Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005712.1 Kokia drynarioides strain JFW-HI SEQ_119940, 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: 4380
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.35

Warning! 68 characters in sequence are not A, C, G, or T


Found at i:1124 original size:14 final size:17

Alignment explanation


    Indices: 1085--1128  Score: 51
    Period size: 14  Copynumber: 2.8  Consensus size: 17

       1075 AATTTTTTGT

                             
       1085 ATTATTTTTATATAATA
          1 ATTATTTTTATATAATA

                              
       1102 ATT-TGTTTT-TA-AA-A
          1 ATTAT-TTTTATATAATA

                         
       1116 ATTATTTTTATAT
          1 ATTATTTTTATAT

       1129 TCATATTAAA


Statistics
Matches: 23,  Mismatches: 0, Indels: 9
        0.72            0.00        0.28

Matches are distributed among these distances:
  14    8  0.35
  15    5  0.22
  16    3  0.13
  17    7  0.30

ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61


Consensus pattern (17 bp):   
ATTATTTTTATATAATA

Found at i:1785 original size:18 final size:17

Alignment explanation


    Indices: 1743--1785  Score: 52
    Period size: 18  Copynumber: 2.5  Consensus size: 17

       1733 CTGAAAATAT

                             
       1743 TAAAAAATAGAATTTAG
          1 TAAAAAATAGAATTTAG

                *              
       1760 -ATAGAAATAGAATTTTAG
          1 TA-AAAAATAGAA-TTTAG

                    
       1778 TAAAAAAT
          1 TAAAAAAT

       1786 TTAAAAGAGA


Statistics
Matches: 21,  Mismatches: 2, Indels: 5
        0.75            0.07        0.18

Matches are distributed among these distances:
  16    1  0.05
  17    9  0.43
  18   10  0.48
  19    1  0.05

ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30


Consensus pattern (17 bp):   
TAAAAAATAGAATTTAG

Found at i:4358 original size:21 final size:22

Alignment explanation


    Indices: 4332--4380  Score: 66
    Period size: 21  Copynumber: 2.3  Consensus size: 22

       4322 TCCACCATAC

                      *          *
       4332 CCACCACT-TTCGCCATGTCCT
          1 CCACCACTGTCCGCCATGTCCA

                                  
       4353 CCACCA-TGTCCGCCATGTCCA
          1 CCACCACTGTCCGCCATGTCCA

                   
       4374 CCACCAC
          1 CCACCAC


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  20    1  0.04
  21   23  0.96

ACGTcount: A:0.18, C:0.51, G:0.10, T:0.20


Consensus pattern (22 bp):   
CCACCACTGTCCGCCATGTCCA
Done.