Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS08065

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse18; day5

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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_RS08060 and HMPREF1078_RS08065 are separated by 132 nucleotidesHMPREF1078_RS08065 and HMPREF1078_RS08070 overlap by 4 nucleotides HMPREF1078_RS08060: HMPREF1078_RS08060 - AAA domain-containing protein, at 174,270 to 176,189 _RS08060 HMPREF1078_RS08065: HMPREF1078_RS08065 - Cof-type HAD-IIB family hydrolase, at 176,322 to 177,554 _RS08065 HMPREF1078_RS08070: HMPREF1078_RS08070 - isochorismate synthase, at 177,551 to 178,672 _RS08070 Position (kb) 176 177 178Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 175.365 kb on - strand, within HMPREF1078_RS08060at 175.435 kb on + strand, within HMPREF1078_RS08060at 175.611 kb on + strand, within HMPREF1078_RS08060at 175.671 kb on - strand, within HMPREF1078_RS08060at 175.743 kb on - strand, within HMPREF1078_RS08060at 175.749 kb on - strand, within HMPREF1078_RS08060at 175.760 kb on + strand, within HMPREF1078_RS08060at 175.761 kb on - strand, within HMPREF1078_RS08060at 175.788 kb on + strand, within HMPREF1078_RS08060at 175.788 kb on + strand, within HMPREF1078_RS08060at 175.791 kb on - strand, within HMPREF1078_RS08060at 175.817 kb on - strand, within HMPREF1078_RS08060at 175.854 kb on + strand, within HMPREF1078_RS08060at 175.872 kb on + strand, within HMPREF1078_RS08060at 175.991 kb on - strand, within HMPREF1078_RS08060at 176.101 kb on + strandat 176.128 kb on + strandat 176.130 kb on + strandat 176.135 kb on - strandat 176.136 kb on + strandat 176.136 kb on + strandat 176.137 kb on - strandat 176.139 kb on - strandat 176.197 kb on - strandat 176.197 kb on - strandat 176.204 kb on + strandat 176.251 kb on - strandat 176.286 kb on + strandat 176.295 kb on - strandat 176.295 kb on - strandat 176.311 kb on - strandat 176.328 kb on + strandat 176.329 kb on - strandat 176.335 kb on + strandat 176.338 kb on + strandat 176.417 kb on - strandat 176.417 kb on - strandat 176.431 kb on + strandat 176.431 kb on + strandat 176.432 kb on - strandat 176.432 kb on - strandat 176.432 kb on - strandat 176.432 kb on - strandat 176.435 kb on + strandat 176.435 kb on + strandat 176.435 kb on + strandat 176.435 kb on + strandat 176.435 kb on + strandat 176.436 kb on - strandat 176.440 kb on + strandat 176.441 kb on - strandat 176.514 kb on + strand, within HMPREF1078_RS08065at 176.527 kb on - strand, within HMPREF1078_RS08065at 176.691 kb on + strand, within HMPREF1078_RS08065at 176.691 kb on + strand, within HMPREF1078_RS08065at 176.692 kb on - strand, within HMPREF1078_RS08065at 176.780 kb on + strand, within HMPREF1078_RS08065at 176.884 kb on + strand, within HMPREF1078_RS08065at 177.136 kb on + strand, within HMPREF1078_RS08065at 177.136 kb on + strand, within HMPREF1078_RS08065at 177.137 kb on - strand, within HMPREF1078_RS08065at 177.170 kb on + strand, within HMPREF1078_RS08065at 177.191 kb on - strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.215 kb on + strand, within HMPREF1078_RS08065at 177.216 kb on - strand, within HMPREF1078_RS08065at 177.216 kb on - strand, within HMPREF1078_RS08065at 177.216 kb on - strand, within HMPREF1078_RS08065at 177.216 kb on - strand, within HMPREF1078_RS08065at 177.216 kb on - strand, within HMPREF1078_RS08065at 177.219 kb on + strand, within HMPREF1078_RS08065at 177.219 kb on + strand, within HMPREF1078_RS08065at 177.219 kb on + strand, within HMPREF1078_RS08065at 