Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009233.1 Kokia drynarioides strain JFW-HI SEQ_123938, 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: 4901
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36


Found at i:3867 original size:33 final size:33

Alignment explanation


    Indices: 3822--3902  Score: 110
    Period size: 33  Copynumber: 2.5  Consensus size: 33

       3812 AATCCTCAAC

                *                  *         
       3822 ATAAGTGATTGGAACATCTATTATGGAAGTTTT
          1 ATAATTGATTGGAACATCTATTAAGGAAGTTTT

                    *                  *      
       3855 ATCAA-TGGTTGGAACATCTATTAAGGCAGTTTT
          1 AT-AATTGATTGGAACATCTATTAAGGAAGTTTT

                           
       3888 ATAATTGATTGGAAC
          1 ATAATTGATTGGAAC

       3903 GTCTCTCGGG


Statistics
Matches: 42,  Mismatches: 4, Indels: 4
        0.84            0.08        0.08

Matches are distributed among these distances:
  32    2  0.05
  33   38  0.90
  34    2  0.05

ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37


Consensus pattern (33 bp):   
ATAATTGATTGGAACATCTATTAAGGAAGTTTT

Found at i:4689 original size:151 final size:149

Alignment explanation


    Indices: 4457--4756  Score: 564
    Period size: 151  Copynumber: 2.0  Consensus size: 149

       4447 ACATGCATAG

                                                                             
       4457 GAAAAGAATTTAATGTTGTTGATTCTATTTGGAAGTCTTACCCAGATTTTTGCTATTTTTTATTG
          1 GAAAAGAATTTAATGTTGTTGATTCTATTTGGAAGTCTTACCCAGATTTTTGCTATTTTTTATTG

                    *                                                        
       4522 TAATAATTGGATGGTAAATGCAGGTATTTATACTCAAATTTAGGTTATTCCTTGTACATGGTATT
         66 TAATAATTAGATGGTAAATGCAGGTA--TATACTCAAATTTAGGTTATTCCTTGTACATGGTATT

                                 
       4587 TGGGCAAAACTTTGGATTTGT
        129 TGGGCAAAACTTTGGATTTGT

                                                         *                   
       4608 GAAAAGAATTTAATGTTGTTGATTCTATTTGGAAGTCTTACCCAGGTTTTTGCTATTTTTTATTG
          1 GAAAAGAATTTAATGTTGTTGATTCTATTTGGAAGTCTTACCCAGATTTTTGCTATTTTTTATTG

                                                                             
       4673 TAATAATTAGATGGTAAATGCAGGTATATACTCAAATTTAGGTTATTCCTTGTACATGGTATTTG
         66 TAATAATTAGATGGTAAATGCAGGTATATACTCAAATTTAGGTTATTCCTTGTACATGGTATTTG

                               
       4738 GGCAAAACTTTGGATTTGT
        131 GGCAAAACTTTGGATTTGT

       4757 TAAATTTAAA


Statistics
Matches: 147,  Mismatches: 2, Indels: 2
        0.97            0.01        0.01

Matches are distributed among these distances:
 149   58  0.39
 151   89  0.61

ACGTcount: A:0.28, C:0.09, G:0.19, T:0.43


Consensus pattern (149 bp):   
GAAAAGAATTTAATGTTGTTGATTCTATTTGGAAGTCTTACCCAGATTTTTGCTATTTTTTATTG
TAATAATTAGATGGTAAATGCAGGTATATACTCAAATTTAGGTTATTCCTTGTACATGGTATTTG
GGCAAAACTTTGGATTTGT
Done.