Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS07560

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; 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_RS07565 and HMPREF1058_RS07560 are separated by 91 nucleotidesHMPREF1058_RS07560 and HMPREF1058_RS07555 are separated by 9 nucleotidesHMPREF1058_RS07555 and HMPREF1058_RS07550 are separated by 115 nucleotides HMPREF1058_RS07565: HMPREF1058_RS07565 - transporter, at 189,772 to 190,731 _RS07565 HMPREF1058_RS07560: HMPREF1058_RS07560 - pyridoxal phosphate-dependent aminotransferase, at 190,823 to 191,986 _RS07560 HMPREF1058_RS07555: HMPREF1058_RS07555 - DUF3737 family protein, at 191,996 to 192,862 _RS07555 HMPREF1058_RS07550: HMPREF1058_RS07550 - alpha/beta hydrolase, at 192,978 to 194,033 _RS07550 Position (kb) 190 191 192Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 189.943 kb on - strand, within HMPREF1058_RS07565at 190.030 kb on - strand, within HMPREF1058_RS07565at 190.046 kb on - strand, within HMPREF1058_RS07565at 190.070 kb on - strand, within HMPREF1058_RS07565at 190.070 kb on - strand, within HMPREF1058_RS07565at 190.104 kb on + strand, within HMPREF1058_RS07565at 190.133 kb on + strand, within HMPREF1058_RS07565at 190.134 kb on - strand, within HMPREF1058_RS07565at 190.178 kb on - strand, within HMPREF1058_RS07565at 190.178 kb on - strand, within HMPREF1058_RS07565at 190.246 kb on - strand, within HMPREF1058_RS07565at 190.246 kb on - strand, within HMPREF1058_RS07565at 190.246 kb on - strand, within HMPREF1058_RS07565at 190.246 kb on - strand, within HMPREF1058_RS07565at 190.342 kb on + strand, within HMPREF1058_RS07565at 190.394 kb on - strand, within HMPREF1058_RS07565at 190.456 kb on - strand, within HMPREF1058_RS07565at 190.467 kb on - strand, within HMPREF1058_RS07565at 190.549 kb on + strand, within HMPREF1058_RS07565at 190.550 kb on - strand, within HMPREF1058_RS07565at 190.560 kb on + strand, within HMPREF1058_RS07565at 190.561 kb on - strand, within HMPREF1058_RS07565at 190.598 kb on + strandat 190.599 kb on - strand, within HMPREF1058_RS07565at 190.601 kb on + strand, within HMPREF1058_RS07565at 190.605 kb on + strand, within HMPREF1058_RS07565at 190.630 kb on - strand, within HMPREF1058_RS07565at 190.661 kb on - strandat 190.741 kb on - strandat 190.754 kb on + strandat 190.755 kb on - strandat 190.758 kb on + strandat 190.759 kb on - strandat 190.778 kb on + strandat 190.782 kb on + strandat 190.817 kb on + strandat 190.817 kb on + strandat 190.818 kb on - strandat 190.818 kb on - strandat 190.818 kb on - strandat 190.874 kb on - strandat 190.874 kb on - strandat 190.926 kb on + strandat 190.926 kb on + strandat 190.926 kb on + strandat 190.926 kb on + strandat 190.994 kb on + strand, within HMPREF1058_RS07560at 191.089 kb on + strand, within HMPREF1058_RS07560at 191.090 kb on - strand, within HMPREF1058_RS07560at 191.090 kb on - strand, within HMPREF1058_RS07560at 191.092 kb on - strand, within HMPREF1058_RS07560at 191.151 kb on + strand, within HMPREF1058_RS07560at 191.151 kb on + strand, within HMPREF1058_RS07560at 191.152 kb on - strand, within HMPREF1058_RS07560at 191.171 kb on + strand, within HMPREF1058_RS07560at 191.171 kb on + strand, within HMPREF1058_RS07560at 