Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004829.1 Kokia drynarioides strain JFW-HI SEQ_118471, 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: 2404
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37


Found at i:1370 original size:23 final size:23

Alignment explanation


    Indices: 1337--1460  Score: 124
    Period size: 23  Copynumber: 5.3  Consensus size: 23

       1327 GCTGGGCAAT

                        * *        
       1337 AGAGAGCACACACACTGCTAAAC
          1 AGAGAGCACACAAAGTGCTAAAC

                  *         *    * 
       1360 AGAGAGTACACAAAGTACTAATC
          1 AGAGAGCACACAAAGTGCTAAAC

                                 * 
       1383 AGAGAGCACACAAAGTGCTAATC
          1 AGAGAGCACACAAAGTGCTAAAC

             *          *            
       1406 AAAGAGCACACACAGTGCTAATAAC
          1 AGAGAGCACACAAAGTGCT-A-AAC

                        * *         
       1431 AGAGAGCACGA-GATGTGCTAAAC
          1 AGAGAGCAC-ACAAAGTGCTAAAC

                   
       1454 AGAGAGC
          1 AGAGAGC

       1461 GCACTAGTGT


Statistics
Matches: 84,  Mismatches: 14, Indels: 6
        0.81            0.13        0.06

Matches are distributed among these distances:
  23   66  0.79
  24    2  0.02
  25   15  0.18
  26    1  0.01

ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12


Consensus pattern (23 bp):   
AGAGAGCACACAAAGTGCTAAAC

Found at i:1412 original size:69 final size:67

Alignment explanation


    Indices: 1287--1436  Score: 178
    Period size: 69  Copynumber: 2.1  Consensus size: 67

       1277 TATACGGAAC

                                               * *             *             
       1287 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACATAGGTGCTGGGCAATAGAGAGCACACACAC
          1 AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AATAAAGAGCACACACAC

                 
       1352 TGCT-
         63 TGCTA

                                                                             
       1356 AAACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAAAGAGCACACACA
          1 AAACAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAAT-AAAGAGCACACACA

            *     
       1420 GTGCTA
         62 CTGCTA

                       
       1426 ATAACAGAGAG
          1 A-AACAGAGAG

       1437 CACGAGATGT


Statistics
Matches: 71,  Mismatches: 4, Indels: 10
        0.84            0.05        0.12

Matches are distributed among these distances:
  68    3  0.04
  69   30  0.42
  70   12  0.17
  71   20  0.28
  72    6  0.08

ACGTcount: A:0.45, C:0.21, G:0.22, T:0.13


Consensus pattern (67 bp):   
AAACAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAATAAAGAGCACACACACTGC
TA
Done.