Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS00960

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; 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 ntHMPREF1078_RS00955 and HMPREF1078_RS00960 are separated by 75 nucleotidesHMPREF1078_RS00960 and HMPREF1078_RS00965 overlap by 4 nucleotides HMPREF1078_RS00955: HMPREF1078_RS00955 - V-type ATP synthase subunit B, at 233,709 to 235,028 _RS00955 HMPREF1078_RS00960: HMPREF1078_RS00960 - V-type ATP synthase subunit D, at 235,104 to 235,727 _RS00960 HMPREF1078_RS00965: HMPREF1078_RS00965 - V-type ATPase 116kDa subunit family protein, at 235,724 to 237,544 _RS00965 Position (kb) 235 236Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 234.116 kb on + strand, within HMPREF1078_RS00955at 234.117 kb on - strand, within HMPREF1078_RS00955at 234.117 kb on - strand, within HMPREF1078_RS00955at 234.124 kb on + strand, within HMPREF1078_RS00955at 234.178 kb on + strand, within HMPREF1078_RS00955at 234.178 kb on + strand, within HMPREF1078_RS00955at 234.219 kb on - strand, within HMPREF1078_RS00955at 234.252 kb on + strand, within HMPREF1078_RS00955at 234.269 kb on + strand, within HMPREF1078_RS00955at 234.270 kb on - strand, within HMPREF1078_RS00955at 234.270 kb on - strand, within HMPREF1078_RS00955at 234.275 kb on + strand, within HMPREF1078_RS00955at 234.299 kb on + strand, within HMPREF1078_RS00955at 234.311 kb on + strand, within HMPREF1078_RS00955at 234.337 kb on + strand, within HMPREF1078_RS00955at 234.338 kb on - strand, within HMPREF1078_RS00955at 234.338 kb on - strand, within HMPREF1078_RS00955at 234.344 kb on + strand, within HMPREF1078_RS00955at 234.345 kb on - strand, within HMPREF1078_RS00955at 234.379 kb on - strand, within HMPREF1078_RS00955at 234.439 kb on - strand, within HMPREF1078_RS00955at 234.632 kb on + strand, within HMPREF1078_RS00955at 234.633 kb on - strand, within HMPREF1078_RS00955at 234.633 kb on - strand, within HMPREF1078_RS00955at 234.633 kb on - strand, within HMPREF1078_RS00955at 234.639 kb on + strand, within HMPREF1078_RS00955at 234.639 kb on + strand, within HMPREF1078_RS00955at 234.639 kb on + strand, within HMPREF1078_RS00955at 234.639 kb on + strand, within HMPREF1078_RS00955at 234.640 kb on - strand, within HMPREF1078_RS00955at 234.640 kb on - strand, within HMPREF1078_RS00955at 234.661 kb on - strand, within HMPREF1078_RS00955at 234.675 kb on - strand, within HMPREF1078_RS00955at 234.796 kb on - strand, within HMPREF1078_RS00955at 234.863 kb on + strand, within HMPREF1078_RS00955at 234.863 kb on + strand, within HMPREF1078_RS00955at 234.864 kb on - strand, within HMPREF1078_RS00955at 234.864 kb on - strand, within HMPREF1078_RS00955at 234.886 kb on - strand, within HMPREF1078_RS00955at 235.056 kb on + strandat 235.069 kb on + strandat 235.070 kb on - strandat 235.070 kb on - strandat 235.070 kb on - strandat 235.070 kb on - strandat 235.090 kb on + strandat 235.090 kb on + strandat 235.090 kb on + strandat 235.091 kb on - strandat 235.096 kb on + strandat 235.097 kb on - strandat 235.580 kb on - strand, within HMPREF1078_RS00960at 235.595 kb on + strand, within HMPREF1078_RS00960at 235.596 kb on - strand, within HMPREF1078_RS00960at 235.676 kb on + strandat 235.692 kb on - strandat 235.724 kb on - strandat 235.729 kb on - strandat 235.731 kb on + strandat 235.745 kb on + strandat 235.746 kb on - strandat 235.758 kb on + strandat 235.759 kb on - strandat 235.760 kb on + strandat 235.761 kb on - strandat 235.765 kb on + strandat 235.766 