Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000836.1 Kokia drynarioides strain JFW-HI SEQ_111931, 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: 5446
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34


Found at i:5125 original size:18 final size:17

Alignment explanation


    Indices: 5084--5125  Score: 75
    Period size: 17  Copynumber: 2.4  Consensus size: 17

       5074 ACTTTCTTTG

                             
       5084 CATCAAACTATAAAGAA
          1 CATCAAACTATAAAGAA

                             
       5101 CATCAAACTATAAAGAA
          1 CATCAAACTATAAAGAA

                    
       5118 CTATCAAA
          1 C-ATCAAA

       5126 GTTAATTTAT


Statistics
Matches: 24,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  17   18  0.75
  18    6  0.25

ACGTcount: A:0.57, C:0.19, G:0.05, T:0.19


Consensus pattern (17 bp):   
CATCAAACTATAAAGAA

Found at i:5314 original size:50 final size:50

Alignment explanation


    Indices: 5250--5425  Score: 126
    Period size: 50  Copynumber: 3.4  Consensus size: 50

       5240 CATAGTTGCA

                 *                                            
       5250 AATAATTAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGATTT
          1 AATAAATAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGATTT

                     *                   **  *          *      *    
       5300 AATAAATAACTAATTAAATAATTCGATTGTTTTTAATAATTT-AATATT--TATTT
          1 AATAAATAAATAATTAAAT-ATT---TTGAATTAAAT-ATTTGAGT-TTAGGATTT

                              *       *              *            
       5353 AAATATAATTAAATAATTTAATATTTGGAATTAAATATTTGGGTTTAAGG-TTT
          1 -AATA-AA-TAAATAATTAAATATTTTGAATTAAATATTTGAGTTT-AGGATTT

                     *   *      
       5406 AATAAATAACTAAATAAATA
          1 AATAAATAAATAATTAAATA

       5426 ATTGACTATT


Statistics
Matches: 94,  Mismatches: 19, Indels: 26
        0.68            0.14        0.19

Matches are distributed among these distances:
  50   28  0.30
  51   11  0.12
  52   12  0.13
  53    7  0.07
  54   14  0.15
  55   11  0.12
  56   11  0.12

ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44


Consensus pattern (50 bp):   
AATAAATAAATAATTAAATATTTTGAATTAAATATTTGAGTTTAGGATTT
Done.