTAGGCCTATAAGACAC
          1 TGGGTACCACTTTACTTCGACTAGGCCGATAAGACAC

                               *          *      
       1351 TGGGTACCACTTTACTTCGGCTAGGCCGATGAGACAC
          1 TGGGTACCACTTTACTTCGACTAGGCCGATAAGACAC

                 **       
       1388 TGGGTGTCACTTTA
          1 TGGGTACCACTTTA

       1402 TTGCTTCGAA


Statistics
Matches: 46,  Mismatches: 5, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  37   46  1.00

ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28


Consensus pattern (37 bp):   
TGGGTACCACTTTACTTCGACTAGGCCGATAAGACAC

Found at i:6901 original size:19 final size:18

Alignment explanation


    Indices: 6874--6909  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

       6864 ATCTGAATTA

                *              
       6874 TTCGTTATTTAATATTTAT
          1 TTCGATATTT-ATATTTAT

                             
       6893 TTCGATATTTATATTTA
          1 TTCGATATTTATATTTA

       6910 ATAAGTGAAT


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    7  0.44
  19    9  0.56

ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61


Consensus pattern (18 bp):   
TTCGATATTTATATTTAT

Found at i:7029 original size:18 final size:18

Alignment explanation


    Indices: 7006--7042  Score: 56
    Period size: 18  Copynumber: 2.1  Consensus size: 18

       6996 TTTGTGATCA

                              
       7006 AAATTGAAAGTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

                  *  *        
       7024 AAATTGGAATTGAAAGTG
          1 AAATTGAAAGTGAAAGTG

             
       7042 A
          1 A

       7043 TATGAATTGT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24


Consensus pattern (18 bp):   
AAATTGAAAGTGAAAGTG

Found at i:10338 original size:53 final size:53

Alignment explanation


    Indices: 10258--10364  Score: 205
    Period size: 53  Copynumber: 2.0  Consensus size: 53

      10248 TGCTCCTAAG

                                                                 
      10258 CTAGCTTGTGGAGACAAAAAAAGGTCCAATCTTTCCCTGACCAAACCATGGCC
          1 CTAGCTTGTGGAGACAAAAAAAGGTCCAATCTTTCCCTGACCAAACCATGGCC

                                                      *          
      10311 CTAGCTTGTGGAGACAAAAAAAGGTCCAATCTTTCCCTGACCGAACCATGGCC
          1 CTAGCTTGTGGAGACAAAAAAAGGTCCAATCTTTCCCTGACCAAACCATGGCC

             
      10364 C
          1 C

      10365 CTCCTATTAT


Statistics
Matches: 53,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  53   53  1.00

ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21


Consensus pattern (53 bp):   
CTAGCTTGTGGAGACAAAAAAAGGTCCAATCTTTCCCTGACCAAACCATGGCC
Done.