Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001055.1 Kokia drynarioides strain JFW-HI SEQ_112300, 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: 10451
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36


Found at i:32 original size:7 final size:7

Alignment explanation


    Indices: 22--47  Score: 52
    Period size: 7  Copynumber: 3.7  Consensus size: 7

         12 TTTGCACCCT

                   
         22 TTCCATC
          1 TTCCATC

                   
         29 TTCCATC
          1 TTCCATC

                   
         36 TTCCATC
          1 TTCCATC

                 
         43 TTCCA
          1 TTCCA

         48 CCCCTAACTA


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   19  1.00

ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42


Consensus pattern (7 bp):   
TTCCATC

Found at i:5208 original size:16 final size:16

Alignment explanation


    Indices: 5167--5209  Score: 52
    Period size: 16  Copynumber: 2.6  Consensus size: 16

       5157 TTTGTAACAT

                            
       5167 TAAATAATT-TATTAA
          1 TAAATAATTATATTAA

            *                 
       5182 AATAATAAATTATATTAA
          1 TA-AAT-AATTATATTAA

                      
       5200 TAAATAATTA
          1 TAAATAATTA

       5210 AATATTTATG


Statistics
Matches: 23,  Mismatches: 2, Indels: 5
        0.77            0.07        0.17

Matches are distributed among these distances:
  15    1  0.04
  16    8  0.35
  17    7  0.30
  18    7  0.30

ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42


Consensus pattern (16 bp):   
TAAATAATTATATTAA

Found at i:5713 original size:30 final size:29

Alignment explanation


    Indices: 5679--5748  Score: 72
    Period size: 30  Copynumber: 2.3  Consensus size: 29

       5669 ATATAATAAA

                                            
       5679 TTAATCAATATATTAATA-TA-ATTTATTATT
          1 TTAAT-AATATA-TAATATTACATTT-TTATT

                           *               
       5709 TTAATAAATCATATAGTATTACATTTTTATT
          1 TTAAT-AAT-ATATAATATTACATTTTTATT

                     
       5740 TTAATAATA
          1 TTAATAATA

       5749 AATTTTAACA


Statistics
Matches: 35,  Mismatches: 2, Indels: 7
        0.80            0.05        0.16

Matches are distributed among these distances:
  29    1  0.03
  30   15  0.43
  31   15  0.43
  32    4  0.11

ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51


Consensus pattern (29 bp):   
TTAATAATATATAATATTACATTTTTATT
Done.