Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014814.1 Kokia drynarioides strain JFW-HI SEQ_129856, 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: 40747
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31

Warning! 200 characters in sequence are not A, C, G, or T


Found at i:19162 original size:21 final size:20

Alignment explanation


    Indices: 19138--19177  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 20

      19128 ACTAACATGA

                 *               
      19138 ATAAATTTTCTAAAAGTTTTT
          1 ATAAACTTTCTAAAA-TTTTT

                               
      19159 ATAAACTTTCTAAAATTTT
          1 ATAAACTTTCTAAAATTTT

      19178 GTTTATTTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  20    4  0.22
  21   14  0.78

ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50


Consensus pattern (20 bp):   
ATAAACTTTCTAAAATTTTT

Found at i:22573 original size:21 final size:21

Alignment explanation


    Indices: 22549--22590  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

      22539 CTCATAATGT

                         *        
      22549 AGGTGTACTTT-GTTATCATTG
          1 AGGTGTA-TTTGGGTATCATTG

                                 
      22570 AGGTGTATTTGGGTATCATTG
          1 AGGTGTATTTGGGTATCATTG

      22591 CACTGGACAT


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  20    3  0.16
  21   16  0.84

ACGTcount: A:0.19, C:0.07, G:0.29, T:0.45


Consensus pattern (21 bp):   
AGGTGTATTTGGGTATCATTG

Found at i:26654 original size:51 final size:49

Alignment explanation


    Indices: 26562--26663  Score: 159
    Period size: 51  Copynumber: 2.0  Consensus size: 49

      26552 CACATTTTTT

                                                             
      26562 GAAGCCCTAGATCTAGTTTTTTTCCCGTCTCATTGTAAACTCCTTGTTA
          1 GAAGCCCTAGATCTAGTTTTTTTCCCGTCTCATTGTAAACTCCTTGTTA

                      *                 * *                    
      26611 GAAGCCCTAGGTCTAGTCTTTTTTCCCCTTTTCATTGTAAACTCCTTGTTA
          1 GAAGCCCTAGATCTAGT-TTTTTT-CCCGTCTCATTGTAAACTCCTTGTTA

              
      26662 GA
          1 GA

      26664 TGTTAAAAAG


Statistics
Matches: 48,  Mismatches: 3, Indels: 2
        0.91            0.06        0.04

Matches are distributed among these distances:
  49   16  0.33
  50    6  0.12
  51   26  0.54

ACGTcount: A:0.20, C:0.25, G:0.15, T:0.41


Consensus pattern (49 bp):   
GAAGCCCTAGATCTAGTTTTTTTCCCGTCTCATTGTAAACTCCTTGTTA

Found at i:38373 original size:18 final size:18

Alignment explanation


    Indices: 38350--38392  Score: 61
    Period size: 18  Copynumber: 2.4  Consensus size: 18

      38340 GTTCAAAGTG

                               
      38350 TAATTAATTTAAAATT-TT
          1 TAATTAA-TTAAAATTATT

                        *     
      38368 TAATTAATTAAATTTATT
          1 TAATTAATTAAAATTATT

                   
      38386 TAATTAA
          1 TAATTAA

      38393 AAATCTATTT


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  17    7  0.30
  18   16  0.70

ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53


Consensus pattern (18 bp):   
TAATTAATTAAAATTATT
Done.