Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001837.1 Kokia drynarioides strain JFW-HI SEQ_113585, 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, 722

Length: 1204
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28


Found at i:411 original size:216 final size:216

Alignment explanation


    Indices: 37--1189  Score: 1420
    Period size: 216  Copynumber: 5.3  Consensus size: 216

         27 AAATAAGTCG

                          *  *      * *      *                 *          *  
         37 AAGGAATGGATCGTATTAAATACTCTGAGGAACTGAAGTTATAAAAGAACTCGTAAATGTTTGAC
          1 AAGGAATGGATCGTCTTGAATACTATCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAAC

                                               *      *           *          
        102 AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAGAATTCTAACGTAAAAAAGCTTTTAATTCA
         66 AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTCA

               *       *                        *     *                *     
        167 AAGGCCAAAAGCTATTTACAAAATGACAAACTATTTTGACCATATGATGTGATTTCCCGGTCATG
        131 AAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGATCATG

                *                
        232 GAATCTTCAAAAAATTGGTCA
        196 GAATGTTCAAAAAATTGGTCA

                                 *  *   *   **                 *             
        253 AAGGAATGGATCGTCTTGAATGCTCTCAAGAATTGAAGTTATAAAAGAACTCGTAAATGTTTAAC
          1 AAGGAATGGATCGTCTTGAATACTATCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAAC

            *             *                     *       *                    
        318 CAGTTC-AGAAGTTGGTCCAAGAACCAAGAGAGAAATAATTCTCTCGTAAAAAAGTTTTTAATTC
         66 AAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTC

             *            *                                            *     
        382 ACAGACCAAAAGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCAATCAT
        130 AAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGATCAT

                    **            
        447 GGAATGTTTGAAAAATTGGTCA
        195 GGAATGTTCAAAAAATTGGTCA

             *   * *    *      *            *                                
        469 AGGGAGTTGATCATCTTGACTACTATCAGGAATCGAAGTTATAAAAGAACTAGTAAATGTTTAAC
          1 AAGGAATGGATCGTCTTGAATACTATCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAAC

                          *                    *      *                      
        534 AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAAGAATTCTAACGTAAAAAAGTTTTTAATTCA
         66 AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTCA

              *        *                  *      *            *        *  *  
        599 AAAACCAAAAGCTATTTACAAAATGACAAATTATTTTTGACCAAATGATGCGATTTCCCAATAAT
        131 AAGACCAAAAGTTATTTACAAAATGACAAACTA-TTTAGACCAAATGATGTGATTTCCCGATCAT

                 *    *           
        664 GGAATCTTCAGAAAATTGGTCA
        195 GGAATGTTCAAAAAATTGGTCA

                                    *       *                   *            
        686 AAGGAATGGATCGTCTTGAATACTCTCAGGAATC-AGAGTTATAAAAGAACTTGTAAATGTTTAA
          1 AAGGAATGGATCGTCTTGAATACTATCAGGAACCGA-AGTTATAAAAGAACTAGTAAATGTTTAA

               *                        **               **                  
        750 CAACTTCGAAAGTTCGTCCAAGAACCAATTGAGAAACAGA-TCTCTTGTAAAAAAGTTTTTAATT
         65 CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACA-ATTCTCACGTAAAAAAGTTTTTAATT

              *         *  *     *                             *   *         
        814 CATAGACCAAAATTTGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATATCCCGATCA
        129 CAAAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGATCA

                     **           *
        879 TGGAATGTTTGAAAAATTGGTCG
        194 TGGAATGTTCAAAAAATTGGTCA

               *               *            *               **            *  
        902 AAGAAATGGATCGTCTTGACTACTATCAGGAAACGAAGTTATAAAAGATTTAGTAAATGTTTGAC
          1 AAGGAATGGATCGTCTTGAATACTATCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAAC

                   *  *   *                                       *          
        967 AAGTTCGGAACTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGATTTTAATTCA
         66 AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTCA

                                            *                              * 
       1032 AAGACCAAAAGCTT-TTTACAAAATGACTAAAGT-TTTAGACCAAATGAT-TCGATTTCCCGAGC
        131 AAGACCAAAAG-TTATTTACAAAATGAC-AAACTATTTAGACCAAATGATGT-GATTTCCCGATC

            *                       
       1094 GTGGAATGTTCAAAAAATTGGTCA
        193 ATGGAATGTTCAAAAAATTGGTCA

              *         *   *  *                                  *        * 
       1118 AATGAATGGATCATCTCGACTACTATCTA-GAACCGAAGTTATAAAAGAACTAGGAAATGTTTGA
          1 AAGGAATGGATCGTCTTGAATACTATC-AGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAA

                    
       1182 CAAGTTCG
         65 CAAGTTCG

       1190 GCACTTCATC


Statistics
Matches: 807,  Mismatches: 119, Indels: 22
        0.85            0.13        0.02

Matches are distributed among these distances:
 215    2  0.00
 216  612  0.76
 217  192  0.24
 218    1  0.00

ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28


Consensus pattern (216 bp):   
AAGGAATGGATCGTCTTGAATACTATCAGGAACCGAAGTTATAAAAGAACTAGTAAATGTTTAAC
AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTCA
AAGACCAAAAGTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGATCATG
GAATGTTCAAAAAATTGGTCA

Found at i:833 original size:433 final size:433

Alignment explanation


    Indices: 71--1189  Score: 1599
    Period size: 433  Copynumber: 2.6  Consensus size: 433

         61 CTGAGGAACT

                             *                           *                   
         71 GAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAA
          1 GAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAA

