Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01011095.1 Kokia drynarioides strain JFW-HI SEQ_126068, 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: 10936
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36

Warning! 100 characters in sequence are not A, C, G, or T


Found at i:385 original size:17 final size:17

Alignment explanation


    Indices: 363--399  Score: 56
    Period size: 17  Copynumber: 2.2  Consensus size: 17

        353 AATCATATTT

                             
        363 TATTTTATAATAAATAA
          1 TATTTTATAATAAATAA

                  *      *   
        380 TATTTTCTAATAATTAA
          1 TATTTTATAATAAATAA

               
        397 TAT
          1 TAT

        400 CATCTATAAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51


Consensus pattern (17 bp):   
TATTTTATAATAAATAA

Found at i:6087 original size:3 final size:3

Alignment explanation


    Indices: 6079--6103  Score: 50
    Period size: 3  Copynumber: 8.3  Consensus size: 3

       6069 GTTAGTACAC

                                             
       6079 TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA T

       6104 ATGTTATAAT


Statistics
Matches: 22,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   22  1.00

ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68


Consensus pattern (3 bp):   
TTA

Found at i:10198 original size:20 final size:20

Alignment explanation


    Indices: 10155--10205  Score: 61
    Period size: 19  Copynumber: 2.6  Consensus size: 20

      10145 AGAATTACAA

                            **  
      10155 AAAAATTT-AAAATAATTTT
          1 AAAAATTTCAAAATAACATT

            *                   
      10174 CAAAATTTCAAAATAACATT
          1 AAAAATTTCAAAATAACATT

                         
      10194 AAAAA-TTCAAAA
          1 AAAAATTTCAAAA

      10206 CTTATATTTT


Statistics
Matches: 27,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  19   14  0.52
  20   13  0.48

ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31


Consensus pattern (20 bp):   
AAAAATTTCAAAATAACATT

Found at i:10803 original size:19 final size:19

Alignment explanation


    Indices: 10756--10804  Score: 57
    Period size: 20  Copynumber: 2.6  Consensus size: 19

      10746 GAATTACAAA

                          *    
      10756 AAAATT-AAAATAATTTTC
          1 AAAATTCAAAATAAATTTC

                                 
      10774 AAAATTTCAAAATAACATTT-
          1 AAAA-TTCAAAATAA-ATTTC

                       
      10794 AAAATTCAAAA
          1 AAAATTCAAAA

      10805 CTTATATTTT


Statistics
Matches: 27,  Mismatches: 1, Indels: 5
        0.82            0.03        0.15

Matches are distributed among these distances:
  18    4  0.15
  19    9  0.33
  20   11  0.41
  21    3  0.11

ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33


Consensus pattern (19 bp):   
AAAATTCAAAATAAATTTC
Done.