Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01002764.1 Kokia drynarioides strain JFW-HI SEQ_115086, 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: 12682
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32


Found at i:1386 original size:40 final size:40

Alignment explanation


    Indices: 1331--1410  Score: 160
    Period size: 40  Copynumber: 2.0  Consensus size: 40

       1321 TGTTGGAAAA

                                                    
       1331 AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT
          1 AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT

                                                    
       1371 AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT
          1 AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT

       1411 TTTTTGTCGA


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  40   40  1.00

ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25


Consensus pattern (40 bp):   
AAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT

Found at i:4400 original size:40 final size:41

Alignment explanation


    Indices: 4344--4424  Score: 146
    Period size: 40  Copynumber: 2.0  Consensus size: 41

       4334 TTGTTGGAAA

                                 *                   
       4344 AAAAGGCATGTTAAATGAAAATTGCATCACTAGGAAGAATT
          1 AAAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAATT

                                                     
       4385 AAAA-GCATGTTAAATGAAAACTGCATCACTAGGAAGAATT
          1 AAAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAATT

       4425 TTTTTGTTGA


Statistics
Matches: 39,  Mismatches: 1, Indels: 1
        0.95            0.02        0.02

Matches are distributed among these distances:
  40   35  0.90
  41    4  0.10

ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23


Consensus pattern (41 bp):   
AAAAGGCATGTTAAATGAAAACTGCATCACTAGGAAGAATT

Found at i:8140 original size:30 final size:27

Alignment explanation


    Indices: 8101--8157  Score: 114
    Period size: 27  Copynumber: 2.1  Consensus size: 27

       8091 CTTGTTTTTA

                                       
       8101 TGTAAGAAGAAGAATTTGATGATGGAG
          1 TGTAAGAAGAAGAATTTGATGATGGAG

                                       
       8128 TGTAAGAAGAAGAATTTGATGATGGAG
          1 TGTAAGAAGAAGAATTTGATGATGGAG

               
       8155 TGT
          1 TGT

       8158 TTGTGAACGG


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  27   30  1.00

ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28


Consensus pattern (27 bp):   
TGTAAGAAGAAGAATTTGATGATGGAG
Done.