Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01014125.1 Kokia drynarioides strain JFW-HI SEQ_129158, 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: 8042
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32

Warning! 10 characters in sequence are not A, C, G, or T


Found at i:1364 original size:15 final size:16

Alignment explanation


    Indices: 1338--1368  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

       1328 CTCAAACACA

                            
       1338 CTTTTGTCTTTTTTTT
          1 CTTTTGTCTTTTTTTT

                            
       1354 CTTTT-TCTTTTTTTT
          1 CTTTTGTCTTTTTTTT

       1369 TTCTCAATTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   10  0.67
  16    5  0.33

ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84


Consensus pattern (16 bp):   
CTTTTGTCTTTTTTTT

Found at i:1379 original size:20 final size:20

Alignment explanation


    Indices: 1347--1404  Score: 77
    Period size: 20  Copynumber: 3.0  Consensus size: 20

       1337 ACTTTTGTCT

                     *          
       1347 TTTTTTTC-TTTTTCTTTT-
          1 TTTTTTTCAATTTTCTTTTC

                                 
       1365 TTTTTTCTCAATTTTCTTTTC
          1 TTTTTT-TCAATTTTCTTTTC

                                
       1386 TTTTTTTCAATTTT-TTTTC
          1 TTTTTTTCAATTTTCTTTTC

       1405 GACTTATTTT


Statistics
Matches: 36,  Mismatches: 1, Indels: 5
        0.86            0.02        0.12

Matches are distributed among these distances:
  18    6  0.17
  19    7  0.19
  20   17  0.47
  21    6  0.17

ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79


Consensus pattern (20 bp):   
TTTTTTTCAATTTTCTTTTC

Found at i:2364 original size:7 final size:6

Alignment explanation


    Indices: 2331--2380  Score: 55
    Period size: 6  Copynumber: 8.3  Consensus size: 6

       2321 AAAATATTGC

                 *           *             *        *      *       
       2331 AAAATG AAAATA AAATTA AAAATA AAACTA AAAATG AAAATG AAAATA
          1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA

              
       2379 AA
          1 AA

       2381 TATACTAATT


Statistics
Matches: 37,  Mismatches: 7, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
   6   37  1.00

ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18


Consensus pattern (6 bp):   
AAAATA

Found at i:2370 original size:18 final size:18

Alignment explanation


    Indices: 2331--2380  Score: 66
    Period size: 18  Copynumber: 2.8  Consensus size: 18

       2321 AAAATATTGC

                           *  
       2331 AAAATGAAAATAAAATTA
          1 AAAATGAAAATAAAAATA

                              *
       2349 AAAAT-AAAACTAAAAATG
          1 AAAATGAAAA-TAAAAATA

                          
       2367 AAAATGAAAATAAA
          1 AAAATGAAAATAAA

       2381 TATACTAATT


Statistics
Matches: 28,  Mismatches: 2, Indels: 4
        0.82            0.06        0.12

Matches are distributed among these distances:
  17    4  0.14
  18   20  0.71
  19    4  0.14

ACGTcount: A:0.74, C:0.02, G:0.06, T:0.18


Consensus pattern (18 bp):   
AAAATGAAAATAAAAATA
Done.