Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008406.1 Kokia drynarioides strain JFW-HI SEQ_123075, 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: 852
    Period size: 264  Copynumber: 1.8  Consensus size: 264

       2795 CCCCACGTAG

                                            *                                
       2805 TTCAAATGAGACATAAAATTAAGATAGGATGGTAGTGGACAAAAATTTCAGTATCATCCTTTTAC
          1 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC

                                                                             
       2870 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAAGT
         66 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAAGT

                                    *        *                               
       2935 GGATAGTCATTGAAAGCAAGGGGGCCTCACCCTCCCAATTTTCTAAAATATCTTCATTATATAAA
        131 GGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTCTAAAATATCTTCATTATATAAA

                                                                             
       3000 CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGTCACCCTTAACTATCAAGCAAATACAC
        196 CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGTCACCCTTAACTATCAAGCAAATACAC

                
       3065 GGAA
        261 GGAA

                                                                             
       3069 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC
          1 TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC

                                           *                   *           * 
       3134 CCATTCTTTCCTCGTGCAATATAAATAAAGTGAATCA-ATTTTAATAAATATATGTTTCCATAGG
         66 CCATTCTTTCCTCGTGCAATATAAATAAAGTAAAT-AGATTTTAATAAATACATGTTTCCATAAG

                    *                       *          *                     
       3198 TGGATAGTTATTGAAAGCAAGGGGGACTCACCTTACCAATTTTTTAAAATATCTTCATTATATAA
        130 TGGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTCTAAAATATCTTCATTATATAA

                      *          
       3263 ACAAAATTTATATTTGTAATT
        195 ACAAAATTTAAATTTGTAATT

       3284 ATTTTTATGT


Statistics
Matches: 204,  Mismatches: 10, Indels: 2
        0.94            0.05        0.01

Matches are distributed among these distances:
 264  203  1.00
 265    1  0.00

ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35


Consensus pattern (264 bp):   
TTCAAATGAGACATAAAATTAAGATAGGATGGAAGTGGACAAAAATTTCAGTATCATCCTTTTAC
CCATTCTTTCCTCGTGCAATATAAATAAAGTAAATAGATTTTAATAAATACATGTTTCCATAAGT
GGATAGTCATTGAAAGCAAGGGGGACTCACCCTACCAATTTTCTAAAATATCTTCATTATATAAA
CAAAATTTAAATTTGTAATTTTTATATTTTTTTTATAGTCACCCTTAACTATCAAGCAAATACAC
GGAA
Done.