Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008247.1 Kokia drynarioides strain JFW-HI SEQ_122912, 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, 955

Length: 1593
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35


Found at i:521 original size:7 final size:7

Alignment explanation


    Indices: 509--547  Score: 51
    Period size: 7  Copynumber: 5.4  Consensus size: 7

        499 TATATATTTC

                   
        509 TTTTCTT
          1 TTTTCTT

                   
        516 TTTTCTT
          1 TTTTCTT

              *    
        523 TTCTCTT
          1 TTTTCTT

                    
        530 TTCTTCTT
          1 TT-TTCTT

            *      
        538 CTTTCTT
          1 TTTTCTT

               
        545 TTT
          1 TTT

        548 CTTATTCATC


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
   7   22  0.81
   8    5  0.19

ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79


Consensus pattern (7 bp):   
TTTTCTT

Found at i:522 original size:12 final size:12

Alignment explanation


    Indices: 505--541  Score: 56
    Period size: 12  Copynumber: 3.0  Consensus size: 12

        495 TATTTATATA

                        
        505 TTTCTTTTCTTT
          1 TTTCTTTTCTTT

                      * 
        517 TTTCTTTTCTCT
          1 TTTCTTTTCTTT

                         
        529 TTTCTTCTTCTTT
          1 TTTCTT-TTCTTT

        542 CTTTTTCTTA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  12   17  0.77
  13    5  0.23

ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78


Consensus pattern (12 bp):   
TTTCTTTTCTTT

Found at i:1372 original size:7 final size:7

Alignment explanation


    Indices: 1360--1398  Score: 51
    Period size: 7  Copynumber: 5.4  Consensus size: 7

       1350 TATATATTTC

                   
       1360 TTTTCTT
          1 TTTTCTT

                   
       1367 TTTTCTT
          1 TTTTCTT

              *    
       1374 TTCTCTT
          1 TTTTCTT

                    
       1381 TTATTCTT
          1 TT-TTCTT

            *      
       1389 CTTTCTT
          1 TTTTCTT

               
       1396 TTT
          1 TTT

       1399 CTTATTCATC


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
   7   22  0.81
   8    5  0.19

ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79


Consensus pattern (7 bp):   
TTTTCTT
Done.