Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003352.1 Kokia drynarioides strain JFW-HI SEQ_116070, 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: 14875
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34


Found at i:4640 original size:18 final size:19

Alignment explanation


    Indices: 4617--4659  Score: 52
    Period size: 18  Copynumber: 2.3  Consensus size: 19

       4607 ACATTATTTG

                  *            
       4617 AAAAATTAAATCAAA-CAA
          1 AAAAATCAAATCAAATCAA

                       *    *  
       4635 AAAAATCAAATTAAATTAA
          1 AAAAATCAAATCAAATCAA

                  
       4654 AAAAAT
          1 AAAAAT

       4660 GAATAACTAA


Statistics
Matches: 21,  Mismatches: 3, Indels: 1
        0.84            0.12        0.04

Matches are distributed among these distances:
  18   13  0.62
  19    8  0.38

ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21


Consensus pattern (19 bp):   
AAAAATCAAATCAAATCAA

Found at i:8404 original size:19 final size:17

Alignment explanation


    Indices: 8363--8407  Score: 54
    Period size: 17  Copynumber: 2.5  Consensus size: 17

       8353 CAAACTAATT

                        *    
       8363 AACATTAATAAATGTCA
          1 AACATTAATAAACGTCA

                            * 
       8380 AACATTAATATAACGTTA
          1 AACATTAATA-AACGTCA

                      
       8398 AATCATTAAT
          1 AA-CATTAAT

       8408 GATGGTAAAT


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  17   10  0.42
  18    7  0.29
  19    7  0.29

ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33


Consensus pattern (17 bp):   
AACATTAATAAACGTCA

Found at i:8501 original size:3 final size:3

Alignment explanation


    Indices: 8493--8526  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

       8483 TTAGTAAAAT

                                                         
       8493 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A

       8527 ATCGTTGGCA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
ATA

Done.