Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01001143.1 Kokia drynarioides strain JFW-HI SEQ_112442, 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: 15661
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36


Found at i:209 original size:30 final size:30

Alignment explanation


    Indices: 164--236  Score: 94
    Period size: 30  Copynumber: 2.4  Consensus size: 30

        154 ATAATTTAGC

                              *            
        164 AATACTTTAAATATTAAATTGAGATAAAAAA
          1 AATACTTTAAATATTAAAGTGAGA-AAAAAA

                      *                   
        195 AATA-TTTAAGTATTAAAGTGAGAAAAAAA
          1 AATACTTTAAATATTAAAGTGAGAAAAAAA

                         
        224 AGTATACTTTAAA
          1 A--ATACTTTAAA

        237 AGTCAAATCA


Statistics
Matches: 36,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  29    7  0.19
  30   17  0.47
  31    7  0.19
  32    5  0.14

ACGTcount: A:0.56, C:0.03, G:0.10, T:0.32


Consensus pattern (30 bp):   
AATACTTTAAATATTAAAGTGAGAAAAAAA

Found at i:11300 original size:33 final size:32

Alignment explanation


    Indices: 11256--11319  Score: 103
    Period size: 33  Copynumber: 2.0  Consensus size: 32

      11246 TTTTTTTAAG

                                             
      11256 TTAAACCCTTTTATTTTTATTT-TTGTTAAAAT
          1 TTAAACCCTTTTATTTTTATTTCTT-TTAAAAT

                                            
      11288 TTAAACCTCTTTTATTTTTATTTCTTTTAAAA
          1 TTAAACC-CTTTTATTTTTATTTCTTTTAAAA

      11320 GTACCCTTTT


Statistics
Matches: 30,  Mismatches: 0, Indels: 3
        0.91            0.00        0.09

Matches are distributed among these distances:
  32    7  0.23
  33   21  0.70
  34    2  0.07

ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59


Consensus pattern (32 bp):   
TTAAACCCTTTTATTTTTATTTCTTTTAAAAT

Found at i:11463 original size:18 final size:17

Alignment explanation


    Indices: 11422--11464  Score: 52
    Period size: 18  Copynumber: 2.4  Consensus size: 17

      11412 TTCGATTTGC

                             
      11422 ATTTATTTATTCATTTT
          1 ATTTATTTATTCATTTT

                                
      11439 ATGTTATTTATATACATTTT
          1 AT-TTATTTAT-T-CATTTT

                   
      11459 -TTTATT
          1 ATTTATT

      11465 GTTTTCATCA


Statistics
Matches: 23,  Mismatches: 0, Indels: 5
        0.82            0.00        0.18

Matches are distributed among these distances:
  17    2  0.09
  18   13  0.57
  19    2  0.09
  20    6  0.26

ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67


Consensus pattern (17 bp):   
ATTTATTTATTCATTTT
Done.