kb on - strandat 235.766 kb on - strandat 235.772 kb on + strandat 235.772 kb on + strandat 235.773 kb on - strandat 235.854 kb on + strandat 235.884 kb on + strandat 235.885 kb on - strandat 235.885 kb on - strandat 235.885 kb on - strandat 235.885 kb on - strandat 235.885 kb on - strandat 235.888 kb on + strandat 235.889 kb on - strandat 236.026 kb on - strand, within HMPREF1078_RS00965at 236.026 kb on - strand, within HMPREF1078_RS00965at 236.063 kb on + strand, within HMPREF1078_RS00965at 236.063 kb on + strand, within HMPREF1078_RS00965at 236.063 kb on + strand, within HMPREF1078_RS00965at 236.065 kb on + strand, within HMPREF1078_RS00965at 236.065 kb on + strand, within HMPREF1078_RS00965at 236.065 kb on + strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.066 kb on - strand, within HMPREF1078_RS00965at 236.070 kb on - strand, within HMPREF1078_RS00965at 236.090 kb on + strand, within HMPREF1078_RS00965at 236.091 kb on - strand, within HMPREF1078_RS00965at 236.099 kb on - strand, within HMPREF1078_RS00965at 236.159 kb on + strand, within HMPREF1078_RS00965at 236.160 kb on - strand, within HMPREF1078_RS00965at 236.167 kb on + strand, within HMPREF1078_RS00965at 236.184 kb on - strand, within HMPREF1078_RS00965at 236.184 kb on - strand, within HMPREF1078_RS00965at 236.184 kb on - strand, within HMPREF1078_RS00965at 236.338 kb on + strand, within HMPREF1078_RS00965at 236.338 kb on + strand, within HMPREF1078_RS00965at 236.338 kb on + strand, within HMPREF1078_RS00965at 236.339 kb on - strand, within HMPREF1078_RS00965at 236.350 kb on + strand, within HMPREF1078_RS00965at 236.369 kb on + strand, within HMPREF1078_RS00965at 236.370 kb on - strand, within HMPREF1078_RS00965at 236.370 kb on - strand, within HMPREF1078_RS00965at 236.384 kb on + strand, within HMPREF1078_RS00965at 236.384 kb on + strand, within HMPREF1078_RS00965at 236.384 kb on + strand, within HMPREF1078_RS00965at 236.385 kb on - strand, within HMPREF1078_RS00965at 236.385 kb on - strand, within HMPREF1078_RS00965at 236.385 kb on - strand, within HMPREF1078_RS00965at 236.389 kb on + strand, within HMPREF1078_RS00965at 236.389 kb on + strand, within HMPREF1078_RS00965at 236.397 kb on + strand, within HMPREF1078_RS00965at 236.398 kb on - strand, within HMPREF1078_RS00965at 236.440 kb on + strand, within HMPREF1078_RS00965at 236.441 kb on - strand, within HMPREF1078_RS00965at 236.549 kb on + strand, within HMPREF1078_RS00965at 236.550 kb on - strand, within HMPREF1078_RS00965at 236.571 kb on + strand, within HMPREF1078_RS00965at 236.571 kb on + strand, within HMPREF1078_RS00965at 236.572 kb on - strand, within HMPREF1078_RS00965at 236.663 kb on + strand, within HMPREF1078_RS00965

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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234,116 + HMPREF1078_RS00955 0.31 -0.9
234,117 - HMPREF1078_RS00955 0.31 -1.9
234,117 - HMPREF1078_RS00955 0.31 -1.9
234,124 + HMPREF1078_RS00955 0.31 -3.0
234,178 + HMPREF1078_RS00955 0.36 -2.0
234,178 + HMPREF1078_RS00955 0.36 -0.6
234,219 - HMPREF1078_RS00955 0.39 -1.4
234,252 + HMPREF1078_RS00955 0.41 +0.1
234,269 + HMPREF1078_RS00955 0.42 -2.7
234,270 - HMPREF1078_RS00955 0.42 -1.0
234,270 - HMPREF1078_RS00955 0.42 -1.9
234,275 + HMPREF1078_RS00955 0.43 -0.2
234,299 + HMPREF1078_RS00955 0.45 +0.4
234,311 + HMPREF1078_RS00955 0.46 -1.9
234,337 + HMPREF1078_RS00955 0.48 -2.0
234,338 - HMPREF1078_RS00955 0.48 -0.0
234,338 - HMPREF1078_RS00955 0.48 +0.4
234,344 + HMPREF1078_RS00955 0.48 -2.5
