Bins that were identified in single profile 'Tardigrade 11 libraries MERGED' and stored in the database as "Final selection" collection, describe 4 bins accountig for 195,175,203 nucleotides, which represent 77.29% of all nucleotides stored in the contigs database, and 77.29% of nucleotides stored in the profile database.
The single profile database that was generated with the minimum contig length of 1,000 contained 22,496 contigs, which correspond to 100% of all contigs, and 100% of all nucleotides found in the contigs database.
Profile DB for Tardigrade 11 libraries MERGED w/ 11 samples.
Key Value
Created on 2015-12-11 22:57:33
Version 6
Minimum conting length 1,000
Number of contigs 22,496
Number of splits 24,115
Total nucleotides 252.54 Mb
Contigs DB
Key Value
Created on 2015-12-11 22:57:33
Version 3
Split length 20,000
Number of contigs 22,496
Number of splits 24,115
Total nucleotides 252.54 Mb
K-mer size 4

Summary of general characteristics of each bin (download as TAB-delimited file).

Bin Taxonomy Total Size Num Contigs N50 GC Content Compl. Red.
 
Bacterial_draft_genome_02 4 1,255,804 42.73% 5.46%
 
Bacterial_draft_genome_03 29 431,226 42.62% 1.44%
 
Bacterial_draft_genome_01 5 1,189,196 49.75% 3.57%
 
Tardigrade_draft_genome_01 14,961 17,214 45.93% 121.90%

TAB-delimited matrix file for abundance: bins_across_samples/abundance.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.00 0.00 0.03 0.01 0.00 0.00 0.51 0.50 0.49 0.50 ...
 
Bacterial_draft_genome_03 0.00 0.00 0.18 0.18 0.03 0.03 0.41 0.41 0.44 0.42 ...
 
Bacterial_draft_genome_01 0.02 0.03 0.00 0.01 0.00 0.00 0.73 0.76 0.76 0.75 ...
 
Tardigrade_draft_genome_01 1.41 1.43 1.07 1.33 1.33 1.31 0.91 0.91 0.91 0.90 ...

TAB-delimited matrix file for variability: bins_across_samples/variability.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.01 0.00 0.00 0.04 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
Bacterial_draft_genome_03 0.01 0.00 0.01 0.06 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
Bacterial_draft_genome_01 0.00 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
Tardigrade_draft_genome_01 8.17 10.48 0.06 4.15 5.07 2.90 0.36 0.35 0.36 0.36 ...

TAB-delimited matrix file for relative_abundance: bins_across_samples/relative_abundance.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.00 0.00 0.00 0.00 0.00 0.00 0.20 0.20 0.20 0.19 ...
 
Bacterial_draft_genome_03 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.19 0.21 0.20 ...
 
Bacterial_draft_genome_01 0.00 0.00 0.00 0.00 0.00 0.00 0.19 0.21 0.21 0.20 ...
 
Tardigrade_draft_genome_01 0.01 0.01 0.04 0.01 0.01 0.01 0.18 0.18 0.18 0.17 ...

TAB-delimited matrix file for normalized_coverage: bins_across_samples/normalized_coverage.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.00 0.00 0.00 0.00 0.00 0.00 2.14 2.13 2.11 2.11 ...
 
Bacterial_draft_genome_03 0.00 0.00 0.03 0.01 0.00 0.00 1.67 1.70 1.82 1.74 ...
 
Bacterial_draft_genome_01 0.00 0.00 0.00 0.00 0.00 0.00 3.20 3.37 3.41 3.26 ...
 
Tardigrade_draft_genome_01 0.14 0.09 0.77 0.13 0.13 0.12 3.87 3.87 3.91 3.80 ...

TAB-delimited matrix file for portion_covered: bins_across_samples/portion_covered.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.00 0.00 0.02 0.02 0.01 0.01 0.89 0.90 0.89 0.89 ...
 
Bacterial_draft_genome_03 0.00 0.00 0.06 0.78 0.32 0.18 0.84 0.85 0.87 0.86 ...
 
Bacterial_draft_genome_01 0.52 0.02 0.00 0.11 0.03 0.01 0.96 0.96 0.97 0.96 ...
 
Tardigrade_draft_genome_01 1.00 0.63 0.33 0.99 0.99 0.98 0.81 0.81 0.81 0.81 ...

