Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01009545.1 Kokia drynarioides strain JFW-HI SEQ_124257, 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: 8829
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35


Found at i:1429 original size:23 final size:23

Alignment explanation


    Indices: 1403--1450  Score: 96
    Period size: 23  Copynumber: 2.1  Consensus size: 23

       1393 TTTACGTCCA

                                   
       1403 CTAGTTGACTACCCTTATACATT
          1 CTAGTTGACTACCCTTATACATT

                                   
       1426 CTAGTTGACTACCCTTATACATT
          1 CTAGTTGACTACCCTTATACATT

              
       1449 CT
          1 CT

       1451 TACTCATAAC


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   25  1.00

ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40


Consensus pattern (23 bp):   
CTAGTTGACTACCCTTATACATT

Found at i:6458 original size:23 final size:23

Alignment explanation


    Indices: 6428--6531  Score: 108
    Period size: 23  Copynumber: 4.5  Consensus size: 23

       6418 ATGCTAGCTC

                                    
       6428 GCTTACTGTTTCGCACT-TCGTGT
          1 GCTTACTGTTTCGCACTGT-GTGT

                                    
       6451 GCTTACTGTTTCGCACCT-TGTGT
          1 GCTTACTGTTTCGCA-CTGTGTGT

            * *            *        
       6474 TCCTACTGATTT-GCGCTGTGTGT
          1 GCTTACTG-TTTCGCACTGTGTGT

                     *              
       6497 GCTTACTGGATT-GCACTGTGTGT
          1 GCTTACT-GTTTCGCACTGTGTGT

                        
       6520 GCTTACTGTTTC
          1 GCTTACTGTTTC

       6532 CCTAACACTT


Statistics
Matches: 68,  Mismatches: 8, Indels: 10
        0.79            0.09        0.12

Matches are distributed among these distances:
  22    5  0.07
  23   56  0.82
  24    7  0.10

ACGTcount: A:0.10, C:0.23, G:0.24, T:0.43


Consensus pattern (23 bp):   
GCTTACTGTTTCGCACTGTGTGT

Found at i:8727 original size:23 final size:24

Alignment explanation


    Indices: 8696--8742  Score: 60
    Period size: 23  Copynumber: 2.0  Consensus size: 24

       8686 CAAATGTATT

                                    
       8696 AAAATCATTAATTTCAAATAATAC
          1 AAAATCATTAATTTCAAATAATAC

                     **   *         
       8720 AAAA-CATTTTTTTTAAATAATAC
          1 AAAATCATTAATTTCAAATAATAC

       8743 GATTGTGTTA


Statistics
Matches: 20,  Mismatches: 3, Indels: 1
        0.83            0.12        0.04

Matches are distributed among these distances:
  23   16  0.80
  24    4  0.20

ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38


Consensus pattern (24 bp):   
AAAATCATTAATTTCAAATAATAC
Done.