Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03530

Experiment: Sucrose 10 mM (C)

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntHMPREF1058_RS03535 and HMPREF1058_RS03530 overlap by 1 nucleotidesHMPREF1058_RS03530 and HMPREF1058_RS03525 are separated by 74 nucleotides HMPREF1058_RS03535: HMPREF1058_RS03535 - UvrD-helicase domain-containing protein, at 253,852 to 257,028 _RS03535 HMPREF1058_RS03530: HMPREF1058_RS03530 - PD-(D/E)XK nuclease family protein, at 257,028 to 259,907 _RS03530 HMPREF1058_RS03525: HMPREF1058_RS03525 - 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase, at 259,982 to 260,809 _RS03525 Position (kb) 257 258 259 260Strain fitness (log2 ratio) -2 -1 0 1 2at 256.694 kb on + strand, within HMPREF1058_RS03535at 256.771 kb on + strandat 256.993 kb on + strandat 257.184 kb on + strandat 257.885 kb on - strand, within HMPREF1058_RS03530at 258.946 kb on + strand, within HMPREF1058_RS03530at 259.895 kb on - strandat 259.899 kb on - strandat 259.899 kb on - strandat 259.910 kb on + strandat 259.911 kb on - strandat 259.912 kb on + strandat 259.930 kb on - strandat 260.810 kb on - strandat 260.822 kb on - strandat 260.830 kb on - strandat 260.830 kb on - strandat 260.866 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Sucrose 10 mM (C)
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256,694 + HMPREF1058_RS03535 0.89 +2.7
256,771 + -2.7
256,993 + -2.3
257,184 + -0.7
257,885 - HMPREF1058_RS03530 0.30 -0.7
258,946 + HMPREF1058_RS03530 0.67 -1.5
259,895 - -2.1
259,899 - -0.1
259,899 - -0.1
259,910 + +0.1
259,911 - -0.5
259,912 + -2.0
259,930 - +1.0
260,810 - +1.0
260,822 - +1.7
260,830 - -0.5
260,830 - -1.0
260,866 - -0.1

Or see this region's nucleotide sequence