Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18340

Experiment: Beta-Lactose 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_RS18345 and HMPREF1058_RS18340 are separated by 34 nucleotidesHMPREF1058_RS18340 and HMPREF1058_RS18335 are separated by 48 nucleotidesHMPREF1058_RS18335 and HMPREF1058_RS18330 are separated by 186 nucleotides HMPREF1058_RS18345: HMPREF1058_RS18345 - TonB-dependent receptor, at 187,287 to 190,487 _RS18345 HMPREF1058_RS18340: HMPREF1058_RS18340 - hypothetical protein, at 190,522 to 190,806 _RS18340 HMPREF1058_RS18335: HMPREF1058_RS18335 - sigma-70 family RNA polymerase sigma factor, at 190,855 to 191,409 _RS18335 HMPREF1058_RS18330: HMPREF1058_RS18330 - hypothetical protein, at 191,596 to 194,682 _RS18330 Position (kb) 190 191Strain fitness (log2 ratio) -2 -1 0 1 2at 189.522 kb on - strand, within HMPREF1058_RS18345at 189.523 kb on + strand, within HMPREF1058_RS18345at 189.523 kb on + strand, within HMPREF1058_RS18345at 189.523 kb on + strand, within HMPREF1058_RS18345at 189.524 kb on - strand, within HMPREF1058_RS18345at 189.545 kb on + strand, within HMPREF1058_RS18345at 189.545 kb on + strand, within HMPREF1058_RS18345at 189.545 kb on + strand, within HMPREF1058_RS18345at 189.545 kb on + strand, within HMPREF1058_RS18345at 189.548 kb on - strand, within HMPREF1058_RS18345at 189.548 kb on - strand, within HMPREF1058_RS18345at 189.548 kb on - strand, within HMPREF1058_RS18345at 189.586 kb on + strand, within HMPREF1058_RS18345at 189.586 kb on + strand, within HMPREF1058_RS18345at 189.626 kb on + strand, within HMPREF1058_RS18345at 189.628 kb on + strand, within HMPREF1058_RS18345at 189.702 kb on - strand, within HMPREF1058_RS18345at 189.735 kb on + strand, within HMPREF1058_RS18345at 189.835 kb on + strand, within HMPREF1058_RS18345at 189.857 kb on + strand, within HMPREF1058_RS18345at 189.867 kb on - strand, within HMPREF1058_RS18345at 189.867 kb on - strand, within HMPREF1058_RS18345at 189.884 kb on + strand, within HMPREF1058_RS18345at 189.885 kb on - strand, within HMPREF1058_RS18345at 189.948 kb on + strand, within HMPREF1058_RS18345at 189.949 kb on - strand, within HMPREF1058_RS18345at 190.011 kb on + strand, within HMPREF1058_RS18345at 190.012 kb on - strand, within HMPREF1058_RS18345at 190.012 kb on - strand, within HMPREF1058_RS18345at 190.084 kb on - strand, within HMPREF1058_RS18345at 190.177 kb on + strandat 190.178 kb on - strandat 190.199 kb on + strandat 190.256 kb on + strandat 190.257 kb on - strandat 190.410 kb on - strandat 190.413 kb on + strandat 190.413 kb on + strandat 190.414 kb on - strandat 190.473 kb on - strandat 190.524 kb on - strandat 190.540 kb on + strandat 190.551 kb on + strand, within HMPREF1058_RS18340at 190.625 kb on - strand, within HMPREF1058_RS18340at 190.627 kb on + strand, within HMPREF1058_RS18340at 190.683 kb on + strand, within HMPREF1058_RS18340at 190.759 kb on + strand, within HMPREF1058_RS18340at 190.769 kb on + strand, within HMPREF1058_RS18340at 190.854 kb on - strandat 190.884 kb on + strandat 190.917 kb on - strand, within HMPREF1058_RS18335at 190.964 kb on - strand, within HMPREF1058_RS18335at 190.973 kb on - strand, within HMPREF1058_RS18335at 191.002 kb on + strand, within HMPREF1058_RS18335at 191.155 kb on + strand, within HMPREF1058_RS18335at 191.285 kb on - strand, within HMPREF1058_RS18335at 191.301 kb on + strand, within HMPREF1058_RS18335at 191.314 kb on - strand, within HMPREF1058_RS18335at 191.323 kb on - strand, within HMPREF1058_RS18335at 191.327 kb on + strand, within HMPREF1058_RS18335at 191.329 kb on + strand, within HMPREF1058_RS18335at 191.415 kb on + strandat 191.415 kb on + strandat 191.415 kb on + strandat 191.418 kb on - strandat 191.424 kb on + strandat 191.426 kb on + strandat 191.529 kb on + strandat 191.529 kb on + strandat 191.649 kb on + strandat 191.652 kb on - strandat 191.653 kb on + strandat 191.722 kb on + strandat 191.754 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Beta-Lactose 10 mM (C)
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189,522 - HMPREF1058_RS18345 0.70 -0.7
189,523 + HMPREF1058_RS18345 0.70 -1.0
189,523 + HMPREF1058_RS18345 0.70 -0.6
189,523 + HMPREF1058_RS18345 0.70 +0.3
189,524 - HMPREF1058_RS18345 0.70 -0.2
189,545 + HMPREF1058_RS18345 0.71 +0.5
189,545 + HMPREF1058_RS18345 0.71 -0.7
189,545 + HMPREF1058_RS18345 0.71 +0.3
189,545 + HMPREF1058_RS18345 0.71 -0.2
189,548 - HMPREF1058_RS18345 0.71 -0.2
189,548 - HMPREF1058_RS18345 0.71 +0.3
189,548 - HMPREF1058_RS18345 0.71 -0.2
189,586 + HMPREF1058_RS18345 0.72 -0.7
189,586 + HMPREF1058_RS18345 0.72 +0.5
189,626 + HMPREF1058_RS18345 0.73 -0.2
189,628 + HMPREF1058_RS18345 0.73 -0.4
189,702 - HMPREF1058_RS18345 0.75 +1.3
189,735 + HMPREF1058_RS18345 0.76 +0.0
189,835 + HMPREF1058_RS18345 0.80 -0.6
189,857 + HMPREF1058_RS18345 0.80 -0.4
189,867 - HMPREF1058_RS18345 0.81 -0.0
189,867 - HMPREF1058_RS18345 0.81 +1.4
189,884 + HMPREF1058_RS18345 0.81 -0.0
189,885 - HMPREF1058_RS18345 0.81 -0.8
189,948 + HMPREF1058_RS18345 0.83 -1.0
189,949 - HMPREF1058_RS18345 0.83 +0.4
190,011 + HMPREF1058_RS18345 0.85 +0.9
190,012 - HMPREF1058_RS18345 0.85 -0.3
190,012 - HMPREF1058_RS18345 0.85 -0.2
190,084 - HMPREF1058_RS18345 0.87 -0.2
190,177 + +2.4
190,178 - -1.3
190,199 + +0.3
190,256 + -0.8
190,257 - -1.0
190,410 - +0.1
190,413 + -0.4
190,413 + +0.0
190,414 - +0.5
190,473 - -0.1
190,524 - -0.4
190,540 + +0.1
190,551 + HMPREF1058_RS18340 0.10 +0.6
190,625 - HMPREF1058_RS18340 0.36 +0.7
190,627 + HMPREF1058_RS18340 0.37 +0.1
190,683 + HMPREF1058_RS18340 0.56 +0.9
190,759 + HMPREF1058_RS18340 0.83 +0.9
190,769 + HMPREF1058_RS18340 0.87 +0.3
190,854 - -0.2
190,884 + -0.4
190,917 - HMPREF1058_RS18335 0.11 +1.1
190,964 - HMPREF1058_RS18335 0.20 +1.0
190,973 - HMPREF1058_RS18335 0.21 +1.4
191,002 + HMPREF1058_RS18335 0.26 -0.8
191,155 + HMPREF1058_RS18335 0.54 +0.5
191,285 - HMPREF1058_RS18335 0.77 +0.7
191,301 + HMPREF1058_RS18335 0.80 +0.4
191,314 - HMPREF1058_RS18335 0.83 -0.1
191,323 - HMPREF1058_RS18335 0.84 +2.4
191,327 + HMPREF1058_RS18335 0.85 -1.0
191,329 + HMPREF1058_RS18335 0.85 -0.2
191,415 + +0.1
191,415 + -1.1
191,415 + -1.0
191,418 - +1.2
191,424 + +1.0
191,426 + +0.0
191,529 + +0.5
191,529 + +0.8
191,649 + -1.5
191,652 - -0.2
191,653 + -0.6
191,722 + -0.1
191,754 + -2.7

Or see this region's nucleotide sequence