Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008907.1 Kokia drynarioides strain JFW-HI SEQ_123596, 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: 6880
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35


Found at i:434 original size:26 final size:26

Alignment explanation


    Indices: 405--458  Score: 99
    Period size: 26  Copynumber: 2.1  Consensus size: 26

        395 GCAATGAAGT

                           *          
        405 TTAAGGTTTTGAAGTGTCAGTTTAAC
          1 TTAAGGTTTTGAAGTATCAGTTTAAC

                                      
        431 TTAAGGTTTTGAAGTATCAGTTTAAC
          1 TTAAGGTTTTGAAGTATCAGTTTAAC

              
        457 TT
          1 TT

        459 GAGTGGATCT


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  26   27  1.00

ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44


Consensus pattern (26 bp):   
TTAAGGTTTTGAAGTATCAGTTTAAC

Found at i:1343 original size:21 final size:22

Alignment explanation


    Indices: 1319--1359  Score: 57
    Period size: 22  Copynumber: 1.9  Consensus size: 22

       1309 AAAAAAAAAA

                        *         
       1319 AAAACTAAG-TATCAAATTGGT
          1 AAAACTAAGTTACCAAATTGGT

                  *             
       1340 AAAACTCAGTTACCAAATTG
          1 AAAACTAAGTTACCAAATTG

       1360 AACATTAAAG


Statistics
Matches: 17,  Mismatches: 2, Indels: 1
        0.85            0.10        0.05

Matches are distributed among these distances:
  21    8  0.47
  22    9  0.53

ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27


Consensus pattern (22 bp):   
AAAACTAAGTTACCAAATTGGT

Found at i:3911 original size:3 final size:3

Alignment explanation


    Indices: 3905--3930  Score: 52
    Period size: 3  Copynumber: 8.7  Consensus size: 3

       3895 GTTGTTGTTG

                                              
       3905 TTA TTA TTA TTA TTA TTA TTA TTA TT
          1 TTA TTA TTA TTA TTA TTA TTA TTA TT

       3931 CTTGTTATTG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   23  1.00

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (3 bp):   
TTA

Found at i:5994 original size:43 final size:43

Alignment explanation


    Indices: 5933--6018  Score: 172
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       5923 ACACAATGAG

                                                       
       5933 TAAGTTTAAAATTCGGGAACAATTCTCTCTAGGCCAACCGTGC
          1 TAAGTTTAAAATTCGGGAACAATTCTCTCTAGGCCAACCGTGC

                                                       
       5976 TAAGTTTAAAATTCGGGAACAATTCTCTCTAGGCCAACCGTGC
          1 TAAGTTTAAAATTCGGGAACAATTCTCTCTAGGCCAACCGTGC

       6019 CACCCCTCTA


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  43   43  1.00

ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28


Consensus pattern (43 bp):   
TAAGTTTAAAATTCGGGAACAATTCTCTCTAGGCCAACCGTGC
Done.