TAB-delimited matrix file for mean_coverage: bins_across_samples/mean_coverage.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.01 0.00 0.04 0.06 0.01 0.01 2.28 2.29 2.29 2.35 ...
 
Bacterial_draft_genome_03 0.01 0.00 0.28 1.56 0.40 0.21 1.85 1.88 2.03 1.99 ...
 
Bacterial_draft_genome_01 0.78 0.11 0.01 0.12 0.03 0.01 3.29 3.46 3.55 3.52 ...
 
Tardigrade_draft_genome_01 45.82 5.91 1.67 11.79 19.54 8.96 4.11 4.12 4.22 4.24 ...

TAB-delimited matrix file for max_normalized_ratio: bins_across_samples/max_normalized_ratio.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.00 0.00 0.00 0.00 0.00 0.00 0.64 0.64 0.64 0.63 ...
 
Bacterial_draft_genome_03 0.00 0.00 0.01 0.01 0.00 0.00 0.59 0.61 0.64 0.61 ...
 
Bacterial_draft_genome_01 0.00 0.00 0.00 0.00 0.00 0.00 0.69 0.73 0.75 0.72 ...
 
Tardigrade_draft_genome_01 0.04 0.03 0.15 0.04 0.04 0.04 0.62 0.62 0.63 0.61 ...

TAB-delimited matrix file for std_coverage: bins_across_samples/std_coverage.txt

Bin LIB_1 ... LIB_1 ... PACBI ... TG_30 ... TG_50 ... TG_80 ... s01_L ... s02_L ... s03_L ... s04_L ... ...
 
Bacterial_draft_genome_02 0.04 0.01 0.13 0.20 0.04 0.03 1.09 1.10 1.11 1.09 ...
 
Bacterial_draft_genome_03 0.07 0.01 0.93 1.29 0.64 0.47 0.98 0.94 1.03 1.02 ...
 
Bacterial_draft_genome_01 0.92 0.89 0.02 0.34 0.16 0.11 1.34 1.35 1.42 1.46 ...
 
Tardigrade_draft_genome_01 30.25 8.34 2.49 6.84 10.19 5.77 2.07 2.06 2.11 2.13 ...

This panel shows how much of the mapped data is recruited by each bin (and how much of the mapped data was not binned under 'splits_not_binned' column). The way these percents calculated is quite simple: summarize the mean coverage of each split in each bin, and normalize every bin with respect to each other. It is critical to remember that these values do not take the unasssambled data into account. This is how you should read this table: "X percent of all mapped reads in Sample Y mapped to splits that were binned into bin Z".

TAB-delimited matrix file for percent recruitment: bins_across_samples/bins_percent_recruitment.txt

Sample Bacterial_draft_genome_01 Bacterial_draft_genome_02 Bacterial_draft_genome_03 Tardigrade_draft_genome_01 __splits_not_binned__
LIB_177_ED 0.02% 0.00% 0.00% 98.58% 1.40%
LIB_178_ED 0.02% 0.00% 0.00% 98.86% 1.12%
PACBIO_ALL 0.00% 0.04% 0.23% 96.17% 3.56%
TG_300_SINGLE 0.01% 0.01% 0.18% 96.16% 3.64%
TG_500 0.00% 0.00% 0.03% 99.33% 0.64%
TG_800 0.00% 0.00% 0.03% 99.40% 0.57%
s01_LONGREAD 0.90% 0.79% 0.59% 93.82% 3.90%
s02_LONGREAD 0.94% 0.78% 0.60% 93.69% 3.98%
s03_LONGREAD 0.94% 0.77% 0.63% 93.70% 3.95%
s04_LONGREAD 0.93% 0.78% 0.62% 93.65% 4.02%
s05_LONGREAD 0.91% 0.78% 0.61% 93.71% 3.99%

An overview of functions based on the information found in the contigs database.

Bin Total Size Num Genes Identified Functions Table
 
Bacterial_draft_genome_02 1,784 🔗 Link
 
Bacterial_draft_genome_03 1,611 🔗 Link
 
Bacterial_draft_genome_01 819 🔗 Link
 
Tardigrade_draft_genome_01 30,336 🔗 Link

Hidden Markov Model Hits (none found)