Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005049.1 Kokia drynarioides strain JFW-HI SEQ_118833, 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, 757

Length: 1263
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33


Found at i:972 original size:24 final size:26

Alignment explanation


    Indices: 945--992  Score: 66
    Period size: 24  Copynumber: 1.9  Consensus size: 26

        935 AGAGAAATGT

                                       
        945 AAATG-TGATATATGA-A-ATTATGAG
          1 AAATGATGA-ATATGAGAGATTATGAG

                                    
        969 AAATGATGAATATGAGAGATTATG
          1 AAATGATGAATATGAGAGATTATG

        993 CCCATGTAGA


Statistics
Matches: 21,  Mismatches: 0, Indels: 4
        0.84            0.00        0.16

Matches are distributed among these distances:
  24   11  0.52
  25    4  0.19
  26    6  0.29

ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31


Consensus pattern (26 bp):   
AAATGATGAATATGAGAGATTATGAG

Found at i:1079 original size:23 final size:23

Alignment explanation


    Indices: 1053--1129  Score: 127
    Period size: 23  Copynumber: 3.3  Consensus size: 23

       1043 GAACACTAGC

                               *   
       1053 GTGCTCTCTGATTAGCACTGTGT
          1 GTGCTCTCTGATTAGCACTTTGT

                                   
       1076 GTGCTCTCTGATTAGCACTTTGT
          1 GTGCTCTCTGATTAGCACTTTGT

              *       *            
       1099 GTACTCTCTGTTTAGCACTTTGT
          1 GTGCTCTCTGATTAGCACTTTGT

                    
       1122 GTGCTCTC
          1 GTGCTCTC

       1130 AGTTGCCCAG


Statistics
Matches: 50,  Mismatches: 4, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  23   50  1.00

ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43


Consensus pattern (23 bp):   
GTGCTCTCTGATTAGCACTTTGT

Found at i:1157 original size:48 final size:44

Alignment explanation


    Indices: 1053--1166  Score: 122
    Period size: 46  Copynumber: 2.5  Consensus size: 44

       1043 GAACACTAGC

                      *        *           *            
       1053 GTGCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACTTT
          1 GTGCTCTCTGTTTAGCACTTTGTGTGCTCTCAGATTAGCACTTT

                                                               
       1097 GTGTACTCTCTGTTTAGCACTTTGTGTGCTCTCAG-TTGCCCAGCACTTAT
          1 GTG--CTCTCTGTTTAGCACTTTGTGTGCTCTCAGATT----AGCACTT-T

                           *    
       1147 GTGCTCTCTGTTTAGTACTT
          1 GTGCTCTCTGTTTAGCACTT

       1167 CGGTACTCTC


Statistics
Matches: 59,  Mismatches: 4, Indels: 10
        0.81            0.05        0.14

Matches are distributed among these distances:
  44    3  0.05
  45    2  0.03
  46   27  0.46
  48   16  0.27
  49    7  0.12
  50    4  0.07

ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42


Consensus pattern (44 bp):   
GTGCTCTCTGTTTAGCACTTTGTGTGCTCTCAGATTAGCACTTT
Done.