Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008486.1 Kokia drynarioides strain JFW-HI SEQ_123161, 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: 9831
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31


Found at i:1940 original size:24 final size:24

Alignment explanation


    Indices: 1890--1941  Score: 59
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       1880 TGATTTCTTT

                               *  * 
       1890 TCAGCATCATCATCCTCACTTTTC
          1 TCAGCATCATCATCCTCACCTTCC

                    *     *  *      
       1914 TCAGCATCTTCATCTTCTCCTTCC
          1 TCAGCATCATCATCCTCACCTTCC

                
       1938 TCAG
          1 TCAG

       1942 AAGAGCTGCT


Statistics
Matches: 23,  Mismatches: 5, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  24   23  1.00

ACGTcount: A:0.17, C:0.38, G:0.06, T:0.38


Consensus pattern (24 bp):   
TCAGCATCATCATCCTCACCTTCC

Found at i:2038 original size:26 final size:26

Alignment explanation


    Indices: 2002--2053  Score: 95
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       1992 CTATAATCAG

                                      
       2002 TTAATCACAACATGCGTATTCTTACA
          1 TTAATCACAACATGCGTATTCTTACA

                  *                   
       2028 TTAATCTCAACATGCGTATTCTTACA
          1 TTAATCACAACATGCGTATTCTTACA

       2054 GCAATAAGGA


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   25  1.00

ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37


Consensus pattern (26 bp):   
TTAATCACAACATGCGTATTCTTACA

Found at i:8038 original size:24 final size:24

Alignment explanation


    Indices: 7988--8039  Score: 59
    Period size: 24  Copynumber: 2.2  Consensus size: 24

       7978 TGATTTCTTT

                               *  * 
       7988 TCAGCATCATCATCCTCACTTTTC
          1 TCAGCATCATCATCCTCACCTTCC

                    *     *  *      
       8012 TCAGCATCTTCATCTTCTCCTTCC
          1 TCAGCATCATCATCCTCACCTTCC

                
       8036 TCAG
          1 TCAG

       8040 AAGAGCTGCT


Statistics
Matches: 23,  Mismatches: 5, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  24   23  1.00

ACGTcount: A:0.17, C:0.38, G:0.06, T:0.38


Consensus pattern (24 bp):   
TCAGCATCATCATCCTCACCTTCC

Found at i:8136 original size:26 final size:26

Alignment explanation


    Indices: 8100--8151  Score: 95
    Period size: 26  Copynumber: 2.0  Consensus size: 26

       8090 CTATAATCAG

                                      
       8100 TTAATCACAACATGCGTATTCTTACA
          1 TTAATCACAACATGCGTATTCTTACA

                  *                   
       8126 TTAATCTCAACATGCGTATTCTTACA
          1 TTAATCACAACATGCGTATTCTTACA

       8152 GCAATAAGGA


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   25  1.00

ACGTcount: A:0.33, C:0.23, G:0.08, T:0.37


Consensus pattern (26 bp):   
TTAATCACAACATGCGTATTCTTACA
Done.