Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000408.1 Kokia drynarioides strain JFW-HI SEQ_111225, 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: 7242
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32


Found at i:458 original size:98 final size:101

Alignment explanation


    Indices: 326--542  Score: 307
    Period size: 101  Copynumber: 2.2  Consensus size: 101

        316 AGTGATAACG

                                       *                  *                  
        326 TCTTCAAGTG-TTTTTTTACTTCAAGTGTCTTTCTAATAGCT-T-AGCTATTAGGTTCAATTCTA
          1 TCTTCAAGTGTTTTTTTTACTTCAAGTATCTTTCTAATAGCTCTCAACTATTAGGTTCAATTCTA

                      *                         
        388 CCTTCAATCCCTGTACGTTATGAACTTTT-ATTTAA
         66 CCTTCAATCCATGTACGTTATGAACTTTTAATTTAA

                                                *                            
        423 TCTTCAAGTGTTTTTTTTACTTCAAGTATCTTTCTAGTAGCTCCTCAACTATTAGGTTCAATTCT
          1 TCTTCAAGTGTTTTTTTTACTTCAAGTATCTTTCTAATAGCT-CTCAACTATTAGGTTCAATTCT

            *      *         *       *             
        488 TCCTTCAGTCCATGTACTTTATGAAGTTTTAAAATTTAA
         65 ACCTTCAATCCATGTACGTTATGAACTTTT--AATTTAA

                            
        527 TCTTCAAGTGTTTTTT
          1 TCTTCAAGTGTTTTTT

        543 ATTAAAGTCA


Statistics
Matches: 105,  Mismatches: 8, Indels: 7
        0.88            0.07        0.06

Matches are distributed among these distances:
  97   10  0.10
  98   29  0.28
 100    1  0.01
 101   43  0.41
 104   22  0.21

ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47


Consensus pattern (101 bp):   
TCTTCAAGTGTTTTTTTTACTTCAAGTATCTTTCTAATAGCTCTCAACTATTAGGTTCAATTCTA
CCTTCAATCCATGTACGTTATGAACTTTTAATTTAA

Found at i:3643 original size:18 final size:18

Alignment explanation


    Indices: 3620--3655  Score: 63
    Period size: 18  Copynumber: 2.0  Consensus size: 18

       3610 TTTCAATCAA

                              
       3620 GCTTTACTGTAACAATAT
          1 GCTTTACTGTAACAATAT

                  *           
       3638 GCTTTATTGTAACAATAT
          1 GCTTTACTGTAACAATAT

       3656 TGCATTGCCA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42


Consensus pattern (18 bp):   
GCTTTACTGTAACAATAT
Done.