Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007991.1 Kokia drynarioides strain JFW-HI SEQ_122643, 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: 4891
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:1584 original size:135 final size:135

Alignment explanation


    Indices: 1335--1600  Score: 433
    Period size: 135  Copynumber: 2.0  Consensus size: 135

       1325 TCTCTAGCTA

                              *                                              
       1335 TACAAGTTGATTATACCAGCTGTACACTTACGCAAATCTAGCGTGTTCATCAGATAGTTATCAGT
          1 TACAAGTTGATTATACCACCTGTACACTTACGCAAATCTAGCGTGTTCATCAGATAGTTATCAGT

                 *    *         *                       *                    
       1400 TGCGATGACAGTTCTAGAAGTAAATTTGGATGTTATTTTGCAGCGACAACTCTGTACACCTTCAT
         66 TGCGACGACAATTCTAGAAGCAAATTTGGATGTTATTTTGCAGCAACAACTCTGTACACCTTCAT

                 
       1465 GTCTG
        131 GTCTG

                                            *      *                   *     
       1470 TACAAGTTGATTATACCACCTGTACACTTACGTAAATCTCGCGTGTTCATCAGATAGTTGTCAGT
          1 TACAAGTTGATTATACCACCTGTACACTTACGCAAATCTAGCGTGTTCATCAGATAGTTATCAGT

                             **                     *                        
       1535 TGCGACGACAATTCTAGGCGCAAATTTGGATGTTATTTTGTAGCAACAACTCTGTACACCTTCAT
         66 TGCGACGACAATTCTAGAAGCAAATTTGGATGTTATTTTGCAGCAACAACTCTGTACACCTTCAT

             
       1600 G
        131 G

       1601 CATTGATCCT


Statistics
Matches: 120,  Mismatches: 11, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
 135  120  1.00

ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33


Consensus pattern (135 bp):   
TACAAGTTGATTATACCACCTGTACACTTACGCAAATCTAGCGTGTTCATCAGATAGTTATCAGT
TGCGACGACAATTCTAGAAGCAAATTTGGATGTTATTTTGCAGCAACAACTCTGTACACCTTCAT
GTCTG

Found at i:2702 original size:17 final size:17

Alignment explanation


    Indices: 2663--2728  Score: 53
    Period size: 17  Copynumber: 3.9  Consensus size: 17

       2653 ATATATATGG

                           **
       2663 AAATGCAATGACAATGT
          1 AAATGCAATGACAATAA

             *        *      
       2680 AGATGCAATGTCAATAA
          1 AAATGCAATGACAATAA

                   *         
       2697 AAATGCAGTGACAA-AA
          1 AAATGCAATGACAATAA

                  **        
       2713 GAAATGTGATGACAAT
          1 -AAATGCAATGACAAT

       2729 TGTATTACAT


Statistics
Matches: 37,  Mismatches: 10, Indels: 3
        0.74            0.20        0.06

Matches are distributed among these distances:
  16    2  0.05
  17   35  0.95

ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21


Consensus pattern (17 bp):   
AAATGCAATGACAATAA
Done.