Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013790.1 Kokia drynarioides strain JFW-HI SEQ_128818, 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, 876

Length: 1461
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.39

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:1311 original size:215 final size:213

Alignment explanation


    Indices: 820--1458  Score: 652
    Period size: 215  Copynumber: 3.0  Consensus size: 213

        810 GCAATTTTGG

                  *       *                                                  
        820 AAATCATATCATTTGGTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAAA
          1 AAATCACATCATTTAGTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAAA

            *  *    *                            *   *       *           *   
        885 ATTCTTTATGTGAGAATTGTT-TCGTTCTTGGTTCTCAGCCAAACTTT-AAACTTGAAAAAATTT
         66 CTTATTTAGGTGAGAATTGTTCTC-TT-TTGGTTCTCGGCCGAACTTTCGAACTTG-AAAACTTT

               *             *   *  *                                *       
        948 T-CAAGTTCTTTTATAATTTTTTTTATTAAAGTATTCAAGACGATCCATTCTTTC-ATCAA-TTT
        128 TACGAGTTCTTTTATAACTTTGTTCATTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTT

              *               *  
       1010 ATTGTACAGTCCATGCTTGGA
        193 ATAGTACAGTCCATGCTTAGA

                     *              *         *  *    *     *   *   *        
       1031 AAATCACATTA-TTAGGTCTAAATTGTTGTCATTCTGCAAACTACTTTAGGTTTTTCAATTAAAA
          1 AAATCACATCATTTA-GTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAA

                                                *  *                         
       1095 ACTTATTTAGGTGAGAATTGGTTCTCTTTTGGTTCTTGGTCGAACTTTCGAACTTGAAACACTTT
         65 ACTTATTTAGGTGAGAATT-GTTCTCTTTTGGTTCTCGGCCGAACTTTCGAACTTGAAA-ACTTT

                  *                   *     *         *     *   *            
       1160 TACGAGGTCTTTTATAACTTTGATTCCTTAAACTATTCAAGATGATCCCTTCCTTCGAGCAATTT
        128 TACGAGTTCTTTTATAACTTTG-TTCATTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTT

                      *             
       1225 TA-AG-AGCATTCCATGCTCTAG-
        192 TATAGTA-CAGTCCATGCT-TAGA

                 *             *        *                          *         
       1246 AAATCGCATCATTTAGTCTGAATAGTTGCCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
          1 AAATCACATCATTTAGTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAAA

                       *               *        *         *     *            
       1311 CTTATTTAGGTAAGAATAAT-TTCTCTCTTGGTTCTGGGCCGAACTGTCGAAGTTGACAAACTTT
         66 CTTATTTAGGTGAGAAT--TGTTCTCTTTTGGTTCTCGGCCGAACTTTCGAACTTGA-AAACTTT

                                                    *   *                    
       1375 TAACGAGTTCTTTTATAACTTTTGTTCATTAAAGTATTCAGGACAATCCATTCTTTCGAGCAATT
        128 T-ACGAGTTCTTTTATAAC-TTTGTTCATTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATT

             ***                
       1440 TCCCA-TACAGTCCATGCTT
        191 TTATAGTACAGTCCATGCTT

       1459 GGG


Statistics
Matches: 348,  Mismatches: 61, Indels: 34
        0.79            0.14        0.08

Matches are distributed among these distances:
 210    2  0.01
 211   86  0.25
 212   16  0.05
 213   18  0.05
 214   28  0.08
 215  119  0.34
 216   72  0.21
 217    7  0.02

ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41


Consensus pattern (213 bp):   
AAATCACATCATTTAGTCTAAATAGTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTAAAAA
CTTATTTAGGTGAGAATTGTTCTCTTTTGGTTCTCGGCCGAACTTTCGAACTTGAAAACTTTTAC
GAGTTCTTTTATAACTTTGTTCATTAAAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTATA
GTACAGTCCATGCTTAGA
Done.