Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009035.1 Kokia drynarioides strain JFW-HI SEQ_123733, 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: 21567
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33


Found at i:11081 original size:153 final size:152

Alignment explanation


    Indices: 10803--11085  Score: 381
    Period size: 153  Copynumber: 1.9  Consensus size: 152

      10793 TCAACACTCT

                      *     *    *    *                                      
      10803 AGTTTCAATTTAGTCATTCAATTTTCGAAAAATAACAAAACAGTCACTAACATTATCGAAAAGTG
          1 AGTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAAACAGTCACTAACATTATCGAAAAGTG

                                         *         *   *                     
      10868 ACAAACCAATCATCCATTAACATTTTCCGTTATAGACCTTACGGGAAAGGTGACGTGGCCAAGTA
         66 ACAAACCAATCATCCATTAACATTTTCCGCTATAGACCTAACGAGAAAGGTGACGTGGCC-AGTA

                                   
      10933 ACTTCCCACGTTGGATGAGATAA
        130 ACTTCCCACGTTGGATGAGATAA

                                                   *           *    *        
      10956 AGTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCACTAACGTTATGGAAAAGTG
          1 AGTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAAACAGTCACTAACATTATCGAAAAGTG

            *    *             * *     *        *                            
      11021 GCAAATCAATCA-CTCATTTATATTTTTCGCTATAGGCCTAACGAGACAA-GTGACGTGGCCAGT
         66 ACAAACCAATCATC-CATTAACATTTTCCGCTATAGACCTAACGAGA-AAGGTGACGTGGCCAGT

              
      11084 AA
        129 AA

      11086 ATTAGTTGAT


Statistics
Matches: 112,  Mismatches: 16, Indels: 5
        0.84            0.12        0.04

Matches are distributed among these distances:
 152    6  0.05
 153  104  0.93
 154    2  0.02

ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28


Consensus pattern (152 bp):   
AGTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAAACAGTCACTAACATTATCGAAAAGTG
ACAAACCAATCATCCATTAACATTTTCCGCTATAGACCTAACGAGAAAGGTGACGTGGCCAGTAA
CTTCCCACGTTGGATGAGATAA

Found at i:15330 original size:14 final size:14

Alignment explanation


    Indices: 15313--15343  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

      15303 ATTCAATCAT

                          
      15313 TAATAACAAAATAG
          1 TAATAACAAAATAG

                    *     
      15327 TAATAACATAATAG
          1 TAATAACAAAATAG

               
      15341 TAA
          1 TAA

      15344 AATGATAGCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  14   16  1.00

ACGTcount: A:0.61, C:0.06, G:0.06, T:0.26


Consensus pattern (14 bp):   
TAATAACAAAATAG

Found at i:16778 original size:21 final size:21

Alignment explanation


    Indices: 16749--16795  Score: 87
    Period size: 21  Copynumber: 2.3  Consensus size: 21

      16739 CTATTTGGTG

                                 
      16749 TTAA-TACAATAAGTGATTTA
          1 TTAATTACAATAAGTGATTTA

                                 
      16769 TTAATTACAATAAGTGATTTA
          1 TTAATTACAATAAGTGATTTA

                  
      16790 TTAATT
          1 TTAATT

      16796 TCAACCTTCA


Statistics
Matches: 26,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  20    4  0.15
  21   22  0.85

ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45


Consensus pattern (21 bp):   
TTAATTACAATAAGTGATTTA
Done.