191.172 kb on - strand, within HMPREF1058_RS07560at 191.254 kb on + strand, within HMPREF1058_RS07560at 191.303 kb on + strand, within HMPREF1058_RS07560at 191.303 kb on + strand, within HMPREF1058_RS07560at 191.303 kb on + strand, within HMPREF1058_RS07560at 191.304 kb on - strand, within HMPREF1058_RS07560at 191.304 kb on - strand, within HMPREF1058_RS07560at 191.304 kb on - strand, within HMPREF1058_RS07560at 191.304 kb on - strand, within HMPREF1058_RS07560at 191.305 kb on + strand, within HMPREF1058_RS07560at 191.305 kb on + strand, within HMPREF1058_RS07560at 191.305 kb on + strand, within HMPREF1058_RS07560at 191.305 kb on + strand, within HMPREF1058_RS07560at 191.306 kb on - strand, within HMPREF1058_RS07560at 191.306 kb on - strand, within HMPREF1058_RS07560at 191.306 kb on - strand, within HMPREF1058_RS07560at 191.306 kb on - strand, within HMPREF1058_RS07560at 191.312 kb on + strand, within HMPREF1058_RS07560at 191.313 kb on - strand, within HMPREF1058_RS07560at 191.411 kb on - strand, within HMPREF1058_RS07560at 191.440 kb on + strand, within HMPREF1058_RS07560at 191.441 kb on - strand, within HMPREF1058_RS07560at 191.441 kb on - strand, within HMPREF1058_RS07560at 191.530 kb on + strand, within HMPREF1058_RS07560at 191.537 kb on + strand, within HMPREF1058_RS07560at 191.537 kb on + strand, within HMPREF1058_RS07560at 191.592 kb on - strand, within HMPREF1058_RS07560at 191.638 kb on - strand, within HMPREF1058_RS07560at 191.658 kb on - strand, within HMPREF1058_RS07560at 191.725 kb on - strand, within HMPREF1058_RS07560at 191.791 kb on - strand, within HMPREF1058_RS07560at 191.794 kb on - strand, within HMPREF1058_RS07560at 191.846 kb on + strand, within HMPREF1058_RS07560at 191.907 kb on - strandat 191.937 kb on + strandat 191.979 kb on + strandat 191.998 kb on - strandat 192.068 kb on + strandat 192.068 kb on + strandat 192.134 kb on - strand, within HMPREF1058_RS07555at 192.215 kb on - strand, within HMPREF1058_RS07555at 192.272 kb on + strand, within HMPREF1058_RS07555at 192.412 kb on - strand, within HMPREF1058_RS07555at 192.441 kb on + strand, within HMPREF1058_RS07555at 192.511 kb on + strand, within HMPREF1058_RS07555at 192.525 kb on - strand, within HMPREF1058_RS07555at 192.564 kb on - strand, within HMPREF1058_RS07555at 192.634 kb on - strand, within HMPREF1058_RS07555at 192.666 kb on + strand, within HMPREF1058_RS07555at 192.709 kb on - strand, within HMPREF1058_RS07555at 192.709 kb on - strand, within HMPREF1058_RS07555at 192.748 kb on + strand, within HMPREF1058_RS07555at 192.781 kb on + strandat 192.868 kb on - strandat 192.952 kb on - strandat 192.985 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3
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189,943 - HMPREF1058_RS07565 0.18 +0.2
190,030 - HMPREF1058_RS07565 0.27 +0.2
190,046 - HMPREF1058_RS07565 0.29 +0.2
190,070 - HMPREF1058_RS07565 0.31 -1.8
190,070 - HMPREF1058_RS07565 0.31 -0.8
190,104 + HMPREF1058_RS07565 0.35 -0.5
190,133 + HMPREF1058_RS07565 0.38 +1.2
190,134 - HMPREF1058_RS07565 0.38 +1.9
190,178 - HMPREF1058_RS07565 0.42 +2.1
190,178 - HMPREF1058_RS07565 0.42 -2.8
190,246 - HMPREF1058_RS07565 0.49 +1.1
190,246 - HMPREF1058_RS07565 0.49 -1.8
