Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007393.1 Kokia drynarioides strain JFW-HI SEQ_122011, 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: 1858
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25


Found at i:586 original size:20 final size:20

Alignment explanation


    Indices: 561--600  Score: 80
    Period size: 20  Copynumber: 2.0  Consensus size: 20

        551 CATACATATA

                                
        561 GTTAGGAGCATTTTTTACTC
          1 GTTAGGAGCATTTTTTACTC

                                
        581 GTTAGGAGCATTTTTTACTC
          1 GTTAGGAGCATTTTTTACTC

        601 ATTCTGAGCA


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   20  1.00

ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45


Consensus pattern (20 bp):   
GTTAGGAGCATTTTTTACTC

Found at i:1820 original size:134 final size:134

Alignment explanation


    Indices: 1578--1836  Score: 360
    Period size: 134  Copynumber: 1.9  Consensus size: 134

       1568 TTTGAATCCC

                  *           *        *       *                             
       1578 AGCTTCTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGG
          1 AGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAAACAGAGAAGCGG

              **            **                            *                  
       1643 ATTGAAACAAGCGATGTTGTCATCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG-CAATAAAG
         66 ATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGTC-AAGTCAATAAAG

                 
       1707 TAGTT
        130 TAGTT

                                         *                         *       * 
       1712 AGCTTCCTGATGAGATACGGAGAAGTGAATCAAATCCGTCTTCCTGATGA-AACATAGAGAAGTG
          1 AGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAA-ACAGAGAAGCG

                        *                          *                     
       1776 GATCAAAACAAGTGATGCGGTCATCTTCCTGATGAGATATTGAGAAGAAGGTCAAGTCAAT
         65 GATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGTCAAGTCAAT

       1837 GAAACCAGAC


Statistics
Matches: 109,  Mismatches: 14, Indels: 4
        0.86            0.11        0.03

Matches are distributed among these distances:
 133    5  0.05
 134  104  0.95

ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24


Consensus pattern (134 bp):   
AGCTTCCTGATGAGATACGGAGAAGTGAACCAAATCCGTCTTCCTGATGAGAAACAGAGAAGCGG
ATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGGTCAAGTCAATAAAGT
AGTT
Done.