Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012277.1 Kokia drynarioides strain JFW-HI SEQ_127278, 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: 2710
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37


Found at i:781 original size:16 final size:16

Alignment explanation


    Indices: 748--780  Score: 52
    Period size: 15  Copynumber: 2.2  Consensus size: 16

        738 AACTGTTAGA

                            
        748 TTTCGTTTTTTTCTTT
          1 TTTCGTTTTTTTCTTT

                            
        764 TTTC-TTTTTTT-TTT
          1 TTTCGTTTTTTTCTTT

               
        778 TTT
          1 TTT

        781 TAAAAAAGAC


Statistics
Matches: 17,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  14    6  0.35
  15    7  0.41
  16    4  0.24

ACGTcount: A:0.00, C:0.09, G:0.03, T:0.88


Consensus pattern (16 bp):   
TTTCGTTTTTTTCTTT

Found at i:1538 original size:25 final size:25

Alignment explanation


    Indices: 1458--1538  Score: 67
    Period size: 25  Copynumber: 3.1  Consensus size: 25

       1448 ATTAAATTAT

                   *         *         
       1458 TTTTTATCTATTAAATTTTATTACCTA
          1 TTTTTATTTATTAAATTATA-TA-CTA

                  *              *      
       1485 TTTTTTGTTTAATTTAAATTAAATA--A
          1 -TTTTTATTT-A-TTAAATTATATACTA

                                     
       1511 TTTTTATTTATTAAATTATATACTA
          1 TTTTTATTTATTAAATTATATACTA

               
       1536 TTT
          1 TTT

       1539 ATACTATATA


Statistics
Matches: 43,  Mismatches: 6, Indels: 11
        0.72            0.10        0.18

Matches are distributed among these distances:
  23   11  0.26
  24    1  0.02
  25   12  0.28
  26    1  0.02
  28    7  0.16
  29    3  0.07
  30    8  0.19

ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60


Consensus pattern (25 bp):   
TTTTTATTTATTAAATTATATACTA

Found at i:2351 original size:16 final size:16

Alignment explanation


    Indices: 2330--2362  Score: 66
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       2320 TCCTAAATCA

                            
       2330 AGTAGAGGAGAAGATG
          1 AGTAGAGGAGAAGATG

                            
       2346 AGTAGAGGAGAAGATG
          1 AGTAGAGGAGAAGATG

             
       2362 A
          1 A

       2363 ATAAGAACTG


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.45, C:0.00, G:0.42, T:0.12


Consensus pattern (16 bp):   
AGTAGAGGAGAAGATG
Done.