Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011472.1 Kokia drynarioides strain JFW-HI SEQ_126456, 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: 6292
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33

Warning! 30 characters in sequence are not A, C, G, or T


Found at i:352 original size:12 final size:12

Alignment explanation


    Indices: 335--371  Score: 74
    Period size: 12  Copynumber: 3.1  Consensus size: 12

        325 TTTCATCATC

                        
        335 ACCATTGCCATT
          1 ACCATTGCCATT

                        
        347 ACCATTGCCATT
          1 ACCATTGCCATT

                        
        359 ACCATTGCCATT
          1 ACCATTGCCATT

             
        371 A
          1 A

        372 TCGTATGTTA


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   25  1.00

ACGTcount: A:0.27, C:0.32, G:0.08, T:0.32


Consensus pattern (12 bp):   
ACCATTGCCATT

Found at i:363 original size:18 final size:18

Alignment explanation


    Indices: 336--370  Score: 52
    Period size: 18  Copynumber: 1.9  Consensus size: 18

        326 TTCATCATCA

                 *            
        336 CCATTGCCATTACCATTG
          1 CCATTACCATTACCATTG

                       *     
        354 CCATTACCATTGCCATT
          1 CCATTACCATTACCATT

        371 ATCGTATGTT


Statistics
Matches: 15,  Mismatches: 2, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  18   15  1.00

ACGTcount: A:0.23, C:0.34, G:0.09, T:0.34


Consensus pattern (18 bp):   
CCATTACCATTACCATTG

Found at i:2204 original size:30 final size:31

Alignment explanation


    Indices: 2162--2238  Score: 88
    Period size: 30  Copynumber: 2.5  Consensus size: 31

       2152 CGGTTACATT

                 *                           
       2162 TAACATAACAGTCACTCAAC-TT-T-GAAAATG
          1 TAACAAAACAGTCACT-AACGTTATCGAAAA-G

             *                             
       2192 TGACAAAACAGTCACTAACGTTATCGAAAAG
          1 TAACAAAACAGTCACTAACGTTATCGAAAAG

                      *     
       2223 TAACAAAACAATCACT
          1 TAACAAAACAGTCACT

       2239 GATTAACATT


Statistics
Matches: 40,  Mismatches: 4, Indels: 5
        0.82            0.08        0.10

Matches are distributed among these distances:
  29    3  0.08
  30   16  0.40
  31   16  0.40
  32    5  0.12

ACGTcount: A:0.47, C:0.21, G:0.10, T:0.22


Consensus pattern (31 bp):   
TAACAAAACAGTCACTAACGTTATCGAAAAG

Done.