Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01007644.1 Kokia drynarioides strain JFW-HI SEQ_122275, 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: 10868
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34


Found at i:1189 original size:125 final size:125

Alignment explanation


    Indices: 966--1196  Score: 356
    Period size: 125  Copynumber: 1.8  Consensus size: 125

        956 TTTTTCATGC

                 *                        *                         *        
        966 AATTTTTTTTCTTGTATGCTTGTTTTGTTTGCATTGTGGAATTAGTGTTCTTAGATTATCACAGA
          1 AATTTATTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGA

            * *                *   *    *                               
       1031 TGTGGCCGAAAGCTAAACCGGTGTGGCAGCTTTTAGATAATGGTTTCTCTATAGATTTTG
         66 CGCGGCCGAAAGCTAAACCAGTGAGGCACCTTTTAGATAATGGTTTCTCTATAGATTTTG

                                                                     *       
       1091 AATTTATTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGGTCACA-A
          1 AATTTATTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGA

                                        *             
       1155 GCGCGGCCGAAAGCTAAACCAGTGAGGCTCCTTTTAGATAAT
         66 -CGCGGCCGAAAGCTAAACCAGTGAGGCACCTTTTAGATAAT

       1197 AGATTTTGAA


Statistics
Matches: 95,  Mismatches: 10, Indels: 2
        0.89            0.09        0.02

Matches are distributed among these distances:
 124    1  0.01
 125   94  0.99

ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42


Consensus pattern (125 bp):   
AATTTATTTTCTTGTATGCTTGTTTTGTTTACATTGTGGAATTAGTGTTCTTAGATGATCACAGA
CGCGGCCGAAAGCTAAACCAGTGAGGCACCTTTTAGATAATGGTTTCTCTATAGATTTTG

Found at i:3164 original size:19 final size:19

Alignment explanation


    Indices: 3140--3177  Score: 76
    Period size: 19  Copynumber: 2.0  Consensus size: 19

       3130 AGTATACAAC

                               
       3140 ATATATCAGATGAAGCAAG
          1 ATATATCAGATGAAGCAAG

                               
       3159 ATATATCAGATGAAGCAAG
          1 ATATATCAGATGAAGCAAG

       3178 TTTTCCATAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21


Consensus pattern (19 bp):   
ATATATCAGATGAAGCAAG

Found at i:6641 original size:13 final size:13

Alignment explanation


    Indices: 6623--6648  Score: 52
    Period size: 13  Copynumber: 2.0  Consensus size: 13

       6613 TAACATTGAA

                         
       6623 TTTTATTTTATTT
          1 TTTTATTTTATTT

                         
       6636 TTTTATTTTATTT
          1 TTTTATTTTATTT

       6649 AAATTTTAAA


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   13  1.00

ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85


Consensus pattern (13 bp):   
TTTTATTTTATTT
Done.