Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011672.1 Kokia drynarioides strain JFW-HI SEQ_126664, 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: 6770
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36


Found at i:717 original size:58 final size:58

Alignment explanation


    Indices: 624--748  Score: 205
    Period size: 58  Copynumber: 2.2  Consensus size: 58

        614 CTACACCATG

                                          *                           
        624 ACTTAATTGATTGGAATTTTATCTTTAATAGTTGATTGTGAACTTTAACTATCAAAGA
          1 ACTTAATTGATTGGAATTTTATCTTTAATAATTGATTGTGAACTTTAACTATCAAAGA

                    *                 **           *                  
        682 ACTTAATTTATTGGAATTTTATCTTTTCTAATTGATTGTTAACTTTAACTATCAAAGA
          1 ACTTAATTGATTGGAATTTTATCTTTAATAATTGATTGTGAACTTTAACTATCAAAGA

                     
        740 ACTTAATTG
          1 ACTTAATTG

        749 TTCGAACGCT


Statistics
Matches: 61,  Mismatches: 6, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  58   61  1.00

ACGTcount: A:0.34, C:0.10, G:0.11, T:0.46


Consensus pattern (58 bp):   
ACTTAATTGATTGGAATTTTATCTTTAATAATTGATTGTGAACTTTAACTATCAAAGA

Found at i:923 original size:21 final size:21

Alignment explanation


    Indices: 886--925  Score: 55
    Period size: 21  Copynumber: 1.9  Consensus size: 21

        876 TATTATTATT

                        *        
        886 ATTTAGGGATTAGAGTTTAGG
          1 ATTTAGGGATTAAAGTTTAGG

                                
        907 ATTTA-GGATTTAAAGTTTA
          1 ATTTAGGGA-TTAAAGTTTA

        926 AGGTTAGTAC


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  20    3  0.18
  21   14  0.82

ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42


Consensus pattern (21 bp):   
ATTTAGGGATTAAAGTTTAGG

Found at i:3180 original size:21 final size:21

Alignment explanation


    Indices: 3151--3198  Score: 53
    Period size: 21  Copynumber: 2.2  Consensus size: 21

       3141 TCTGATAGTT

                                   
       3151 AAATGTAATTTAAATT-TTAATA
          1 AAAT-TAA-TTAAATTATTAATA

                      *       *  
       3173 AAATTAATTACATTATTATTA
          1 AAATTAATTAAATTATTAATA

                 
       3194 AAATT
          1 AAATT

       3199 TTAATCGCAT


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  20    6  0.26
  21   13  0.57
  22    4  0.17

ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46


Consensus pattern (21 bp):   
AAATTAATTAAATTATTAATA
Done.