Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005995.1 Kokia drynarioides strain JFW-HI SEQ_120417, 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: 13845
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37


Found at i:2285 original size:17 final size:17

Alignment explanation


    Indices: 2263--2295  Score: 57
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       2253 TTATGATCAA

                             
       2263 TTATATTAATTTTATTT
          1 TTATATTAATTTTATTT

                    *       
       2280 TTATATTATTTTTATT
          1 TTATATTAATTTTATT

       2296 AGTTTTGAAT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   15  1.00

ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73


Consensus pattern (17 bp):   
TTATATTAATTTTATTT

Found at i:7545 original size:5 final size:5

Alignment explanation


    Indices: 7513--7544  Score: 55
    Period size: 5  Copynumber: 6.4  Consensus size: 5

       7503 CAATCTGGAT

                                            *     
       7513 AAAAG AAAAG AAAAG AAAAG AAAAG AACAG AA
          1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA

       7545 CGGATAGTTT


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
   5   26  1.00

ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00


Consensus pattern (5 bp):   
AAAAG

Found at i:8272 original size:34 final size:34

Alignment explanation


    Indices: 8218--8315  Score: 126
    Period size: 34  Copynumber: 2.9  Consensus size: 34

       8208 TTGTCATTTT

                 *          *                 
       8218 TACATTCTAA-TTCTTCAGTTTGAAAACTTAAAA
          1 TACATACTAATTTCTTGAGTTTGAAAACTTAAAA

                  *                        *  
       8251 TACATATTAATTTCTTGAGTTTGAAAACTTACAA
          1 TACATACTAATTTCTTGAGTTTGAAAACTTAAAA

                    *      *   *           
       8285 TACATACTGATTTCTGGAGCTTGAAAACTTA
          1 TACATACTAATTTCTTGAGTTTGAAAACTTA

       8316 CGAAGTGAGT


Statistics
Matches: 56,  Mismatches: 8, Indels: 1
        0.86            0.12        0.02

Matches are distributed among these distances:
  33    8  0.14
  34   48  0.86

ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39


Consensus pattern (34 bp):   
TACATACTAATTTCTTGAGTTTGAAAACTTAAAA

Done.