                                *             *                              
        136 AGAATTCTAACGTAAAAAAGCTTTTAATTCAAAGGCCAAAAGCTATTTACAAAATGACAAACTA-
         66 AGAATTCTAACGTAAAAAAGATTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAA-TAT

                     *      *         *                                      
        200 TTTTGACCATATGATGTGATTTCCCGGTCATGGAATCTTCAAAAAATTGGTCAAAGGAATGGATC
        130 TTTTGACCAAATGATGCGATTTCCCGATCATGGAATCTTCAAAAAATTGGTCAAAGGAATGGATC

                     *            *                 *             *          
        265 GTCTTGAATGCTCTCAAGAAT-TGAAGTTATAAAAGAACTCGTAAATGTTTAACCAGTTC-AGAA
        195 GTCTTGAATACTCTC-AGAATCAGAAGTTATAAAAGAACTAGTAAATGTTTAACAAGTTCGAGAA

               *                     *                                       
        328 GTTGGTCCAAGAACCAAGAGAGAAATAATTCTCTCGTAAAAAAGTTTTTAATTCACAGACCAAAA
        259 GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCTCGTAAAAAAGTTTTTAATTCACAGACCAAAA

                                                   *   *                     
        393 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCAATCATGGAATGTTTGA
        324 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATATCCCAATCATGGAATGTTTGA

                           * * *                        * 
        458 AAAATTGGTC-AAGGGAGTTGATCATCTTGACTACTATCAGGAATC
        389 AAAATTGGTCGAA-GAAATGGATCATCTTGACTACTATCAGGAAAC

                                        *                                    
        503 GAAGTTATAAAAGAACTAGTAAATGTTTAACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAA
          1 GAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAA

                                *            *                               
        568 AGAATTCTAACGTAAAAAAGTTTTTAATTCAAAAACCAAAAGCTATTTACAAAATGACAAATTAT
         66 AGAATTCTAACGTAAAAAAGATTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAA-TAT

                                     *  *            *                       
        633 TTTTGACCAAATGATGCGATTTCCCAATAATGGAATCTTCAGAAAATTGGTCAAAGGAATGGATC
        130 TTTTGACCAAATGATGCGATTTCCCGATCATGGAATCTTCAAAAAATTGGTCAAAGGAATGGATC

                                                    *               *        
        698 GTCTTGAATACTCTCAGGAATCAG-AGTTATAAAAGAACTTGTAAATGTTTAACAACTTCGA-AA
        195 GTCTTGAATACTCTCA-GAATCAGAAGTTATAAAAGAACTAGTAAATGTTTAACAAGTTCGAGAA

                             **                *                    *        
        761 GTTCGTCCAAGAACCAATTGAGAAACAGA-TCTCTTGTAAAAAAGTTTTTAATTCATAGACCAAA
        259 GTTCGTCCAAGAACCAAGAGAGAAACA-ATTCTCTCGTAAAAAAGTTTTTAATTCACAGACCAAA

             *        *                                      *               
        825 ATTTGTTTACGAAATGACAAACTATTTAGACCAAATGATGCGATATCCCGATCATGGAATGTTTG
        323 AGTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATATCCCAATCATGGAATGTTTG

                                    *                     
        890 AAAAATTGGTCGAAGAAATGGATCGTCTTGACTACTATCAGGAAAC
        388 AAAAATTGGTCGAAGAAATGGATCATCTTGACTACTATCAGGAAAC

                          **                      *  *                       
        936 GAAGTTATAAAAGATTTAGTAAATGTTTGACAAGTTCGGAACTTCATCCAAGAACCAAGAGAGAA
          1 GAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAA

             *      *                                   *                  * 
       1001 ACAATTCTCACGTAAAAAAGATTTTAATTCAAAGACCAAAAGCTTTTTACAAAATGACTAAA-GT
         66 AGAATTCTAACGTAAAAAAGATTTTAATTCAAAGACCAAAAGCTATTTACAAAATGAC-AAATAT

               *           *           * *      *                  *         
       1065 TTTAGACCAAATGATTCGATTTCCCGAGCGTGGAATGTTCAAAAAATTGGTCAAATGAATGGATC
        130 TTTTGACCAAATGATGCGATTTCCCGATCATGGAATCTTCAAAAAATTGGTCAAAGGAATGGATC

            *   *  *    *         *                   *        *         
       1130 ATCTCGACTACTATCTAGAA-CCGAAGTTATAAAAGAACTAGGAAATGTTTGACAAGTTCG
        195 GTCTTGAATACTCTC-AGAATCAGAAGTTATAAAAGAACTAGTAAATGTTTAACAAGTTCG

       1190 GCACTTCATC


Statistics
Matches: 615,  Mismatches: 63, Indels: 18
        0.88            0.09        0.03

Matches are distributed among these distances:
 431    2  0.00
 432  226  0.37
 433  379  0.62
 434    8  0.01

ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28


Consensus pattern (433 bp):   
GAAGTTATAAAAGAACTAGTAAATGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAA
AGAATTCTAACGTAAAAAAGATTTTAATTCAAAGACCAAAAGCTATTTACAAAATGACAAATATT
TTTGACCAAATGATGCGATTTCCCGATCATGGAATCTTCAAAAAATTGGTCAAAGGAATGGATCG
TCTTGAATACTCTCAGAATCAGAAGTTATAAAAGAACTAGTAAATGTTTAACAAGTTCGAGAAGT
TCGTCCAAGAACCAAGAGAGAAACAATTCTCTCGTAAAAAAGTTTTTAATTCACAGACCAAAAGT
TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATATCCCAATCATGGAATGTTTGAAA
AATTGGTCGAAGAAATGGATCATCTTGACTACTATCAGGAAAC

Done.