Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013254.1 Kokia drynarioides strain JFW-HI SEQ_128274, 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: 8293
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.31

Warning! 297 characters in sequence are not A, C, G, or T


Found at i:3237 original size:21 final size:20

Alignment explanation


    Indices: 3213--3266  Score: 72
    Period size: 20  Copynumber: 2.6  Consensus size: 20

       3203 GTTGGACCAC

                                 
       3213 AATTATCGATACCATGAAGCA
          1 AATTATCGATACCAT-AAGCA

                            * * 
       3234 AATTATCGATACCATATGGA
          1 AATTATCGATACCATAAGCA

              *          
       3254 AAGTATCGATACC
          1 AATTATCGATACC

       3267 TGTAAGTCAG


Statistics
Matches: 30,  Mismatches: 3, Indels: 1
        0.88            0.09        0.03

Matches are distributed among these distances:
  20   15  0.50
  21   15  0.50

ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26


Consensus pattern (20 bp):   
AATTATCGATACCATAAGCA

Found at i:4238 original size:15 final size:15

Alignment explanation


    Indices: 4213--4249  Score: 56
    Period size: 15  Copynumber: 2.5  Consensus size: 15

       4203 AACCTCCTTA

                *          
       4213 AAATGATAAAATTTT
          1 AAATTATAAAATTTT

              *            
       4228 AATTTATAAAATTTT
          1 AAATTATAAAATTTT

                   
       4243 AAATTAT
          1 AAATTAT

       4250 TAATGGTAAA


Statistics
Matches: 19,  Mismatches: 3, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  15   19  1.00

ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46


Consensus pattern (15 bp):   
AAATTATAAAATTTT

Found at i:7419 original size:210 final size:210

Alignment explanation


    Indices: 7035--7447  Score: 612
    Period size: 210  Copynumber: 2.0  Consensus size: 210

       7025 AAGATTGCTC

                                                        *   *    *   *   *   
       7035 AGATTTCCGATTGAAAAAGATAGCTCCTTAATGCCAGTCCCATCTAAATAAAGTTCTCGCAGGCA
          1 AGATTTCCGATTGAAAAAGATAGCTCCTTAATGCCAGTCCCATCAAAACAAAGCTCTAGCAAGCA

                     *                   *  *                       *        
       7100 TTCCATTTTGCCATCAATCTCCGGAAAGCTTTTAAGATTTGAGCAACCTGAAAGAATTAACTTTT
         66 TTCCATTTTCCCATCAATCTCCGGAAAGCGTTGAAGATTTGAGCAACCTGAAAGAAGTAACTTTT

                                          *                   *              
       7165 CAAGAGATTCCATTCCAAATTTGATTGGAAGACTCCCAAGACTTTTGCAGTCTCTTAAATTCAAA
        131 CAAGAGATTCCATTCCAAATTTGATTGGAAAACTCCCAAGACTTTTGCAGCCTCTTAAATTCAAA

              *            
       7230 AGTTTAAGTCTTCTG
        196 AGCTTAAGTCTTCTG

                           *   *  *   *      * *                             
       7245 AGATTTCCGATTGAAGAAGGTATCTCTTTAATGTCTGTCCCATCAAAACAAAGCTCTAGCAAGCA
          1 AGATTTCCGATTGAAAAAGATAGCTCCTTAATGCCAGTCCCATCAAAACAAAGCTCTAGCAAGCA

                                 *              *                            
       7310 TTCCATTTTCCCATCAATCTCTGGAAAGCGTTGAAGTTTTGAGCAACCTGAAAGAAGTAACTTTT
         66 TTCCATTTTCCCATCAATCTCCGGAAAGCGTTGAAGATTTGAGCAACCTGAAAGAAGTAACTTTT

                              *    *                                         
       7375 CAAGAGATTCCATTCCAATTTTGGTTGGAAAACTCCTC-AGACTTTTGCAGCCTCTTAAATTCAA
        131 CAAGAGATTCCATTCCAAATTTGATTGGAAAACTCC-CAAGACTTTTGCAGCCTCTTAAATTCAA

                     
       7439 AAGCTTAAG
        195 AAGCTTAAG

       7448 CCTCGTAAGA


Statistics
Matches: 180,  Mismatches: 22, Indels: 2
        0.88            0.11        0.01

Matches are distributed among these distances:
 210  179  0.99
 211    1  0.01

ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31


Consensus pattern (210 bp):   
AGATTTCCGATTGAAAAAGATAGCTCCTTAATGCCAGTCCCATCAAAACAAAGCTCTAGCAAGCA
TTCCATTTTCCCATCAATCTCCGGAAAGCGTTGAAGATTTGAGCAACCTGAAAGAAGTAACTTTT
CAAGAGATTCCATTCCAAATTTGATTGGAAAACTCCCAAGACTTTTGCAGCCTCTTAAATTCAAA
AGCTTAAGTCTTCTG
Done.