177.219 kb on + strand, within HMPREF1078_RS08065at 177.220 kb on - strand, within HMPREF1078_RS08065at 177.220 kb on - strand, within HMPREF1078_RS08065at 177.220 kb on - strand, within HMPREF1078_RS08065at 177.220 kb on - strand, within HMPREF1078_RS08065at 177.220 kb on - strand, within HMPREF1078_RS08065at 177.238 kb on + strand, within HMPREF1078_RS08065at 177.289 kb on + strand, within HMPREF1078_RS08065at 177.289 kb on + strand, within HMPREF1078_RS08065at 177.290 kb on - strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.398 kb on + strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.399 kb on - strand, within HMPREF1078_RS08065at 177.423 kb on - strand, within HMPREF1078_RS08065at 177.487 kb on + strandat 177.487 kb on + strandat 177.487 kb on + strandat 177.488 kb on - strandat 177.539 kb on - strandat 177.679 kb on + strand, within HMPREF1078_RS08070at 177.679 kb on + strand, within HMPREF1078_RS08070at 177.691 kb on + strand, within HMPREF1078_RS08070at 177.762 kb on + strand, within HMPREF1078_RS08070at 177.762 kb on + strand, within HMPREF1078_RS08070at 177.763 kb on - strand, within HMPREF1078_RS08070at 177.818 kb on + strand, within HMPREF1078_RS08070at 178.034 kb on + strand, within HMPREF1078_RS08070at 178.040 kb on + strand, within HMPREF1078_RS08070at 178.041 kb on - strand, within HMPREF1078_RS08070at 178.047 kb on - strand, within HMPREF1078_RS08070at 178.063 kb on + strand, within HMPREF1078_RS08070at 178.136 kb on - strand, within HMPREF1078_RS08070at 178.136 kb on - strand, within HMPREF1078_RS08070at 178.136 kb on - strand, within HMPREF1078_RS08070at 178.179 kb on + strand, within HMPREF1078_RS08070at 178.179 kb on + strand, within HMPREF1078_RS08070at 178.180 kb on - strand, within HMPREF1078_RS08070at 178.220 kb on + strand, within HMPREF1078_RS08070at 178.220 kb on + strand, within HMPREF1078_RS08070at 178.225 kb on - strand, within HMPREF1078_RS08070at 178.233 kb on - strand, within HMPREF1078_RS08070at 178.233 kb on - strand, within HMPREF1078_RS08070at 178.237 kb on - strand, within HMPREF1078_RS08070at 178.447 kb on - strand, within HMPREF1078_RS08070at 178.464 kb on - strand, within HMPREF1078_RS08070at 178.464 kb on - strand, within HMPREF1078_RS08070at 178.466 kb on + strand, within HMPREF1078_RS08070at 178.514 kb on + strand, within HMPREF1078_RS08070at 178.515 kb on - strand, within HMPREF1078_RS08070at 178.515 kb on - strand, within HMPREF1078_RS08070

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse18; day5
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175,365 - HMPREF1078_RS08060 0.57 -1.6
175,435 + HMPREF1078_RS08060 0.61 +1.5
175,611 + HMPREF1078_RS08060 0.70 -0.5
175,671 - HMPREF1078_RS08060 0.73 -0.1
175,743 - HMPREF1078_RS08060 0.77 -0.7
175,749 - HMPREF1078_RS08060 0.77 -0.3
175,760 + HMPREF1078_RS08060 0.78 -1.0
175,761 - HMPREF1078_RS08060 0.78 +1.1
175,788 + HMPREF1078_RS08060 0.79 -2.3
175,788 + HMPREF1078_RS08060 0.79 +1.5
175,791 - HMPREF1078_RS08060 0.79 -1.5
175,817 - HMPREF1078_RS08060 0.81 -1.0
175,854 + HMPREF1078_RS08060 0.82 -0.8
175,872 + HMPREF1078_RS08060 0.83 -0.5
175,991 - HMPREF1078_RS08060 0.90 +0.5
176,101 + +1.2
176,128 + -0.8
176,130 + +0.8
176,135 - +0.5
176,136 + +0.8
176,136 + -0.3
176,137 - +1.5
176,139 - +0.8
176,197 - -1.3
176,197 - +0.5
176,204 + -0.3
176,251 - -0.8
176,286 + -0.1
176,295 - +0.5
176,295 - -2.4
176,311 - -0.4
176,328 + +0.7
176,329 - -1.5
176,335 + +1.1
176,338 + -1.8
176,417 - -1.1
176,417 - +0.0
176,431 + +1.2
176,431 + -1.5
176,432 - +0.5
176,432 - -1.5
