Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003922.1 Kokia drynarioides strain JFW-HI SEQ_116997, 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: 4235
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30


Found at i:1415 original size:15 final size:16

Alignment explanation


    Indices: 1394--1440  Score: 51
    Period size: 15  Copynumber: 2.8  Consensus size: 16

       1384 TATATTACAA

                            
       1394 AATATTTATTATTAAT
          1 AATATTTATTATTAAT

                     *        
       1410 -ATATTTATAATTGTAAT
          1 AATATTTATTA-T-TAAT

                          
       1427 ACATATTTATTATT
          1 A-ATATTTATTATT

       1441 GAAATATTAA


Statistics
Matches: 25,  Mismatches: 2, Indels: 7
        0.74            0.06        0.21

Matches are distributed among these distances:
  15    9  0.36
  16    1  0.04
  17    5  0.20
  18    1  0.04
  19    9  0.36

ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55


Consensus pattern (16 bp):   
AATATTTATTATTAAT

Found at i:1434 original size:19 final size:19

Alignment explanation


    Indices: 1410--1446  Score: 56
    Period size: 19  Copynumber: 1.9  Consensus size: 19

       1400 TATTATTAAT

                         *     
       1410 ATATTTATAATTGTAATAC
          1 ATATTTATAATTGAAATAC

                    *         
       1429 ATATTTATTATTGAAATA
          1 ATATTTATAATTGAAATA

       1447 TTAATAGTGA


Statistics
Matches: 16,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  19   16  1.00

ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49


Consensus pattern (19 bp):   
ATATTTATAATTGAAATAC

Found at i:1501 original size:16 final size:16

Alignment explanation


    Indices: 1470--1503  Score: 52
    Period size: 16  Copynumber: 2.1  Consensus size: 16

       1460 TTTTCAATAA

                            
       1470 TATTATTTAAAATTAT
          1 TATTATTTAAAATTAT

                             
       1486 TATT-TTTAAAATTTAT
          1 TATTATTTAAAA-TTAT

              
       1502 TA
          1 TA

       1504 AAATAATCAA


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

Matches are distributed among these distances:
  15    7  0.41
  16   10  0.59

ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59


Consensus pattern (16 bp):   
TATTATTTAAAATTAT
Done.