Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008405.1 Kokia drynarioides strain JFW-HI SEQ_123074, 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: 3365
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33


Found at i:930 original size:26 final size:26

Alignment explanation


    Indices: 870--923  Score: 81
    Period size: 26  Copynumber: 2.1  Consensus size: 26

        860 ATTTTGGGCG

                 *  *                 
        870 CAATTTTGAACATGTTCATGCAACGA
          1 CAATTCTGGACATGTTCATGCAACGA

                                  *   
        896 CAATTCTGGACATGTTCATGCAGCGA
          1 CAATTCTGGACATGTTCATGCAACGA

              
        922 CA
          1 CA

        924 TTCCTGGGTG


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  26   25  1.00

ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28


Consensus pattern (26 bp):   
CAATTCTGGACATGTTCATGCAACGA

Found at i:995 original size:37 final size:37

Alignment explanation


    Indices: 954--1026  Score: 110
    Period size: 37  Copynumber: 2.0  Consensus size: 37

        944 ATATTCCTGT

                           * *     *             
        954 GGCGACAGTTTTGGGTGCAATCTGGAAGTGCTCATGC
          1 GGCGACAGTTTTGGGCGAAATCTAGAAGTGCTCATGC

                 *                              
        991 GGCGATAGTTTTGGGCGAAATCTAGAAGTGCTCATG
          1 GGCGACAGTTTTGGGCGAAATCTAGAAGTGCTCATG

       1027 TAGTGACATT


Statistics
Matches: 32,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  37   32  1.00

ACGTcount: A:0.22, C:0.16, G:0.34, T:0.27


Consensus pattern (37 bp):   
GGCGACAGTTTTGGGCGAAATCTAGAAGTGCTCATGC

Found at i:3280 original size:264 final size:264

Alignment explanation


    Indices: 2805--3283  Score: 870
    Period size: 264  Copynumber: 1.8  Consensus size: 264

       2795 CCCCACGTAG

                                            *                                
       2805 TTCAAATGAGACATAAAATTAAGATAGGATGGTAGTGGACAAAAATTTCAGTATCATCCTTTTAC
          1 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC

                                                                             
       2870 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAGGT
         66 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAGGT

                                    *        *                               
       2935 GGATAGTCATTGAAAGCAAGGGGGCCTCACCCTCCCAATTTTTTAAAATATCTTCATTATATAAA
        131 GGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTTTAAAATATCTTCATTATATAAA

                                                                             
       3000 CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGCCACCATTGACTATCAAGCAAATACAC
        196 CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGCCACCATTGACTATCAAGCAAATACAC

                
       3065 GGAA
        261 GGAA

                                                                             
       3069 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC
          1 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC

                                           *                   *             
       3134 CCATTCTTTCCTCGTGCAATATAAATAAAGTGAATCA-ATTTTAATAAATATATGTTTCCATAGG
         66 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAAT-AGATTTTAATAAATACATGTTTCCATAGG

                    *                       *                                
       3198 TGGATAGTTATTGAAAGCAAGGGGGACTCACCTTACCAATTTTTTAAAATATCTTCATTATATAA
        130 TGGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTTTAAAATATCTTCATTATATAA

                      *          
       3263 ACAAAATTTATATTTGTAATT
        195 ACAAAATTTAAATTTGTAATT

       3284 ATTTTTATGT


Statistics
Matches: 206,  Mismatches: 8, Indels: 2
        0.95            0.04        0.01

Matches are distributed among these distances:
 264  205  1.00
 265    1  0.00

ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35


Consensus pattern (264 bp):   
TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC
CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAGGT
GGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTTTAAAATATCTTCATTATATAAA
CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGCCACCATTGACTATCAAGCAAATACAC
GGAA
Done.