View Bb9205 CLC Assembly
/data/process/Beauveria/Assemblies/Bb9205_Clean_CLC# time clc_novo_assemble -q -p fb ss 100 400 ../Bb9205_Clean_Velvet/Bb9205_1_trim.fasta -o Bb9205_trim.fasta
Progress: 96.6 %
/opt/CLC/clc-assembly-cell-4.0.1beta-linux_64/remove_duplicates -p -r ../Bb9205_Clean_Velvet/Bb9205_1_trim.fasta -o Bb9205_trim_noDuplicates.fasta
time clc_novo_assemble -q -p fb ss 100 400 Bb9205_trim_noDuplicates.fasta -o Bb9205.fasta
Progress: 100.0 %
real 36m21.975s
user 74m58.500s
sys 0m10.300s
sequence_info -n -r Bb9205.fasta
File Bb9205.fasta Number of sequences 8065 Residue counts: Number of A's 8690314 24.87 % Number of C's 8715415 24.95 % Number of G's 8721612 24.96 % Number of T's 8679173 24.84 % Number of N's 130614 0.37 % Total 34937128 Sequence lengths: Minimum 200 Maximum 102644 Average 4331.94 N50 12452
time /opt/CLC/clc-assembly-cell-4.0.1beta-linux_64/clc_ref_assemble_long -o Bb9205.fasta.cas -d Bb9205.fasta -q -p fb ss 100 400 ../Bb9205_Clean_Velvet/Bb9205_1_trim.fasta
Progress: 100.0 %
real 17m1.098s
user 31m35.420s
sys 0m21.980s
assembly_info -p fb ss 100 400 Bb9205.fasta.cas > Bb9205.fasta.cas.txt
General info: Program name clc_ref_assemble_long Program version 4.01beta.59919 Program parameters -o Bb9205.fasta.cas -d Bb9205.fasta -q -p fb ss 100 400 ../Bb9205_Clean_Velvet/Bb9205_1_trim.fasta Contig files: Bb9205.fasta [ 8065 / 34937128 ] Read files: ../Bb9205_Clean_Velvet/Bb9205_1_trim.fasta [ 38441560 / 3409205292 ] <paired> Read info: Contigs 8065 Reads 38441560 Unmapped reads 496388 1.29 % Mapped reads 37945172 98.71 % Multi hit reads 1143365 3.01 % Paired 33978032 88.39 % Unpaired 4463528 11.61 % Paired end info: Paired reads 33978036 88.39 % Average distance 242.21 99.9 % of pairs between 100 - 399 99.0 % of pairs between 104 - 364 95.0 % of pairs between 118 - 332 Unpaired reads 4463524 11.61 % Both seqs not matching 300724 6.74 % One seq not mathing 391328 8.77 % Both seqs matching 3771472 84.50 % Different contigs 2529352 67.07 % Wrong directions 1002858 26.59 % Too close 216510 5.74 % Too far 22752 0.60 % Coverage info: Mapped nucleotides 3316344029 97.28 % Total sites 34937128 Average coverage 94.92