Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007220.1 Kokia drynarioides strain JFW-HI SEQ_121835, 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: 18320
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.30


Found at i:5484 original size:26 final size:25

Alignment explanation


    Indices: 5446--5497  Score: 61
    Period size: 24  Copynumber: 2.0  Consensus size: 25

       5436 GGTCTGCTTG

                    *          *       
       5446 AAAAACGACCTTTGCCTCTTCCTCGAT
          1 AAAAACGAACTTT--CTCTGCCTCGAT

                                     
       5473 AAAAA-GAACTTTCTCTGCCTCGAT
          1 AAAAACGAACTTTCTCTGCCTCGAT

             
       5497 A
          1 A

       5498 TCCACCTGAA


Statistics
Matches: 23,  Mismatches: 2, Indels: 3
        0.82            0.07        0.11

Matches are distributed among these distances:
  24   12  0.52
  26    6  0.26
  27    5  0.22

ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29


Consensus pattern (25 bp):   
AAAAACGAACTTTCTCTGCCTCGAT

Found at i:6989 original size:21 final size:21

Alignment explanation


    Indices: 6965--7028  Score: 94
    Period size: 21  Copynumber: 3.0  Consensus size: 21

       6955 AAAAAAATAA

                                 
       6965 GACTAAGTCCTAGGGAGATTT
          1 GACTAAGTCCTAGGGAGATTT

                   *              
       6986 GACTAAGACCTAAGGG-GATTT
          1 GACTAAGTCCT-AGGGAGATTT

                        *        
       7007 GACTAAGTCCTAAGGAGATTT
          1 GACTAAGTCCTAGGGAGATTT

             
       7028 G
          1 G

       7029 TTAGCTTGTT


Statistics
Matches: 38,  Mismatches: 3, Indels: 4
        0.84            0.07        0.09

Matches are distributed among these distances:
  20    3  0.08
  21   31  0.82
  22    4  0.11

ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27


Consensus pattern (21 bp):   
GACTAAGTCCTAGGGAGATTT

Found at i:16939 original size:21 final size:22

Alignment explanation


    Indices: 16908--16948  Score: 66
    Period size: 21  Copynumber: 1.9  Consensus size: 22

      16898 TTTATATAAT

                         *        
      16908 TTAAAGTTAAAAGTCAAAACCA
          1 TTAAAGTTAAAAGGCAAAACCA

                                
      16930 TTAAA-TTAAAAGGCAAAAC
          1 TTAAAGTTAAAAGGCAAAAC

      16949 TACGTCGTTT


Statistics
Matches: 18,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21   13  0.72
  22    5  0.28

ACGTcount: A:0.56, C:0.12, G:0.10, T:0.22


Consensus pattern (22 bp):   
TTAAAGTTAAAAGGCAAAACCA
Done.