Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001433.1 Kokia drynarioides strain JFW-HI SEQ_112940, 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: 9483
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34


Found at i:1820 original size:4 final size:4

Alignment explanation


    Indices: 1811--1863  Score: 61
    Period size: 4  Copynumber: 12.8  Consensus size: 4

       1801 TATTTCCTTC

                               *       *                *                
       1811 TTCT TTCT TTCT TCTCC TTCT TCCT TTCT TTCTT TTTT TTCT TTCT TTCT
          1 TTCT TTCT TTCT T-TCT TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT

               
       1861 TTC
          1 TTC

       1864 CCGTTTATTT


Statistics
Matches: 41,  Mismatches: 6, Indels: 4
        0.80            0.12        0.08

Matches are distributed among these distances:
   4   35  0.85
   5    6  0.15

ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72


Consensus pattern (4 bp):   
TTCT

Found at i:1839 original size:21 final size:20

Alignment explanation


    Indices: 1805--1861  Score: 75
    Period size: 17  Copynumber: 3.0  Consensus size: 20

       1795 CCGAGATATT

                                
       1805 TCCTTCTTCTTTCTTTCTTC
          1 TCCTTCTTCTTTCTTTCTTC

                                 
       1825 TCCTTCTTCCTTTCTTTCTT-
          1 TCCTTCTT-CTTTCTTTCTTC

                 *             
       1845 T--TTTTTCTTTCTTTCTT
          1 TCCTTCTTCTTTCTTTCTT

       1862 TCCCGTTTAT


Statistics
Matches: 35,  Mismatches: 1, Indels: 5
        0.85            0.02        0.12

Matches are distributed among these distances:
  17   11  0.31
  18    4  0.11
  20    9  0.26
  21   11  0.31

ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70


Consensus pattern (20 bp):   
TCCTTCTTCTTTCTTTCTTC

Found at i:1862 original size:21 final size:21

Alignment explanation


    Indices: 1805--1863  Score: 75
    Period size: 21  Copynumber: 2.9  Consensus size: 21

       1795 CCGAGATATT

                                 
       1805 TCCTTC-TTCTTTCTTTCTTC
          1 TCCTTCTTTCTTTCTTTCTTC

                    *           *
       1825 TCCTTCTTCCTTTCTTTCTTT
          1 TCCTTCTTTCTTTCTTTCTTC

             **               
       1846 TTTTTCTTTCTTTCTTTC
          1 TCCTTCTTTCTTTCTTTC

       1864 CCGTTTATTT


Statistics
Matches: 33,  Mismatches: 5, Indels: 1
        0.85            0.13        0.03

Matches are distributed among these distances:
  20    6  0.18
  21   27  0.82

ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69


Consensus pattern (21 bp):   
TCCTTCTTTCTTTCTTTCTTC
Done.