190,246 - HMPREF1058_RS07565 0.49 +1.0
190,246 - HMPREF1058_RS07565 0.49 -1.4
190,342 + HMPREF1058_RS07565 0.59 -1.4
190,394 - HMPREF1058_RS07565 0.65 +0.1
190,456 - HMPREF1058_RS07565 0.71 +0.3
190,467 - HMPREF1058_RS07565 0.72 -3.8
190,549 + HMPREF1058_RS07565 0.81 +1.4
190,550 - HMPREF1058_RS07565 0.81 +1.8
190,560 + HMPREF1058_RS07565 0.82 +0.2
190,561 - HMPREF1058_RS07565 0.82 -1.5
190,598 + +0.2
190,599 - HMPREF1058_RS07565 0.86 +0.8
190,601 + HMPREF1058_RS07565 0.86 -1.8
190,605 + HMPREF1058_RS07565 0.87 -0.8
190,630 - HMPREF1058_RS07565 0.89 -0.8
190,661 - +2.8
190,741 - -1.8
190,754 + -1.8
190,755 - -0.9
190,758 + -0.3
190,759 - +0.2
190,778 + -1.4
190,782 + +0.2
190,817 + +0.2
190,817 + -1.4
190,818 - +1.8
190,818 - -1.8
190,818 - -0.1
190,874 - +1.7
190,874 - +1.0
190,926 + +3.6
190,926 + +0.2
190,926 + -1.6
190,926 + -1.2
190,994 + HMPREF1058_RS07560 0.15 -0.8
191,089 + HMPREF1058_RS07560 0.23 +0.9
191,090 - HMPREF1058_RS07560 0.23 +0.2
191,090 - HMPREF1058_RS07560 0.23 -0.8
191,092 - HMPREF1058_RS07560 0.23 +0.2
191,151 + HMPREF1058_RS07560 0.28 +1.2
191,151 + HMPREF1058_RS07560 0.28 -0.3
191,152 - HMPREF1058_RS07560 0.28 +0.7
191,171 + HMPREF1058_RS07560 0.30 -0.8
191,171 + HMPREF1058_RS07560 0.30 +1.1
191,172 - HMPREF1058_RS07560 0.30 +1.2
191,254 + HMPREF1058_RS07560 0.37 -0.8
191,303 + HMPREF1058_RS07560 0.41 -1.4
191,303 + HMPREF1058_RS07560 0.41 +0.7
191,303 + HMPREF1058_RS07560 0.41 +1.9
191,304 - HMPREF1058_RS07560 0.41 -2.6
191,304 - HMPREF1058_RS07560 0.41 +0.9
191,304 - HMPREF1058_RS07560 0.41 -1.5
191,304 - HMPREF1058_RS07560 0.41 +0.4
191,305 + HMPREF1058_RS07560 0.41 -2.1
191,305 + HMPREF1058_RS07560 0.41 +0.2
191,305 + HMPREF1058_RS07560 0.41 +0.0
191,305 + HMPREF1058_RS07560 0.41 +1.0
191,306 - HMPREF1058_RS07560 0.41 -0.3
191,306 - HMPREF1058_RS07560 0.41 -0.4
191,306 - HMPREF1058_RS07560 0.41 -0.8
191,306 - HMPREF1058_RS07560 0.41 +2.8
191,312 + HMPREF1058_RS07560 0.42 +0.0
191,313 - HMPREF1058_RS07560 0.42 +0.2
191,411 - HMPREF1058_RS07560 0.51 +2.0
191,440 + HMPREF1058_RS07560 0.53 -0.3
191,441 - HMPREF1058_RS07560 0.53 -2.5
191,441 - HMPREF1058_RS07560 0.53 +1.0
191,530 + HMPREF1058_RS07560 0.61 +1.2
191,537 + HMPREF1058_RS07560 0.61 -0.4
191,537 + HMPREF1058_RS07560 0.61 +0.2
191,592 - HMPREF1058_RS07560 0.66 +2.7
191,638 - HMPREF1058_RS07560 0.70 +2.1
191,658 - HMPREF1058_RS07560 0.72 +2.6
191,725 - HMPREF1058_RS07560 0.77 +1.6
191,791 - HMPREF1058_RS07560 0.83 +1.8
191,794 - HMPREF1058_RS07560 0.83 +0.7
191,846 + HMPREF1058_RS07560 0.88 +0.4
191,907 - -0.2
191,937 + -2.1
191,979 + -2.3
191,998 - +2.5
192,068 + -0.4
192,068 + +1.8
192,134 - HMPREF1058_RS07555 0.16 +0.4
192,215 - HMPREF1058_RS07555 0.25 +0.3
192,272 + HMPREF1058_RS07555 0.32 +0.2
192,412 - HMPREF1058_RS07555 0.48 -3.1
192,441 + HMPREF1058_RS07555 0.51 -2.4
192,511 + HMPREF1058_RS07555 0.59 -2.8
192,525 - HMPREF1058_RS07555 0.61 -1.4
192,564 - HMPREF1058_RS07555 0.66 +0.2
192,634 - HMPREF1058_RS07555 0.74 -0.4
192,666 + HMPREF1058_RS07555 0.77 -1.4
192,709 - HMPREF1058_RS07555 0.82 +3.3
192,709 - HMPREF1058_RS07555 0.82 -4.1
192,748 + HMPREF1058_RS07555 0.87 -0.8
192,781 + -1.4
192,868 - -0.4
192,952 - -0.5
192,985 - +0.8

Or see this region's nucleotide sequence