Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012656.1 Kokia drynarioides strain JFW-HI SEQ_127667, 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, 665

Length: 1109
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32


Found at i:393 original size:151 final size:150

Alignment explanation


    Indices: 106--418  Score: 482
    Period size: 151  Copynumber: 2.1  Consensus size: 150

         96 CCTCCTATGT

                  *                                                    *     
        106 TATTTTCTCTAAGAATACCACGATATCAACATGTAATCGCCCACGTTTTGAGTAGCATCTCAAAC
          1 TATTTTATCTAAGAATACCACGATATCAACATGTAATCGCCCACGTTTTGAGTAGCATCCCAAAC

                   *                *                    *                   
        171 CAACTTTTTTGTCTAAAAAAACACGTCAGTCTAACACACTAAAGGTCTCCGATTCAAGTCCGGGC
         66 CAACTTTATTGTCTAAAAAAACACATCAGTCTAACACACTAAAGGCCTCCGATTCAAGTCCGGGC

                   *            
        236 AAAGCCATTGCCTTCAAATA
        131 AAAGCCAGTGCCTTCAAATA

                  *      *  *                                                
        256 TATTTTGTCTAAGCATGCCACGATATCAACATGTAATCGCCCACGTTTTGAGTAGCATCCCAAAC
          1 TATTTTATCTAAGAATACCACGATATCAACATGTAATCGCCCACGTTTTGAGTAGCATCCCAAAC

             *               *         *             **                      
        321 GTAACTTTATTGTCTAACAAAACACATTAGTCTAACACACTCTAGGCCTCCGATTCAAGTCCGGG
         66 -CAACTTTATTGTCTAAAAAAACACATCAGTCTAACACACTAAAGGCCTCCGATTCAAGTCCGGG

             *                   
        386 CGAAGCCAGTGCCTTCAAATA
        130 CAAAGCCAGTGCCTTCAAATA

                        
        407 TATTTTATCTAA
          1 TATTTTATCTAA

        419 TTTTTAGAAA


Statistics
Matches: 147,  Mismatches: 15, Indels: 1
        0.90            0.09        0.01

Matches are distributed among these distances:
 150   61  0.41
 151   86  0.59

ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29


Consensus pattern (150 bp):   
TATTTTATCTAAGAATACCACGATATCAACATGTAATCGCCCACGTTTTGAGTAGCATCCCAAAC
CAACTTTATTGTCTAAAAAAACACATCAGTCTAACACACTAAAGGCCTCCGATTCAAGTCCGGGC
AAAGCCAGTGCCTTCAAATA

Found at i:962 original size:47 final size:47

Alignment explanation


    Indices: 895--986  Score: 148
    Period size: 47  Copynumber: 2.0  Consensus size: 47

        885 GGAGAAGCCC

                    *                *           *         
        895 TTTTTTAATGCCAAATCTGGTCAAGTTATATAACATATTATGATGCT
          1 TTTTTTAAAGCCAAATCTGGTCAAGCTATATAACATACTATGATGCT

                                 *                       
        942 TTTTTTAAAGCCAAATCTGGTGAAGCTATATAACATACTATGATG
          1 TTTTTTAAAGCCAAATCTGGTCAAGCTATATAACATACTATGATG

        987 GTCTATGTTT


Statistics
Matches: 41,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  47   41  1.00

ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39


Consensus pattern (47 bp):   
TTTTTTAAAGCCAAATCTGGTCAAGCTATATAACATACTATGATGCT
Done.