Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01005146.1 Kokia drynarioides strain JFW-HI SEQ_118985, 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: 7001
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31


Found at i:1266 original size:12 final size:12

Alignment explanation


    Indices: 1249--1281  Score: 57
    Period size: 12  Copynumber: 2.8  Consensus size: 12

       1239 AGAGCCAGAT

                        
       1249 TCATCTTCATCC
          1 TCATCTTCATCC

                    *   
       1261 TCATCTTCGTCC
          1 TCATCTTCATCC

                     
       1273 TCATCTTCA
          1 TCATCTTCA

       1282 AACTTCTCCT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  12   19  1.00

ACGTcount: A:0.15, C:0.39, G:0.03, T:0.42


Consensus pattern (12 bp):   
TCATCTTCATCC

Found at i:3157 original size:30 final size:29

Alignment explanation


    Indices: 3098--3159  Score: 81
    Period size: 30  Copynumber: 2.1  Consensus size: 29

       3088 TTAAAAAATT

                             *      *    
       3098 ATTAACCAATCTCTAATTGAATTAGATCA
          1 ATTAACCAATCTCTAATCGAATTAAATCA

                                           
       3127 ATTAACCAATCGAT-TAATCGAATTAAATCA
          1 ATTAACCAATC--TCTAATCGAATTAAATCA

               
       3157 ATT
          1 ATT

       3160 CGGTTGATTA


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  29   11  0.38
  30   17  0.59
  31    1  0.03

ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34


Consensus pattern (29 bp):   
ATTAACCAATCTCTAATCGAATTAAATCA

Found at i:3277 original size:6 final size:6

Alignment explanation


    Indices: 3266--3290  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

       3256 ACATCAATAT

                                         
       3266 TCTATA TCTATA TCTATA TCTATA T
          1 TCTATA TCTATA TCTATA TCTATA T

       3291 ATACATAAAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52


Consensus pattern (6 bp):   
TCTATA

Found at i:3549 original size:2 final size:2

Alignment explanation


    Indices: 3542--3568  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       3532 AGGCATGCTT

                                                    
       3542 TA TA TA TA TA TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA T

       3569 GATACAACTC


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

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
TA

Done.