Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000105.1 Kokia drynarioides strain JFW-HI SEQ_110742, 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, 921

Length: 1535
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38


Found at i:356 original size:96 final size:96

Alignment explanation


    Indices: 214--405  Score: 230
    Period size: 96  Copynumber: 2.0  Consensus size: 96

        204 AAGCTTTAAA

                             *                       *                    ***
        214 AATCGAGGCAATGTTCTTTTATTTCGAGTTTCGAAAATTCGTGCCTTAACTCACTAGGCGCAGTT
          1 AATCGAGGCAATGTTCTCTTATTTCGAGTTTCGAAAATTCGCGCCTTAACTCACTAGGCGCAACC

                    *                      
        279 TTTCTTCAGATCGAAATAATCGAATACCCTT
         66 TTTCTTCAAATCGAAATAATCGAATACCCTT

                                                                   *      *  
        310 AATCGAGGCAATGTT-TCCTTATCTTCGA--TTCTGAAATATT-GCGCCTTAACTTACTAGGTGC
          1 AATCGAGGCAATGTTCT-CTTAT-TTCGAGTTTC-GAAA-ATTCGCGCCTTAACTCACTAGGCGC

                              *           *    
        371 AACCTTTCTTCAAATCGAGATAATCGAATATCCTT
         62 AACCTTTCTTCAAATCGAAATAATCGAATACCCTT

        406 TTGTAAAAAT


Statistics
Matches: 82,  Mismatches: 10, Indels: 8
        0.82            0.10        0.08

Matches are distributed among these distances:
  95    4  0.05
  96   70  0.85
  97    8  0.10

ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35


Consensus pattern (96 bp):   
AATCGAGGCAATGTTCTCTTATTTCGAGTTTCGAAAATTCGCGCCTTAACTCACTAGGCGCAACC
TTTCTTCAAATCGAAATAATCGAATACCCTT

Found at i:1317 original size:3 final size:3

Alignment explanation


    Indices: 1309--1334  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       1299 CTCAAGTTTT

                                              
       1309 TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TT

       1335 TTAATATAAT


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Done.