234,345 - HMPREF1078_RS00955 0.48 -0.6
234,379 - HMPREF1078_RS00955 0.51 -2.1
234,439 - HMPREF1078_RS00955 0.55 -0.6
234,632 + HMPREF1078_RS00955 0.70 -1.1
234,633 - HMPREF1078_RS00955 0.70 -2.4
234,633 - HMPREF1078_RS00955 0.70 -2.5
234,633 - HMPREF1078_RS00955 0.70 -0.6
234,639 + HMPREF1078_RS00955 0.70 -1.5
234,639 + HMPREF1078_RS00955 0.70 -0.2
234,639 + HMPREF1078_RS00955 0.70 -0.6
234,639 + HMPREF1078_RS00955 0.70 -1.4
234,640 - HMPREF1078_RS00955 0.71 -0.7
234,640 - HMPREF1078_RS00955 0.71 -1.0
234,661 - HMPREF1078_RS00955 0.72 -2.4
234,675 - HMPREF1078_RS00955 0.73 -1.6
234,796 - HMPREF1078_RS00955 0.82 -3.1
234,863 + HMPREF1078_RS00955 0.87 -1.9
234,863 + HMPREF1078_RS00955 0.87 -1.9
234,864 - HMPREF1078_RS00955 0.88 -2.7
234,864 - HMPREF1078_RS00955 0.88 -0.7
234,886 - HMPREF1078_RS00955 0.89 -0.0
235,056 + -1.9
235,069 + -0.9
235,070 - +0.4
235,070 - -3.1
235,070 - -1.6
235,070 - -1.9
235,090 + -1.4
235,090 + -0.5
235,090 + -0.6
235,091 - -0.1
235,096 + -0.6
235,097 - -0.5
235,580 - HMPREF1078_RS00960 0.76 -2.1
235,595 + HMPREF1078_RS00960 0.79 -2.1
235,596 - HMPREF1078_RS00960 0.79 -0.1
235,676 + -2.1
235,692 - -2.5
235,724 - -1.9
235,729 - +0.4
235,731 + -0.6
235,745 + -1.6
235,746 - -2.8
235,758 + -0.3
235,759 - -0.9
235,760 + -1.4
235,761 - -2.1
235,765 + -1.0
235,766 - -2.8
235,766 - -0.1
235,772 + -2.8
235,772 + -1.2
235,773 - -2.9
235,854 + -0.8
235,884 + -0.8
235,885 - -2.1
235,885 - -0.1
235,885 - -1.6
235,885 - -0.9
235,885 - -0.4
235,888 + -1.0
235,889 - +0.5
236,026 - HMPREF1078_RS00965 0.17 -1.7
236,026 - HMPREF1078_RS00965 0.17 +0.5
236,063 + HMPREF1078_RS00965 0.19 -1.9
236,063 + HMPREF1078_RS00965 0.19 +0.0
236,063 + HMPREF1078_RS00965 0.19 -2.6
236,065 + HMPREF1078_RS00965 0.19 -1.4
236,065 + HMPREF1078_RS00965 0.19 -1.0
236,065 + HMPREF1078_RS00965 0.19 -2.2
236,066 - HMPREF1078_RS00965 0.19 -0.5
236,066 - HMPREF1078_RS00965 0.19 -1.6
236,066 - HMPREF1078_RS00965 0.19 -2.2
236,066 - HMPREF1078_RS00965 0.19 +0.2
236,066 - HMPREF1078_RS00965 0.19 -3.2
236,066 - HMPREF1078_RS00965 0.19 +1.0
236,070 - HMPREF1078_RS00965 0.19 -0.9
236,090 + HMPREF1078_RS00965 0.20 +0.1
236,091 - HMPREF1078_RS00965 0.20 -2.6
236,099 - HMPREF1078_RS00965 0.21 -3.8
236,159 + HMPREF1078_RS00965 0.24 -2.6
236,160 - HMPREF1078_RS00965 0.24 -1.4
236,167 + HMPREF1078_RS00965 0.24 -0.9
236,184 - HMPREF1078_RS00965 0.25 +0.6
236,184 - HMPREF1078_RS00965 0.25 +1.0
236,184 - HMPREF1078_RS00965 0.25 -1.4
236,338 + HMPREF1078_RS00965 0.34 -2.4
236,338 + HMPREF1078_RS00965 0.34 -2.5
236,338 + HMPREF1078_RS00965 0.34 -1.4
236,339 - HMPREF1078_RS00965 0.34 -0.0
236,350 + HMPREF1078_RS00965 0.34 -0.0
236,369 + HMPREF1078_RS00965 0.35 -1.4
236,370 - HMPREF1078_RS00965 0.35 -1.6
236,370 - HMPREF1078_RS00965 0.35 -1.0
236,384 + HMPREF1078_RS00965 0.36 -1.9
236,384 + HMPREF1078_RS00965 0.36 +1.0
236,384 + HMPREF1078_RS00965 0.36 -0.0
236,385 - HMPREF1078_RS00965 0.36 -2.6
236,385 - HMPREF1078_RS00965 0.36 -0.9
236,385 - HMPREF1078_RS00965 0.36 -1.0
236,389 + HMPREF1078_RS00965 0.37 -1.0
236,389 + HMPREF1078_RS00965 0.37 -0.6
236,397 + HMPREF1078_RS00965 0.37 +0.5
236,398 - HMPREF1078_RS00965 0.37 -1.0
236,440 + HMPREF1078_RS00965 0.39 -0.2
236,441 - HMPREF1078_RS00965 0.39 -0.0
236,549 + HMPREF1078_RS00965 0.45 -1.5
236,550 - HMPREF1078_RS00965 0.45 -2.2
236,571 + HMPREF1078_RS00965 0.47 -0.0
236,571 + HMPREF1078_RS00965 0.47 -1.7
236,572 - HMPREF1078_RS00965 0.47 +2.0
236,663 + HMPREF1078_RS00965 0.52 -0.9

Or see this region's nucleotide sequence