Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18195

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day3

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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_RS18205 and HMPREF1058_RS18200 are separated by 312 nucleotidesHMPREF1058_RS18200 and HMPREF1058_RS18195 are separated by 129 nucleotidesHMPREF1058_RS18195 and HMPREF1058_RS18190 are separated by 117 nucleotides HMPREF1058_RS18205: HMPREF1058_RS18205 - ferrous iron transport protein B, at 234,209 to 236,677 _RS18205 HMPREF1058_RS18200: HMPREF1058_RS18200 - tRNA-Cys, at 236,990 to 237,061 _RS18200 HMPREF1058_RS18195: HMPREF1058_RS18195 - IS1182 family transposase, at 237,191 to 238,846 _RS18195 HMPREF1058_RS18190: HMPREF1058_RS18190 - hypothetical protein, at 238,964 to 239,716 _RS18190 Position (kb) 237 238 239Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 236.513 kb on + strandat 236.730 kb on - strandat 236.731 kb on + strandat 236.736 kb on - strandat 236.746 kb on + strandat 236.773 kb on + strandat 236.774 kb on - strandat 236.811 kb on - strandat 238.920 kb on - strandat 238.938 kb on + strandat 238.941 kb on - strandat 238.941 kb on - strandat 238.947 kb on - strandat 238.955 kb on + strandat 239.012 kb on - strandat 239.022 kb on + strandat 239.022 kb on + strandat 239.023 kb on - strandat 239.023 kb on - strandat 239.047 kb on + strand, within HMPREF1058_RS18190at 239.053 kb on + strand, within HMPREF1058_RS18190at 239.054 kb on - strand, within HMPREF1058_RS18190at 239.058 kb on - strand, within HMPREF1058_RS18190at 239.092 kb on - strand, within HMPREF1058_RS18190at 239.107 kb on + strand, within HMPREF1058_RS18190at 239.107 kb on + strand, within HMPREF1058_RS18190at 239.108 kb on - strand, within HMPREF1058_RS18190at 239.202 kb on + strand, within HMPREF1058_RS18190at 239.203 kb on - strand, within HMPREF1058_RS18190at 239.206 kb on + strand, within HMPREF1058_RS18190at 239.206 kb on + strand, within HMPREF1058_RS18190at 239.206 kb on + strand, within HMPREF1058_RS18190at 239.222 kb on + strand, within HMPREF1058_RS18190at 239.285 kb on + strand, within HMPREF1058_RS18190at 239.288 kb on - strand, within HMPREF1058_RS18190at 239.296 kb on + strand, within HMPREF1058_RS18190at 239.304 kb on - strand, within HMPREF1058_RS18190at 239.305 kb on + strand, within HMPREF1058_RS18190at 239.305 kb on + strand, within HMPREF1058_RS18190at 239.306 kb on - strand, within HMPREF1058_RS18190at 239.306 kb on - strand, within HMPREF1058_RS18190at 239.308 kb on + strand, within HMPREF1058_RS18190at 239.398 kb on - strand, within HMPREF1058_RS18190at 239.416 kb on - strand, within HMPREF1058_RS18190at 239.455 kb on - strand, within HMPREF1058_RS18190at 239.506 kb on - strand, within HMPREF1058_RS18190at 239.509 kb on - strand, within HMPREF1058_RS18190at 239.553 kb on + strand, within HMPREF1058_RS18190at 239.560 kb on + strand, within HMPREF1058_RS18190at 239.561 kb on - strand, within HMPREF1058_RS18190at 239.561 kb on - strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.564 kb on + strand, within HMPREF1058_RS18190at 239.565 kb on - strand, within HMPREF1058_RS18190at 239.646 kb on + strandat 239.741 kb on + strandat 239.742 kb on - strandat 239.742 kb on - strandat 239.821 kb on - strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.838 kb on + strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strandat 239.839 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day3
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236,513 + -1.0
236,730 - -2.9
236,731 + -1.4
236,736 - -1.6
236,746 + -0.0
236,773 + -1.0
236,774 - -2.0
236,811 - -3.7
238,920 - +0.5
238,938 + -1.2
238,941 - +0.8
238,941 - +0.5
238,947 - +1.6
238,955 + +2.0
239,012 - -0.3
239,022 + -1.0
239,022 + +1.0
239,023 - -1.9
239,023 - +0.9
239,047 + HMPREF1058_RS18190 0.11 -0.2
239,053 + HMPREF1058_RS18190 0.12 -1.3
239,054 - HMPREF1058_RS18190 0.12 +0.2
239,058 - HMPREF1058_RS18190 0.12 +0.4
239,092 - HMPREF1058_RS18190 0.17 -0.7
239,107 + HMPREF1058_RS18190 0.19 -3.3
239,107 + HMPREF1058_RS18190 0.19 -0.1
239,108 - HMPREF1058_RS18190 0.19 +0.8
239,202 + HMPREF1058_RS18190 0.32 -0.6
239,203 - HMPREF1058_RS18190 0.32 +0.7
239,206 + HMPREF1058_RS18190 0.32 -0.0
239,206 + HMPREF1058_RS18190 0.32 +1.7
239,206 + HMPREF1058_RS18190 0.32 +2.3
239,222 + HMPREF1058_RS18190 0.34 -1.0
239,285 + HMPREF1058_RS18190 0.43 +0.2
239,288 - HMPREF1058_RS18190 0.43 -0.5
239,296 + HMPREF1058_RS18190 0.44 -3.0
239,304 - HMPREF1058_RS18190 0.45 -1.0
239,305 + HMPREF1058_RS18190 0.45 -0.6
239,305 + HMPREF1058_RS18190 0.45 -0.4
239,306 - HMPREF1058_RS18190 0.45 +1.9
239,306 - HMPREF1058_RS18190 0.45 +1.0
239,308 + HMPREF1058_RS18190 0.46 -2.2
239,398 - HMPREF1058_RS18190 0.58 +2.2
239,416 - HMPREF1058_RS18190 0.60 -0.2
239,455 - HMPREF1058_RS18190 0.65 -0.0
239,506 - HMPREF1058_RS18190 0.72 +0.9
239,509 - HMPREF1058_RS18190 0.72 -1.1
239,553 + HMPREF1058_RS18190 0.78 +0.2
239,560 + HMPREF1058_RS18190 0.79 -1.1
239,561 - HMPREF1058_RS18190 0.79 -0.0
239,561 - HMPREF1058_RS18190 0.79 -0.6
239,564 + HMPREF1058_RS18190 0.80 -0.8
239,564 + HMPREF1058_RS18190 0.80 -3.0
239,564 + HMPREF1058_RS18190 0.80 -0.0
239,564 + HMPREF1058_RS18190 0.80 +0.1
239,564 + HMPREF1058_RS18190 0.80 -0.0
239,565 - HMPREF1058_RS18190 0.80 -0.9
239,646 + -0.7
239,741 + +0.5
239,742 - -1.0
239,742 - -0.6
239,821 - -0.0
239,838 + -2.3
239,838 + -2.0
239,838 + +0.3
239,838 + -0.4
239,839 - +0.7
239,839 - -0.2
239,839 - +0.5
239,839 - -0.3
239,839 - -3.3
239,839 - +0.4
239,839 - +0.6

Or see this region's nucleotide sequence