Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009185.1 Kokia drynarioides strain JFW-HI SEQ_123890, 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: 3071
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30


Found at i:2410 original size:17 final size:18

Alignment explanation


    Indices: 2367--2420  Score: 62
    Period size: 17  Copynumber: 3.2  Consensus size: 18

       2357 ATAATAGCAT

                              
       2367 AAAAATA-TAACAT-ATA
          1 AAAAATAGTAACATAATA

                *              
       2383 GAAATATAGTAA-ATAATA
          1 -AAAAATAGTAACATAATA

                              
       2401 AAAAATAGTAACA-AATA
          1 AAAAATAGTAACATAATA

               
       2418 AAA
          1 AAA

       2421 TAAAAAATAA


Statistics
Matches: 32,  Mismatches: 2, Indels: 6
        0.80            0.05        0.15

Matches are distributed among these distances:
  17   25  0.78
  18    7  0.22

ACGTcount: A:0.69, C:0.04, G:0.06, T:0.22


Consensus pattern (18 bp):   
AAAAATAGTAACATAATA

Found at i:2437 original size:21 final size:22

Alignment explanation


    Indices: 2397--2439  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       2387 TATAGTAAAT

                       *          
       2397 AATAAAAAATAGTAACAAATAA
          1 AATAAAAAATAATAACAAATAA

                         *        
       2419 AATAAAAAATAATTA-AAATAA
          1 AATAAAAAATAATAACAAATAA

       2440 TGCCAATTAT


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  21    6  0.32
  22   13  0.68

ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21


Consensus pattern (22 bp):   
AATAAAAAATAATAACAAATAA

Found at i:3005 original size:14 final size:15

Alignment explanation


    Indices: 2979--3007  Score: 51
    Period size: 15  Copynumber: 2.0  Consensus size: 15

       2969 ATTTGTGTCC

                           
       2979 TTTTTCTCTTCAAAA
          1 TTTTTCTCTTCAAAA

                           
       2994 TTTTTCTC-TCAAAA
          1 TTTTTCTCTTCAAAA

       3008 GACCCCATGA


Statistics
Matches: 14,  Mismatches: 0, Indels: 1
        0.93            0.00        0.07

Matches are distributed among these distances:
  14    6  0.43
  15    8  0.57

ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52


Consensus pattern (15 bp):   
TTTTTCTCTTCAAAA
Done.