Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01000563.1 Kokia drynarioides strain JFW-HI SEQ_111477, 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, 992

Length: 1654
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33


Found at i:904 original size:23 final size:21

Alignment explanation


    Indices: 862--902  Score: 64
    Period size: 21  Copynumber: 2.0  Consensus size: 21

        852 AATTACTGAT

                    *            
        862 AAAAGTTCTATATATCTATAG
          1 AAAAGTTCGATATATCTATAG

                   *            
        883 AAAAGTTGGATATATCTATA
          1 AAAAGTTCGATATATCTATA

        903 TAATTAATCT


Statistics
Matches: 18,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  21   18  1.00

ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37


Consensus pattern (21 bp):   
AAAAGTTCGATATATCTATAG

Found at i:940 original size:20 final size:22

Alignment explanation


    Indices: 915--956  Score: 61
    Period size: 23  Copynumber: 2.0  Consensus size: 22

        905 ATTAATCTAT

                                  
        915 ATCTATA-TA-ATAATAATAAA
          1 ATCTATACTATATAATAATAAA

                                  
        935 ATCTATATCTATATAATAATAA
          1 ATCTATA-CTATATAATAATAA

        957 TAAAATAGAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 3
        0.86            0.00        0.14

Matches are distributed among these distances:
  20    7  0.37
  22    2  0.11
  23   10  0.53

ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38


Consensus pattern (22 bp):   
ATCTATACTATATAATAATAAA

Found at i:943 original size:26 final size:26

Alignment explanation


    Indices: 908--976  Score: 111
    Period size: 26  Copynumber: 2.6  Consensus size: 26

        898 CTATATAATT

                                      
        908 AATCTATATCTATATAATAATAATAA
          1 AATCTATATCTATATAATAATAATAA

                                      
        934 AATCTATATCTATATAATAATAATAA
          1 AATCTATATCTATATAATAATAATAA

               **            
        960 AATAGATAATCTATATA
          1 AATCTAT-ATCTATATA

        977 TCTATGGATT


Statistics
Matches: 40,  Mismatches: 2, Indels: 1
        0.93            0.05        0.02

Matches are distributed among these distances:
  26   31  0.77
  27    9  0.22

ACGTcount: A:0.54, C:0.07, G:0.01, T:0.38


Consensus pattern (26 bp):   
AATCTATATCTATATAATAATAATAA

Found at i:1030 original size:14 final size:14

Alignment explanation


    Indices: 1011--1039  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       1001 TAGATAAATA

                          
       1011 ATAATCTATATAAC
          1 ATAATCTATATAAC

                          
       1025 ATAATCTATATAAC
          1 ATAATCTATATAAC

             
       1039 A
          1 A

       1040 AAGTAAAAAA


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

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34


Consensus pattern (14 bp):   
ATAATCTATATAAC
Done.