Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01004680.1 Kokia drynarioides strain JFW-HI SEQ_118231, 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: 1895
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34


Found at i:1307 original size:33 final size:33

Alignment explanation


    Indices: 1270--1353  Score: 111
    Period size: 33  Copynumber: 2.6  Consensus size: 33

       1260 TAAAATGAGA

                    *                         
       1270 TTTTAGGTTCCTTAAAAGTTGG-AGAAAAAATTC
          1 TTTTAGGTCCCTTAAAAGTTGGTA-AAAAAATTC

                                            *
       1303 TTTTAGGTCCCTTAAAAGTTGGTAAAAAAA-TA
          1 TTTTAGGTCCCTTAAAAGTTGGTAAAAAAATTC

                   *            
       1335 TTTT-GGACCCTTAAAAGTT
          1 TTTTAGGTCCCTTAAAAGTT

       1354 AAATTTTTTT


Statistics
Matches: 47,  Mismatches: 3, Indels: 4
        0.87            0.06        0.07

Matches are distributed among these distances:
  31   14  0.30
  32    5  0.11
  33   27  0.57
  34    1  0.02

ACGTcount: A:0.36, C:0.11, G:0.17, T:0.37


Consensus pattern (33 bp):   
TTTTAGGTCCCTTAAAAGTTGGTAAAAAAATTC

Found at i:1515 original size:7 final size:7

Alignment explanation


    Indices: 1505--1530  Score: 52
    Period size: 7  Copynumber: 3.7  Consensus size: 7

       1495 TTTGCACCCT

                   
       1505 TTCCATC
          1 TTCCATC

                   
       1512 TTCCATC
          1 TTCCATC

                   
       1519 TTCCATC
          1 TTCCATC

                 
       1526 TTCCA
          1 TTCCA

       1531 CCCCTAACTA


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

Matches are distributed among these distances:
   7   19  1.00

ACGTcount: A:0.15, C:0.42, G:0.00, T:0.42


Consensus pattern (7 bp):   
TTCCATC
Done.