Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01013486.1 Kokia drynarioides strain JFW-HI SEQ_128512, 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: 8189
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:2382 original size:21 final size:21

Alignment explanation


    Indices: 2357--2417  Score: 72
    Period size: 20  Copynumber: 3.0  Consensus size: 21

       2347 CAAATAAAAG

                                  
       2357 GTATCGATA-TTTTTGACGAAA
          1 GTATCGATACTTTTTGAC-AAA

                 *              *
       2378 GTATCTATACTTTTTGA-AAG
          1 GTATCGATACTTTTTGACAAA

                   *            
       2398 GTATCGAAACTTTTTGACAA
          1 GTATCGATACTTTTTGACAA

       2418 TGTTTGAGAC


Statistics
Matches: 34,  Mismatches: 4, Indels: 4
        0.81            0.10        0.10

Matches are distributed among these distances:
  20   17  0.50
  21   10  0.29
  22    7  0.21

ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39


Consensus pattern (21 bp):   
GTATCGATACTTTTTGACAAA

Found at i:5410 original size:20 final size:20

Alignment explanation


    Indices: 5350--5409  Score: 86
    Period size: 20  Copynumber: 3.0  Consensus size: 20

       5340 GATACCAGAT

                                
       5350 AAAAGGTATCGATATTTTTG
          1 AAAAGGTATCGATATTTTTG

                 *                
       5370 ACAAAAGTATCGATACTTTTTG
          1 A-AAAGGTATCGATA-TTTTTG

                               
       5392 -AAAGGTATCGATATTTTT
          1 AAAAGGTATCGATATTTTT

       5410 TACAGTGTTT


Statistics
Matches: 36,  Mismatches: 2, Indels: 5
        0.84            0.05        0.12

Matches are distributed among these distances:
  19    5  0.14
  20   13  0.36
  21   12  0.33
  22    6  0.17

ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40


Consensus pattern (20 bp):   
AAAAGGTATCGATATTTTTG

Found at i:5835 original size:29 final size:26

Alignment explanation


    Indices: 5787--5849  Score: 72
    Period size: 29  Copynumber: 2.3  Consensus size: 26

       5777 GATGCACAAT

                                      
       5787 TAAAATATTAATTAAATTAATTAACC
          1 TAAAATATTAATTAAATTAATTAACC

                              *         *
       5813 TAAAATAATATAATTGAATTTAATTAACT
          1 TAAAAT-AT-TAATT-AAATTAATTAACC

               *    
       5842 TAAGATAT
          1 TAAAATAT

       5850 CCTAAAGGAT


Statistics
Matches: 31,  Mismatches: 3, Indels: 4
        0.82            0.08        0.11

Matches are distributed among these distances:
  26    6  0.19
  27    2  0.06
  28    7  0.23
  29   16  0.52

ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40


Consensus pattern (26 bp):   
TAAAATATTAATTAAATTAATTAACC
Done.