Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010080.1 Kokia drynarioides strain JFW-HI SEQ_124859, 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: 8696
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:750 original size:3 final size:3

Alignment explanation


    Indices: 742--814  Score: 56
    Period size: 3  Copynumber: 23.7  Consensus size: 3

        732 TTTTATTTAT

                            *       **                  *           * *    
        742 TTA TTA TTA TTA ATA TTA AAA TTA TTA TTA TTA CTA TTA TTA ATG TTA
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA

                      *  *                  
        790 TTTA TTA TAA ATA TTA TTA TGTA TT
          1 -TTA TTA TTA TTA TTA TTA T-TA TT

        815 CAATACATTT


Statistics
Matches: 52,  Mismatches: 16, Indels: 4
        0.72            0.22        0.06

Matches are distributed among these distances:
   3   46  0.88
   4    6  0.12

ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58


Consensus pattern (3 bp):   
TTA

Found at i:1580 original size:17 final size:18

Alignment explanation


    Indices: 1555--1593  Score: 53
    Period size: 17  Copynumber: 2.2  Consensus size: 18

       1545 AATATTTTAA

                *    *        
       1555 AATTTTAAATTTAAAAT-
          1 AATTGTAAACTTAAAATC

                              
       1572 AATTGTAAACTTAAAATC
          1 AATTGTAAACTTAAAATC

                
       1590 AATT
          1 AATT

       1594 TGAAATGCAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  17   15  0.79
  18    4  0.21

ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41


Consensus pattern (18 bp):   
AATTGTAAACTTAAAATC

Found at i:2478 original size:17 final size:17

Alignment explanation


    Indices: 2447--2479  Score: 50
    Period size: 17  Copynumber: 1.9  Consensus size: 17

       2437 TGATAATTTT

                             
       2447 TTATAAATATGTTTTAA
          1 TTATAAATATGTTTTAA

                             
       2464 TTATCAAATAT-TTTTA
          1 TTAT-AAATATGTTTTA

       2480 TTCAACCACA


Statistics
Matches: 15,  Mismatches: 0, Indels: 2
        0.88            0.00        0.12

Matches are distributed among these distances:
  17    9  0.60
  18    6  0.40

ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55


Consensus pattern (17 bp):   
TTATAAATATGTTTTAA
Done.