176,432 - -1.3
176,432 - +1.4
176,435 + -1.1
176,435 + -1.0
176,435 + +2.7
176,435 + -2.2
176,435 + +1.9
176,436 - +0.0
176,440 + +0.5
176,441 - -0.5
176,514 + HMPREF1078_RS08065 0.16 -2.3
176,527 - HMPREF1078_RS08065 0.17 +4.7
176,691 + HMPREF1078_RS08065 0.30 -2.0
176,691 + HMPREF1078_RS08065 0.30 -2.2
176,692 - HMPREF1078_RS08065 0.30 -0.4
176,780 + HMPREF1078_RS08065 0.37 +1.6
176,884 + HMPREF1078_RS08065 0.46 -1.8
177,136 + HMPREF1078_RS08065 0.66 -1.8
177,136 + HMPREF1078_RS08065 0.66 -0.8
177,137 - HMPREF1078_RS08065 0.66 +0.3
177,170 + HMPREF1078_RS08065 0.69 -1.4
177,191 - HMPREF1078_RS08065 0.70 +0.0
177,215 + HMPREF1078_RS08065 0.72 -0.1
177,215 + HMPREF1078_RS08065 0.72 +1.5
177,215 + HMPREF1078_RS08065 0.72 -2.0
177,215 + HMPREF1078_RS08065 0.72 -0.7
177,215 + HMPREF1078_RS08065 0.72 -1.3
177,215 + HMPREF1078_RS08065 0.72 -3.2
177,215 + HMPREF1078_RS08065 0.72 -2.5
177,215 + HMPREF1078_RS08065 0.72 -0.4
177,215 + HMPREF1078_RS08065 0.72 +0.5
177,216 - HMPREF1078_RS08065 0.73 -0.1
177,216 - HMPREF1078_RS08065 0.73 -0.1
177,216 - HMPREF1078_RS08065 0.73 -1.0
177,216 - HMPREF1078_RS08065 0.73 -1.4
177,216 - HMPREF1078_RS08065 0.73 +1.5
177,219 + HMPREF1078_RS08065 0.73 -2.0
177,219 + HMPREF1078_RS08065 0.73 -2.8
177,219 + HMPREF1078_RS08065 0.73 -0.5
177,219 + HMPREF1078_RS08065 0.73 -0.8
177,220 - HMPREF1078_RS08065 0.73 +0.5
177,220 - HMPREF1078_RS08065 0.73 -2.7
177,220 - HMPREF1078_RS08065 0.73 -1.1
177,220 - HMPREF1078_RS08065 0.73 -0.5
177,220 - HMPREF1078_RS08065 0.73 -0.7
177,238 + HMPREF1078_RS08065 0.74 -3.7
177,289 + HMPREF1078_RS08065 0.78 -1.5
177,289 + HMPREF1078_RS08065 0.78 -1.3
177,290 - HMPREF1078_RS08065 0.79 -0.7
177,398 + HMPREF1078_RS08065 0.87 +1.5
177,398 + HMPREF1078_RS08065 0.87 -3.0
177,398 + HMPREF1078_RS08065 0.87 -2.7
177,398 + HMPREF1078_RS08065 0.87 -1.0
177,398 + HMPREF1078_RS08065 0.87 -3.3
177,398 + HMPREF1078_RS08065 0.87 -1.2
177,399 - HMPREF1078_RS08065 0.87 -0.1
177,399 - HMPREF1078_RS08065 0.87 -1.5
177,399 - HMPREF1078_RS08065 0.87 -1.5
177,399 - HMPREF1078_RS08065 0.87 -1.4
177,399 - HMPREF1078_RS08065 0.87 -0.5
177,399 - HMPREF1078_RS08065 0.87 +1.6
177,399 - HMPREF1078_RS08065 0.87 +0.8
177,423 - HMPREF1078_RS08065 0.89 -0.1
177,487 + -2.3
177,487 + +0.4
177,487 + -0.5
177,488 - -0.4
177,539 - -0.1
177,679 + HMPREF1078_RS08070 0.11 -1.5
177,679 + HMPREF1078_RS08070 0.11 -0.5
177,691 + HMPREF1078_RS08070 0.12 -0.7
177,762 + HMPREF1078_RS08070 0.19 -1.5
177,762 + HMPREF1078_RS08070 0.19 +0.4
177,763 - HMPREF1078_RS08070 0.19 +0.3
177,818 + HMPREF1078_RS08070 0.24 +0.6
178,034 + HMPREF1078_RS08070 0.43 +0.5
178,040 + HMPREF1078_RS08070 0.44 -2.5
178,041 - HMPREF1078_RS08070 0.44 -0.6
178,047 - HMPREF1078_RS08070 0.44 +1.9
178,063 + HMPREF1078_RS08070 0.46 -1.8
178,136 - HMPREF1078_RS08070 0.52 -1.8
178,136 - HMPREF1078_RS08070 0.52 -1.3
178,136 - HMPREF1078_RS08070 0.52 -0.8
178,179 + HMPREF1078_RS08070 0.56 +0.2
178,179 + HMPREF1078_RS08070 0.56 -0.3
178,180 - HMPREF1078_RS08070 0.56 -0.1
178,220 + HMPREF1078_RS08070 0.60 +0.9
178,220 + HMPREF1078_RS08070 0.60 -2.9
178,225 - HMPREF1078_RS08070 0.60 -2.4
178,233 - HMPREF1078_RS08070 0.61 -0.7
178,233 - HMPREF1078_RS08070 0.61 -1.3
178,237 - HMPREF1078_RS08070 0.61 +0.1
178,447 - HMPREF1078_RS08070 0.80 +3.1
178,464 - HMPREF1078_RS08070 0.81 -0.8
178,464 - HMPREF1078_RS08070 0.81 +0.9
178,466 + HMPREF1078_RS08070 0.82 -1.3
178,514 + HMPREF1078_RS08070 0.86 +1.0
178,515 - HMPREF1078_RS08070 0.86 +0.8
178,515 - HMPREF1078_RS08070 0.86 -1.5

Or see this region's nucleotide sequence