Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002021.1 Kokia drynarioides strain JFW-HI SEQ_113900, 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: 4125
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:2110 original size:2 final size:2

Alignment explanation


    Indices: 2103--2128  Score: 52
    Period size: 2  Copynumber: 13.0  Consensus size: 2

       2093 AAGCTTTAAC

                                                  
       2103 TA TA TA TA TA TA TA TA TA TA TA TA TA
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA

       2129 GATAGATAGA


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   24  1.00

ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50


Consensus pattern (2 bp):   
TA

Found at i:3663 original size:37 final size:37

Alignment explanation


    Indices: 3613--3686  Score: 148
    Period size: 37  Copynumber: 2.0  Consensus size: 37

       3603 TTTATGAAAA

                                                 
       3613 TTAGTTAAATTACAAACTAATGACAAAATTATATTTT
          1 TTAGTTAAATTACAAACTAATGACAAAATTATATTTT

                                                 
       3650 TTAGTTAAATTACAAACTAATGACAAAATTATATTTT
          1 TTAGTTAAATTACAAACTAATGACAAAATTATATTTT

       3687 AACTTTCACT


Statistics
Matches: 37,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  37   37  1.00

ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41


Consensus pattern (37 bp):   
TTAGTTAAATTACAAACTAATGACAAAATTATATTTT

Found at i:3791 original size:3 final size:3

Alignment explanation


    Indices: 3776--3813  Score: 67
    Period size: 3  Copynumber: 12.7  Consensus size: 3

       3766 CTAGAGAGAT

                    *                                         
       3776 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT

       3814 TGTGAAATGG


Statistics
Matches: 33,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   3   33  1.00

ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34


Consensus pattern (3 bp):   
ATA

Done.