Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11890

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_RS11895 and HMPREF1058_RS11890 are separated by 3 nucleotidesHMPREF1058_RS11890 and HMPREF1058_RS11885 are separated by 126 nucleotides HMPREF1058_RS11895: HMPREF1058_RS11895 - lipopolysaccharide biosynthesis protein, at 250,904 to 252,349 _RS11895 HMPREF1058_RS11890: HMPREF1058_RS11890 - Holliday junction branch migration DNA helicase RuvB, at 252,353 to 253,381 _RS11890 HMPREF1058_RS11885: HMPREF1058_RS11885 - site-specific integrase, at 253,508 to 254,626 _RS11885 Position (kb) 252 253 254Strain fitness (log2 ratio) -2 -1 0 1at 252.385 kb on - strandat 252.407 kb on - strandat 252.407 kb on - strandat 252.450 kb on - strandat 252.564 kb on - strand, within HMPREF1058_RS11890at 252.565 kb on + strand, within HMPREF1058_RS11890at 252.566 kb on - strand, within HMPREF1058_RS11890at 252.569 kb on - strand, within HMPREF1058_RS11890at 252.569 kb on - strand, within HMPREF1058_RS11890at 252.571 kb on + strand, within HMPREF1058_RS11890at 252.590 kb on + strand, within HMPREF1058_RS11890at 252.786 kb on - strand, within HMPREF1058_RS11890at 252.787 kb on + strand, within HMPREF1058_RS11890at 252.791 kb on - strand, within HMPREF1058_RS11890at 252.818 kb on + strand, within HMPREF1058_RS11890at 253.017 kb on - strand, within HMPREF1058_RS11890at 253.038 kb on - strand, within HMPREF1058_RS11890at 253.106 kb on - strand, within HMPREF1058_RS11890at 253.166 kb on - strand, within HMPREF1058_RS11890at 253.417 kb on - strandat 253.516 kb on + strandat 253.576 kb on + strandat 253.707 kb on + strand, within HMPREF1058_RS11885at 253.718 kb on + strand, within HMPREF1058_RS11885at 253.735 kb on - strand, within HMPREF1058_RS11885at 253.791 kb on - strand, within HMPREF1058_RS11885at 253.808 kb on + strand, within HMPREF1058_RS11885at 253.808 kb on + strand, within HMPREF1058_RS11885at 254.038 kb on + strand, within HMPREF1058_RS11885at 254.148 kb on + strand, within HMPREF1058_RS11885at 254.200 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.248 kb on + strand, within HMPREF1058_RS11885at 254.249 kb on - strand, within HMPREF1058_RS11885at 254.254 kb on - strand, within HMPREF1058_RS11885at 254.338 kb on + strand, within HMPREF1058_RS11885at 254.338 kb on + strand, within HMPREF1058_RS11885at 254.339 kb on - strand, within HMPREF1058_RS11885

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Per-strain Table

Position Strand Gene LocusTag Fraction Sucrose 10 mM (C)
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252,385 - -0.2
252,407 - -0.4
252,407 - -1.1
252,450 - +0.3
252,564 - HMPREF1058_RS11890 0.21 -1.4
252,565 + HMPREF1058_RS11890 0.21 -1.7
252,566 - HMPREF1058_RS11890 0.21 -2.2
252,569 - HMPREF1058_RS11890 0.21 +0.9
252,569 - HMPREF1058_RS11890 0.21 -1.4
252,571 + HMPREF1058_RS11890 0.21 -0.7
252,590 + HMPREF1058_RS11890 0.23 -0.1
252,786 - HMPREF1058_RS11890 0.42 -0.5
252,787 + HMPREF1058_RS11890 0.42 -1.6
252,791 - HMPREF1058_RS11890 0.43 +0.3
252,818 + HMPREF1058_RS11890 0.45 -2.2
253,017 - HMPREF1058_RS11890 0.65 -2.2
253,038 - HMPREF1058_RS11890 0.67 -1.1
253,106 - HMPREF1058_RS11890 0.73 -1.3
253,166 - HMPREF1058_RS11890 0.79 -1.4
253,417 - +0.4
253,516 + +0.6
253,576 + +0.5
253,707 + HMPREF1058_RS11885 0.18 -1.4
253,718 + HMPREF1058_RS11885 0.19 -0.9
253,735 - HMPREF1058_RS11885 0.20 -0.4
253,791 - HMPREF1058_RS11885 0.25 +0.5
253,808 + HMPREF1058_RS11885 0.27 -0.5
253,808 + HMPREF1058_RS11885 0.27 +0.1
254,038 + HMPREF1058_RS11885 0.47 +0.0
254,148 + HMPREF1058_RS11885 0.57 -0.3
254,200 - HMPREF1058_RS11885 0.62 -1.5
254,216 - HMPREF1058_RS11885 0.63 -0.1
254,216 - HMPREF1058_RS11885 0.63 -1.4
254,216 - HMPREF1058_RS11885 0.63 +0.6
254,248 + HMPREF1058_RS11885 0.66 +0.5
254,249 - HMPREF1058_RS11885 0.66 -0.5
254,254 - HMPREF1058_RS11885 0.67 +0.0
254,338 + HMPREF1058_RS11885 0.74 +0.1
254,338 + HMPREF1058_RS11885 0.74 -1.3
254,339 - HMPREF1058_RS11885 0.74 -0.5

Or see this region's nucleotide sequence