Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009146.1 Kokia drynarioides strain JFW-HI SEQ_123850, 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: 9946
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37


Found at i:3097 original size:27 final size:26

Alignment explanation


    Indices: 3049--3101  Score: 63
    Period size: 27  Copynumber: 2.0  Consensus size: 26

       3039 AATCAAAATC

                       *               
       3049 AATTATGAATTTAATAACTTAAATTAA
          1 AATTATGAATTCAATAACTT-AATTAA

                  *                    
       3076 AATTATTAATTCAACTAA-TTAATTAA
          1 AATTATGAATTCAA-TAACTTAATTAA

       3102 CTCACAAATA


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

Matches are distributed among these distances:
  26    6  0.26
  27   14  0.61
  28    3  0.13

ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42


Consensus pattern (26 bp):   
AATTATGAATTCAATAACTTAATTAA

Found at i:7059 original size:2 final size:2

Alignment explanation


    Indices: 7052--7078  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       7042 TCATATGGAG

                                                    
       7052 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       7079 TTTTTTTTTT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:7088 original size:5 final size:5

Alignment explanation


    Indices: 7078--7110  Score: 50
    Period size: 5  Copynumber: 6.8  Consensus size: 5

       7068 TATATATATA

                      *                             
       7078 TTTT- TTTTT TTTTC TTTTC TTTTC TTTTC TTTT
          1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT

       7111 GTCAGCAGAT


Statistics
Matches: 27,  Mismatches: 1, Indels: 1
        0.93            0.03        0.03

Matches are distributed among these distances:
   4    4  0.15
   5   23  0.85

ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88


Consensus pattern (5 bp):   
TTTTC
Done.