Experiment set1IT066 for Methanococcus maripaludis S2
Mixed culture; Syntrophotalea carbinolica 1:1 starting OD to methanogen; 1,3-Propanediol_timecourse3; 10 generations
Quality Metrics:
| Time0 | 1-Jun-22 Methanococcus_S2_ML1_set1 | which Time0s the sample was compared to |
| cor12 | 0.68 | rank correlation(fit1, fit2), where fit1 is fitness for the first half (10-50%) and fit2 is fitness for the second half (50-90%) of each gene |
| maxFit | 1.25 | The maximum fitness value |
| opcor | 0.48 | rank correlation(upstream gene, downstream gene) over pairs that are adjacent and likely to be in the same operon |
| adjcor | 0.04 | like opcor but for adjacent genes that are not on the same strand |
| gccor | -0.09 | linear correlation of gene fitness and gene GC content |
| mad12 | 0.18 | median absolute difference of fit1, fit2 |
| mad12c | 1.12 | median absolute difference of log count for 1st and 2nd half of genes in this sample |
| mad12c_t0 | 1.06 | like mad12c but for the Time0s |
| gMed | 858 | median reads per gene in this sample |
| gMedt0 | 3081 | median reads per gene in the Time0 sample |
| gMean | 1444 | mean reads per gene in this sample |
| nMapped | 3.338 M | #reads for this sample that corresponded to a known strain (in millions) |
| nPastEnd | 0.037 M | #reads that corresponded to a strain that has an insertion within the suicide vector instead of within the genome. |
| nGenic | 1.799 M | #reads that lie within central 10-90% of a gene |
| nUsed | 1.796 M | #reads used to estimate gene fitness (genic and enough coverage for strain and for gene) |
Specific Phenotypes
None in this experiment
For Methanococcus maripaludis S2 in mixed community experiments