Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01010764.1 Kokia drynarioides strain JFW-HI SEQ_125724, 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: 9668
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33


Found at i:7891 original size:3 final size:3

Alignment explanation


    Indices: 7883--7925  Score: 86
    Period size: 3  Copynumber: 14.3  Consensus size: 3

       7873 AATATTGTAT

                                                                     
       7883 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

       7926 AAATTTTAGG


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   40  1.00

ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67


Consensus pattern (3 bp):   
TTA

Found at i:9008 original size:26 final size:26

Alignment explanation


    Indices: 8979--9083  Score: 104
    Period size: 26  Copynumber: 4.0  Consensus size: 26

       8969 ATCTGCTCAT

                                      
       8979 GGTCCTTCAACCAACTCAAACTCAAG
          1 GGTCCTTCAACCAACTCAAACTCAAG

                   **   *             
       9005 GGTCCTTGGACCCACTCAAACTCAAG
          1 GGTCCTTCAACCAACTCAAACTCAAG

              *   *      *            
       9031 GGACCTCCAACCAGCTCAAACTCAAG
          1 GGTCCTTCAACCAACTCAAACTCAAG

            **           *   *         
       9057 TATCC-TCGAACCTACTTAAACTCAAG
          1 GGTCCTTC-AACCAACTCAAACTCAAG

             
       9083 G
          1 G

       9084 AACCTTCGAC


Statistics
Matches: 61,  Mismatches: 17, Indels: 2
        0.76            0.21        0.03

Matches are distributed among these distances:
  25    1  0.02
  26   60  0.98

ACGTcount: A:0.32, C:0.34, G:0.14, T:0.19


Consensus pattern (26 bp):   
GGTCCTTCAACCAACTCAAACTCAAG

Found at i:9078 original size:52 final size:52

Alignment explanation


    Indices: 8986--9088  Score: 134
    Period size: 52  Copynumber: 2.0  Consensus size: 52

       8976 CATGGTCCTT

                                *    * *                  *     
       8986 CAACCAACTCAAACTCAAGGGTCCTTGGACCCACTCAAACTCAAGGGACCTC
          1 CAACCAACTCAAACTCAAGGATCCTCGAACCCACTCAAACTCAAGGAACCTC

                  *            *           *   *               
       9038 CAACCAGCTCAAACTCAAGTATCCTCGAACCTACTTAAACTCAAGGAACCT
          1 CAACCAACTCAAACTCAAGGATCCTCGAACCCACTCAAACTCAAGGAACCT

       9089 TCGACCCATC


Statistics
Matches: 43,  Mismatches: 8, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  52   43  1.00

ACGTcount: A:0.35, C:0.35, G:0.13, T:0.17


Consensus pattern (52 bp):   
CAACCAACTCAAACTCAAGGATCCTCGAACCCACTCAAACTCAAGGAACCTC
Done.