Bins that were identified in single profile 'MASON SAGs MERGED' and stored in the database as "SUPERVISED" collection, describe 2 bins accountig for 2,882,640 nucleotides, which represent 100.00% of all nucleotides stored in the annotation database, and 100.00% of nucleotides stored in the profile database.
The single profile database that was generated with the minimum contig length of 1,000 contained 941 contigs, which correspond to 100% of all contigs, and 100% of all nucleotides found in the annotation database.
Profile DB for MASON SAGs MERGED w/ 14 samples.
Key Value
Created on 2015-07-04 18:58:37
Version 5
Minimum conting length 1,000
Number of contigs 941
Number of splits 941
Total nucleotides 2.88 Mb
Annotation DB
Key Value
Created on 2015-07-04 18:58:37
Version 3
Split length 20,000
Number of contigs 941
Number of splits 941
Total nucleotides 2.88 Mb
K-mer size 4

Summary of general characteristics of each bin.

Bin Taxonomy Total Size Num Contigs N50 GC Content Compl. Red.
 
DWH_Oceanospirillales 615 3,959 46.45% 2.70%
 
DWH_Colwellia 326 3,879 38.34% 0.18%

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 1.57 1.65 1.41 2.08 1.83 0.07 1.29 1.61 1.53 1.52 ...
 
DWH_Colwellia 0.16 0.09 0.55 0.00 0.00 2.08 0.00 0.00 0.57 0.23 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 7.02 3.76 6.94 19.46 47.92 1.27 27.14 31.86 0.03 0.03 ...
 
DWH_Colwellia 2.69 1.57 0.54 0.00 0.00 32.24 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 0.00 0.00 0.01 0.00 0.00 0.00 0.55 0.42 0.00 0.00 ...
 
DWH_Colwellia 0.06 0.02 0.07 0.00 0.00 0.81 0.00 0.00 0.01 0.00 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 0.00 0.00 0.01 0.00 0.00 0.00 0.01 0.02 0.00 0.00 ...
 
DWH_Colwellia 0.00 0.00 0.00 0.00 0.00 0.01 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 0.01 0.01 0.01 0.00 0.00 0.00 0.73 0.61 0.00 0.00 ...
 
DWH_Colwellia 0.13 0.04 0.03 0.00 0.00 1.00 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 4.31 3.97 0.54 4.82 7.24 9.78 228.90 222.29 0.01 0.01 ...
 
DWH_Colwellia 0.45 0.22 0.21 0.00 0.00 284.89 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 0.01 0.00 0.01 0.00 0.00 0.00 0.60 0.47 0.00 0.00 ...
 
DWH_Colwellia 0.11 0.03 0.12 0.00 0.00 0.94 0.00 0.00 0.01 0.01 ...

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

Bin MG_DI ... MG_PO ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_Oceanospirillales 8.74 8.50 1.10 10.64 13.72 9.37 96.06 94.72 0.04 0.03 ...
 
DWH_Colwellia 0.88 0.54 0.66 0.01 0.01 156.84 0.00 0.00 0.02 0.02 ...

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 DWH_Colwellia DWH_Oceanospirillales __splits_not_binned__
MG_DISTAL 5.25% 94.75% 0.00%
MG_POXIMAL 2.88% 97.12% 0.00%
MG_UNCONTAMINATED 17.20% 82.80% 0.00%
MT_DISTAL 0.01% 99.99% 0.00%
MT_PROXIMAL 0.02% 99.98% 0.00%
SAG_COLWELLIA 93.92% 6.08% 0.00%
SAG_OCEANOSPIRILLALES_HWTA 0.00% 100.00% 0.00%
SAG_OCEANOSPIRILLALES_HWTC 0.00% 100.00% 0.00%
Y_A6_1284M 16.48% 83.52% 0.00%
Y_A6_2174M 7.40% 92.60% 0.00%
Y_A6_700M 12.91% 87.09% 0.00%
Y_BM57_1174M 15.33% 84.67% 0.00%
Y_BM57_1574M 21.71% 78.29% 0.00%
Y_BM57_850M 13.53% 86.47% 0.00%

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

Bin Total Size Num Genes Identified Functions Table
 
DWH_Oceanospirillales 1,012 🔗 Link
 
DWH_Colwellia 633 🔗 Link

Hidden Markov Model Hits (none found)