Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010406.1 Kokia drynarioides strain JFW-HI SEQ_125289, 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: 5420
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34


Found at i:1426 original size:132 final size:132

Alignment explanation


    Indices: 1189--1427  Score: 370
    Period size: 132  Copynumber: 1.8  Consensus size: 132

       1179 ACAGTTATAA

                                            *            *            *     *
       1189 CTCGTATGAGCATTACAGGTTATATGGGTGCTGGTCTTAAATGTCTTACCGATGGTTGGGGTCCT
          1 CTCGTATGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG

                  *    *                                                     
       1254 GCATTTGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCATTGCCTAACATCTCAACCTAC
         66 GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCATTGCCTAACATCTCAACCTAC

              
       1319 GG
        131 GG

                 *                                 *        *             *  
       1321 CTCGTGTGAGCATTACAGGTTATATGGGTGCTAGTCTTAGATGTCCTATCGATGGTTGAGGTTCG
          1 CTCGTATGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG

                                 *         *          
       1386 GCATTTATTGCAGATTCTCCATAGCTCGTGTTAGCAGCATCG
         66 GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCG

       1428 TGTAGCCTCA


Statistics
Matches: 95,  Mismatches: 12, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
 132   95  1.00

ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33


Consensus pattern (132 bp):   
CTCGTATGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG
GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCATTGCCTAACATCTCAACCTAC
GG

Found at i:1474 original size:132 final size:132

Alignment explanation


    Indices: 1189--1465  Score: 365
    Period size: 132  Copynumber: 2.1  Consensus size: 132

       1179 ACAGTTATAA

                 *                          *            *            *     *
       1189 CTCGTATGAGCATTACAGGTTATATGGGTGCTGGTCTTAAATGTCTTACCGATGGTTGGGGTCCT
          1 CTCGTGTGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG

                  *    *                                 *                *  
       1254 GCATTTGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCATTGCCTAACATCTCAACCTAC
         66 GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCATAGCCTAACATCTCAACCCAC

            * 
       1319 GG
        131 AG

                                                   *        *             *  
       1321 CTCGTGTGAGCATTACAGGTTATATGGGTGCTAGTCTTAGATGTCCTATCGATGGTTGAGGTTCG
          1 CTCGTGTGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG

                                 *         *          **      *       *      
       1386 GCATTTATTGCAGATTCTCCATAGCTCGTGTTAGCAGCATCGTGTAGCCTCACATCTCGACCCAC
         66 GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCATAGCCTAACATCTCAACCCAC

              
       1451 AG
        131 AG

            * *          
       1453 TTTGTGTGAGCAT
          1 CTCGTGTGAGCAT

       1466 ATATGGTTAC


Statistics
Matches: 124,  Mismatches: 21, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
 132  124  1.00

ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32


Consensus pattern (132 bp):   
CTCGTGTGAGCATTACAGGTTATATGGGTGCTAGTCTTAAATGTCCTACCGATGGTTGAGGTCCG
GCATTTATTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCATAGCCTAACATCTCAACCCAC
AG
Done.