Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003552.1 Kokia drynarioides strain JFW-HI SEQ_116410, 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: 19040
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31


Found at i:2386 original size:89 final size:89

Alignment explanation


    Indices: 2235--2415  Score: 328
    Period size: 89  Copynumber: 2.0  Consensus size: 89

       2225 GTTGTTCAGT

                                                                             
       2235 ATTGCATCCAAAGATGTCAGTGCAAGAATCTATACTGAAAGATCAACGCATGAAGGTATCCAGGG
          1 ATTGCATCCAAAGATGTCAGTGCAAGAATCTATACTGAAAGATCAACGCATGAAGGTATCCAGGG

                                     
       2300 TTG-TCGCCGCAAAATAGAATCCCA
         66 TTGCT-GCCGCAAAATAGAATCCCA

                    *                                                        
       2324 ATTGCATCTAAAGATGTCAGTGCAAGAATCTATACTGAAAGATCAACGCATGAAGGTATCCAGGG
          1 ATTGCATCCAAAGATGTCAGTGCAAGAATCTATACTGAAAGATCAACGCATGAAGGTATCCAGGG

                                  * 
       2389 TTGCTGCCGCAAAATAGAATCCTA
         66 TTGCTGCCGCAAAATAGAATCCCA

               
       2413 ATT
          1 ATT

       2416 TACGCCCAGA


Statistics
Matches: 89,  Mismatches: 2, Indels: 2
        0.96            0.02        0.02

Matches are distributed among these distances:
  89   88  0.99
  90    1  0.01

ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23


Consensus pattern (89 bp):   
ATTGCATCCAAAGATGTCAGTGCAAGAATCTATACTGAAAGATCAACGCATGAAGGTATCCAGGG
TTGCTGCCGCAAAATAGAATCCCA

Found at i:13537 original size:15 final size:15

Alignment explanation


    Indices: 13517--13546  Score: 60
    Period size: 15  Copynumber: 2.0  Consensus size: 15

      13507 TCATCACAAT

                           
      13517 CTCTTTTGTTTTAAC
          1 CTCTTTTGTTTTAAC

                           
      13532 CTCTTTTGTTTTAAC
          1 CTCTTTTGTTTTAAC

      13547 TTCCTTTGCA


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.13, C:0.20, G:0.07, T:0.60


Consensus pattern (15 bp):   
CTCTTTTGTTTTAAC

Found at i:13554 original size:15 final size:15

Alignment explanation


    Indices: 13521--13554  Score: 50
    Period size: 15  Copynumber: 2.3  Consensus size: 15

      13511 CACAATCTCT

                          *
      13521 TTTGTTTTAACCTCT
          1 TTTGTTTTAACCTCC

                       *   
      13536 TTTGTTTTAACTTCC
          1 TTTGTTTTAACCTCC

                
      13551 TTTG
          1 TTTG

      13555 CATTGAAAAT


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.12, C:0.18, G:0.09, T:0.62


Consensus pattern (15 bp):   
TTTGTTTTAACCTCC
Done.