Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003951.1 Kokia drynarioides strain JFW-HI SEQ_117038, 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: 4383
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32


Found at i:1374 original size:105 final size:105

Alignment explanation


    Indices: 1192--1503  Score: 401
    Period size: 105  Copynumber: 3.0  Consensus size: 105

       1182 GTTATAGGTA

                   *               *                                         
       1192 ACAACATCAGGCTCAATGCCTTGATTTCTCATTGTGTCAACAATATCTTCAGCTTCAAAAACCAT
          1 ACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAAAACCAT

                           *     *                  
       1257 CCCCTTCTTGCAAAGTGCATCGACCAATATACTATACGTG
         66 CCCCTTCTTGCAAAGCGCATCAACCAATATACTATACGTG

                                       *       *          *  *       **      
       1297 ACAACATTAGGCTCAATGCCTTGCTTTATCATTGTCTCAACAATATGTTTAGCTTCAGGAACCAT
          1 ACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAAAACCAT

                          *                          
       1362 -CCCTTCCTTGCAATGCGCATCAACCAATATACTATACGTG
         66 CCCCTT-CTTGCAAAGCGCATCAACCAATATACTATACGTG

                             *                              *        *   *** 
       1402 ACAACATTAGGCTCAATCCCTTGCTTTCTCATTGTGTCAACAATATCTACAGCTTCAGAAATTGT
          1 ACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAAAACCAT

                 *       * *       *   *   *     
       1467 CCCCTCCTTGCAATGTGCATCAATCAACATATTATAC
         66 CCCCTTCTTGCAAAGCGCATCAACCAATATACTATAC

       1504 ATGAAAATAT


Statistics
Matches: 179,  Mismatches: 26, Indels: 4
        0.86            0.12        0.02

Matches are distributed among these distances:
 104    5  0.03
 105  170  0.95
 106    4  0.02

ACGTcount: A:0.29, C:0.27, G:0.12, T:0.31


Consensus pattern (105 bp):   
ACAACATTAGGCTCAATGCCTTGCTTTCTCATTGTGTCAACAATATCTTCAGCTTCAAAAACCAT
CCCCTTCTTGCAAAGCGCATCAACCAATATACTATACGTG

Found at i:3898 original size:16 final size:17

Alignment explanation


    Indices: 3868--3901  Score: 52
    Period size: 16  Copynumber: 2.1  Consensus size: 17

       3858 GTAAATTATT

                      *      
       3868 TTTTATAATTTATAAAA
          1 TTTTATAATTAATAAAA

                             
       3885 TTTTA-AATTAATAAAA
          1 TTTTATAATTAATAAAA

             
       3901 T
          1 T

       3902 AATATTCTAT


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  16   11  0.69
  17    5  0.31

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (17 bp):   
TTTTATAATTAATAAAA
Done.