Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005411.1 Kokia drynarioides strain JFW-HI SEQ_119427, 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: 2910
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38


Found at i:2235 original size:29 final size:27

Alignment explanation


    Indices: 2198--2256  Score: 64
    Period size: 29  Copynumber: 2.1  Consensus size: 27

       2188 TTTTGAGCTG

                     *                *  
       2198 ATATATATTTTATTCGAAATTGTTTTTAA
          1 ATATATATTATATT-GAAATT-TTTTGAA

                *            *         
       2227 ATATTTATTATATTGAAGTTTTTTGAA
          1 ATATATATTATATTGAAATTTTTTGAA

               
       2254 ATA
          1 ATA

       2257 AAATTATTCT


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  27    9  0.35
  28    5  0.19
  29   12  0.46

ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54


Consensus pattern (27 bp):   
ATATATATTATATTGAAATTTTTTGAA

Found at i:2467 original size:7 final size:7

Alignment explanation


    Indices: 2457--2493  Score: 56
    Period size: 7  Copynumber: 5.1  Consensus size: 7

       2447 CAACTTTTTA

                   
       2457 AAATGTT
          1 AAATGTT

                   
       2464 AAATGTT
          1 AAATGTT

                   
       2471 AAATGTT
          1 AAATGTT

                   *
       2478 AAATGCTA
          1 AAATG-TT

                   
       2486 AAATGTT
          1 AAATGTT

             
       2493 A
          1 A

       2494 TAACTTTGAT


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
   7   21  0.78
   8    6  0.22

ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38


Consensus pattern (7 bp):   
AAATGTT

Found at i:2474 original size:14 final size:15

Alignment explanation


    Indices: 2455--2493  Score: 62
    Period size: 14  Copynumber: 2.7  Consensus size: 15

       2445 TTCAACTTTT

                           
       2455 TAAAATGTTAAATG-
          1 TAAAATGTTAAATGC

             *             
       2469 TTAAATGTTAAATGC
          1 TAAAATGTTAAATGC

                      
       2484 TAAAATGTTA
          1 TAAAATGTTA

       2494 TAACTTTGAT


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  14   13  0.59
  15    9  0.41

ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38


Consensus pattern (15 bp):   
TAAAATGTTAAATGC

Done.