Bins that were identified in single profile 'PLUME MASON Yergeau MERGED' and stored in the database as "SUPERVISED" collection, describe 3 bins accountig for 3,023,389 nucleotides, which represent 7.98% of all nucleotides stored in the annotation database, and 7.98% of nucleotides stored in the profile database.
The single profile database that was generated with the minimum contig length of 1,000 contained 19,954 contigs, which correspond to 100% of all contigs, and 100% of all nucleotides found in the annotation database.
Profile DB for PLUME MASON Yergeau MERGED w/ 14 samples.
Key Value
Created on 2015-06-25 11:27:04
Version 5
Minimum conting length 1,000
Number of contigs 19,954
Number of splits 22,155
Total nucleotides 37.87 Mb
Annotation DB
Key Value
Created on 2015-06-25 11:27:04
Version 3
Split length 2,000
Number of contigs 19,954
Number of splits 22,155
Total nucleotides 37.87 Mb
K-mer size 4

Summary of general characteristics of each bin.

Bin Taxonomy Total Size Num Contigs N50 GC Content Compl. Red.
 
DWH_O_desum 588 1,804 50.98% 5.70%
 
DWH_Cryptic 140 2,656 43.99% 0.00%
 
DWH_Unknown 442 5,010 41.53% 0.00%

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

Bin MG_DI ... MG_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 27.48 27.28 1.27 42.68 38.60 8.71 2.62 45.81 0.37 0.16 ...
 
DWH_Cryptic 9.41 7.57 0.40 0.49 1.03 0.00 0.00 0.00 0.04 0.01 ...
 
DWH_Unknown 1.59 0.97 0.04 0.09 0.21 0.04 26.92 0.02 0.03 0.02 ...

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

Bin MG_DI ... MG_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 13.72 Kb 9.94 Kb 127.15 35.68 93.77 0.04 0.00 0.00 0.12 0.06 ...
 
DWH_Cryptic 2.72 Kb 1.76 Kb 16.81 0.00 0.47 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 286.43 154.04 0.54 0.07 0.09 0.07 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_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 0.49 0.47 0.02 0.00 0.01 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Cryptic 0.56 0.41 0.02 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 0.61 0.38 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 0.13 0.13 0.01 0.02 0.01 0.01 0.01 0.11 0.00 0.00 ...
 
DWH_Cryptic 0.04 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 0.01 0.00 0.00 0.00 0.00 0.00 0.13 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 1.00 1.00 0.96 0.20 0.71 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Cryptic 1.00 0.99 0.68 0.10 0.30 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 1.00 0.99 0.14 0.02 0.08 0.00 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_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 2.77 Kb 1.94 Kb 29.09 18.42 36.69 3.42 0.11 0.30 0.02 0.02 ...
 
DWH_Cryptic 949.54 539.37 9.21 0.21 0.98 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 160.24 69.25 0.98 0.04 0.20 0.01 1.15 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_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 0.92 0.89 0.04 0.00 0.03 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Cryptic 0.98 0.74 0.04 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...
 
DWH_Unknown 0.97 0.63 0.01 0.00 0.00 0.00 0.00 0.00 0.00 0.00 ...

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

Bin MG_DI ... MG_PR ... MG_UN ... MT_DI ... MT_PR ... SAG_C ... SAG_O ... SAG_O ... Y_A6_ ... Y_A6_ ... ...
 
DWH_O_desum 935.61 647.48 23.05 10.39 24.15 5.85 0.25 0.67 0.07 0.04 ...
 
DWH_Cryptic 375.46 243.98 11.80 0.47 1.43 0.00 0.00 0.00 0.02 0.01 ...
 
DWH_Unknown 67.94 40.18 2.26 0.12 0.43 0.06 1.00 0.00 0.02 0.01 ...

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_Cryptic DWH_O_desum DWH_Unknown __splits_not_binned__
MG_DISTAL 8.32% 79.45% 6.00% 6.23%
MG_PROXIMAL 6.60% 77.81% 3.62% 11.97%
MG_UNCONTAMINATED 0.34% 3.54% 0.16% 95.97%
MT_DISTAL 0.35% 99.15% 0.27% 0.23%
MT_PROXIMAL 0.80% 97.64% 0.70% 0.86%
SAG_COLWELLIA 0.00% 26.32% 0.14% 73.54%
SAG_OCEANOSPIRILLALES_HWTA 0.00% 6.94% 93.05% 0.01%
SAG_OCEANOSPIRILLALES_HWTC 0.00% 99.79% 0.05% 0.16%
Y_A6_1284M 0.03% 0.98% 0.12% 98.87%
Y_A6_2174M 0.01% 0.44% 0.06% 99.49%
Y_A6_700M 0.00% 0.08% 0.02% 99.90%
Y_BM57_1174M 0.00% 0.08% 0.03% 99.89%
Y_BM57_1574M 0.01% 0.23% 0.05% 99.71%
Y_BM57_850M 0.00% 0.11% 0.05% 99.84%

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

Bin Total Size Num Genes Identified Functions Table
 
DWH_O_desum 717 🔗 Link
 
DWH_Cryptic 120 🔗 Link
 
DWH_Unknown 402 🔗 Link

Hidden Markov Model Hits (none found)