Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003118.1 Kokia drynarioides strain JFW-HI SEQ_115691, 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: 21977
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34


Found at i:3430 original size:16 final size:17

Alignment explanation


    Indices: 3402--3436  Score: 63
    Period size: 16  Copynumber: 2.1  Consensus size: 17

       3392 AGATTTCTAA

                             
       3402 AAAAAATTCTTAAAAAT
          1 AAAAAATTCTTAAAAAT

                             
       3419 AAAAAATT-TTAAAAAT
          1 AAAAAATTCTTAAAAAT

              
       3435 AA
          1 AA

       3437 GTTATGCATA


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  16   10  0.56
  17    8  0.44

ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29


Consensus pattern (17 bp):   
AAAAAATTCTTAAAAAT

Found at i:9614 original size:56 final size:56

Alignment explanation


    Indices: 9504--9619  Score: 137
    Period size: 56  Copynumber: 2.1  Consensus size: 56

       9494 ATATGATAAA

                                    *           *                  *
       9504 CTAAATGCTCCTAATGAACAAAATTAATAAATCTTGTTCCTCAAAAATAAAAAATT
          1 CTAAATGCTCCTAATGAACAAAATCAATAAATCTTGCTCCTCAAAAATAAAAAATC

                               *             *        *        *      
       9560 CTAAATTG-TCCTAATGAATAAAATCAATAAATTTTGCTCCTGAAACAA-ATAAAATC
          1 CTAAA-TGCTCCTAATGAACAAAATCAATAAATCTTGCTCCTCAAA-AATAAAAAATC

                
       9616 CTAA
          1 CTAA

       9620 GAACATGCAA


Statistics
Matches: 51,  Mismatches: 7, Indels: 4
        0.82            0.11        0.06

Matches are distributed among these distances:
  56   47  0.92
  57    4  0.08

ACGTcount: A:0.47, C:0.16, G:0.06, T:0.30


Consensus pattern (56 bp):   
CTAAATGCTCCTAATGAACAAAATCAATAAATCTTGCTCCTCAAAAATAAAAAATC

Found at i:10144 original size:15 final size:16

Alignment explanation


    Indices: 10124--10159  Score: 65
    Period size: 15  Copynumber: 2.3  Consensus size: 16

      10114 AAGCGCACTG

                            
      10124 CAAATGAAATTAA-AA
          1 CAAATGAAATTAACAA

                            
      10139 CAAATGAAATTAACAA
          1 CAAATGAAATTAACAA

                 
      10155 CAAAT
          1 CAAAT

      10160 ACAATGGAAA


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  15   13  0.65
  16    7  0.35

ACGTcount: A:0.64, C:0.11, G:0.06, T:0.19


Consensus pattern (16 bp):   
CAAATGAAATTAACAA

Done.