Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009869.1 Kokia drynarioides strain JFW-HI SEQ_124603, 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: 2105
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.32

Warning! 293 characters in sequence are not A, C, G, or T


Found at i:62 original size:17 final size:17

Alignment explanation


    Indices: 2--64  Score: 90
    Period size: 17  Copynumber: 3.7  Consensus size: 17

          1 C

                     *    *  
          2 TAAATTTAATTTTATAA
          1 TAAATTTAAATTTAAAA

                         *   
         19 TAAATTTAAATTTCAAA
          1 TAAATTTAAATTTAAAA

                             
         36 TAAATTTAAATTTAAAA
          1 TAAATTTAAATTTAAAA

                *       
         53 TAAACTTAAATT
          1 TAAATTTAAATT

         65 CAATTTCCAA


Statistics
Matches: 41,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  17   41  1.00

ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44


Consensus pattern (17 bp):   
TAAATTTAAATTTAAAA

Found at i:1106 original size:138 final size:139

Alignment explanation


    Indices: 641--1154  Score: 904
    Period size: 139  Copynumber: 3.7  Consensus size: 139

        631 TTCAATCCGT

                 *         *                                                 
        641 TTCTCTGTATCTCATTAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC
          1 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC

                                                                *            
        706 TCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCATTAGGAATACGAAT
         66 TCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCATCAGGAATACGAAT

                     
        771 CTGGTTCAC
        131 CTGGTTCAC

                                   *              **  *                 *    
        780 TTCTCCGTATCTCATCAGGAAGAGTTGCTCGTTTCGAGAATTATTTGGGTTTTCTTCTCAATGTC
          1 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC

                *            *                                     *         
        845 TCATTAGGAAGATGATCTCATCACTGTTTCGATCCGTTTCTCTGTATCTCATCAGAAATACGAAT
         66 TCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCATCAGGAATACGAAT

                     
        910 CTGGTTCAC
        131 CTGGTTCAC

                                                                             
        919 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC
          1 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC

                                              **                             
        984 TCATCAGGAAGATGATCCCATCACTGTTTCGATCTATTTCTCTGTATCTCA-CAGGAATACGAAT
         66 TCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCATCAGGAATACGAAT

                     
       1048 CTGGTTCAC
        131 CTGGTTCAC

                                                                             
       1057 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC
          1 TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC

                                             
       1122 TCATCAGGAAGATGATCCCATCACTGTTTCGAT
         66 TCATCAGGAAGATGATCCCATCACTGTTTCGAT

       1155 NNNNNNNNNN


Statistics
Matches: 354,  Mismatches: 21, Indels: 1
        0.94            0.06        0.00

Matches are distributed among these distances:
 138  119  0.34
 139  235  0.66

ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39


Consensus pattern (139 bp):   
TTCTCCGTATCTCATCAGGAAGATTTGCTCGTTTCGAGCCTTGTTTGGGTTTTCTTCTCAGTGTC
TCATCAGGAAGATGATCCCATCACTGTTTCGATCCGTTTCTCTGTATCTCATCAGGAATACGAAT
CTGGTTCAC
Done.