Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04935

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4

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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_RS04925 and HMPREF1078_RS04930 are separated by 85 nucleotidesHMPREF1078_RS04930 and HMPREF1078_RS04935 are separated by 154 nucleotidesHMPREF1078_RS04935 and HMPREF1078_RS04940 are separated by 4 nucleotidesHMPREF1078_RS04940 and HMPREF1078_RS19520 are separated by 96 nucleotides HMPREF1078_RS04925: HMPREF1078_RS04925 - elongation factor P, at 241,039 to 241,602 _RS04925 HMPREF1078_RS04930: HMPREF1078_RS04930 - DNA repair protein RadC, at 241,688 to 242,368 _RS04930 HMPREF1078_RS04935: HMPREF1078_RS04935 - iron-sulfur cluster assembly protein, at 242,523 to 242,840 _RS04935 HMPREF1078_RS04940: HMPREF1078_RS04940 - UDP-2,3-diacylglucosamine diphosphatase, at 242,845 to 243,621 _RS04940 HMPREF1078_RS19520: HMPREF1078_RS19520 - hypothetical protein, at 243,718 to 243,948 _RS19520 Position (kb) 242 243Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 241.566 kb on + strandat 241.566 kb on + strandat 241.582 kb on + strandat 241.583 kb on - strandat 241.583 kb on - strandat 241.586 kb on + strandat 241.587 kb on - strandat 241.594 kb on - strandat 241.605 kb on + strandat 241.606 kb on - strandat 241.607 kb on + strandat 241.608 kb on - strandat 241.614 kb on + strandat 241.614 kb on + strandat 241.615 kb on - strandat 241.615 kb on - strandat 241.615 kb on - strandat 241.621 kb on + strandat 241.622 kb on - strandat 241.628 kb on + strandat 241.631 kb on - strandat 241.643 kb on + strandat 241.643 kb on + strandat 241.644 kb on - strandat 241.644 kb on - strandat 241.651 kb on - strandat 241.657 kb on + strandat 241.657 kb on + strandat 241.658 kb on - strandat 241.688 kb on - strandat 241.688 kb on - strandat 241.695 kb on + strandat 241.737 kb on + strandat 241.747 kb on + strandat 241.748 kb on - strandat 241.748 kb on - strandat 241.774 kb on - strand, within HMPREF1078_RS04930at 241.852 kb on + strand, within HMPREF1078_RS04930at 241.852 kb on + strand, within HMPREF1078_RS04930at 241.855 kb on + strand, within HMPREF1078_RS04930at 241.900 kb on + strand, within HMPREF1078_RS04930at 241.930 kb on + strand, within HMPREF1078_RS04930at 241.931 kb on - strand, within HMPREF1078_RS04930at 241.931 kb on - strand, within HMPREF1078_RS04930at 241.931 kb on - strand, within HMPREF1078_RS04930at 242.212 kb on + strand, within HMPREF1078_RS04930at 242.299 kb on - strand, within HMPREF1078_RS04930at 242.299 kb on - strand, within HMPREF1078_RS04930at 242.307 kb on + strandat 242.314 kb on + strandat 242.315 kb on - strandat 242.315 kb on - strandat 242.315 kb on - strandat 242.337 kb on - strandat 242.337 kb on - strandat 242.337 kb on - strandat 242.337 kb on - strandat 242.345 kb on + strandat 242.346 kb on - strandat 242.371 kb on + strandat 242.377 kb on + strandat 242.385 kb on - strandat 242.393 kb on + strandat 242.393 kb on + strandat 242.400 kb on - strandat 242.459 kb on - strandat 242.497 kb on + strandat 242.497 kb on + strandat 242.522 kb on + strandat 242.570 kb on + strand, within HMPREF1078_RS04935at 242.578 kb on + strand, within HMPREF1078_RS04935at 242.625 kb on + strand, within HMPREF1078_RS04935at 242.625 kb on + strand, within HMPREF1078_RS04935at 242.632 kb on + strand, within HMPREF1078_RS04935at 242.632 kb on + strand, within HMPREF1078_RS04935at 242.632 kb on + strand, within HMPREF1078_RS04935at 242.638 kb on + strand, within HMPREF1078_RS04935at 242.731 kb on + strand, within HMPREF1078_RS04935at 243.597 kb on + strandat 243.645 kb on - strandat 243.645 kb on - strandat 243.654 kb on + strandat 243.654 kb on + strandat 243.663 kb on - strandat 243.670 kb on + strandat 243.671 kb on - strandat 243.674 kb on - strandat 243.677 kb on + strandat 243.678 kb on - strandat 243.696 kb on + strandat 243.708 kb on - strandat 243.710 kb on - strandat 243.739 kb on - strandat 243.753 kb on + strand, within HMPREF1078_RS19520at 243.785 kb on - strand, within HMPREF1078_RS19520at 243.799 kb on + strand, within HMPREF1078_RS19520at 243.800 kb on - strand, within HMPREF1078_RS19520at 243.800 kb on - strand, within HMPREF1078_RS19520

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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241,566 + +1.1
241,566 + -1.5
241,582 + -1.7
241,583 - -0.5
241,583 - -1.7
241,586 + -2.2
241,587 - -0.9
241,594 - -3.0
241,605 + +0.5
241,606 - +1.0
241,607 + +0.1
241,608 - -1.2
241,614 + -0.1
241,614 + -0.5
241,615 - -0.5
241,615 - +0.7
241,615 - -1.3
241,621 + +2.8
241,622 - -1.9
241,628 + -1.1
241,631 - +1.7
241,643 + -0.2
241,643 + -1.5
241,644 - -0.7
241,644 - -1.8
241,651 - -2.0
241,657 + +1.1
241,657 + -1.3
241,658 - +0.4
241,688 - +1.3
241,688 - +1.4
241,695 + +0.0
241,737 + -0.2
241,747 + -0.3
241,748 - -1.3
241,748 - -0.2
241,774 - HMPREF1078_RS04930 0.13 -0.4
241,852 + HMPREF1078_RS04930 0.24 -0.1
241,852 + HMPREF1078_RS04930 0.24 +0.3
241,855 + HMPREF1078_RS04930 0.25 +0.5
241,900 + HMPREF1078_RS04930 0.31 +1.9
241,930 + HMPREF1078_RS04930 0.36 -0.1
241,931 - HMPREF1078_RS04930 0.36 -2.2
241,931 - HMPREF1078_RS04930 0.36 +1.1
241,931 - HMPREF1078_RS04930 0.36 +2.0
242,212 + HMPREF1078_RS04930 0.77 +1.4
242,299 - HMPREF1078_RS04930 0.90 -0.4
242,299 - HMPREF1078_RS04930 0.90 +0.7
242,307 + +0.5
242,314 + -2.1
242,315 - -1.7
242,315 - +1.7
242,315 - +0.6
242,337 - +0.3
242,337 - -0.5
242,337 - +1.2
242,337 - -1.1
242,345 + -0.5
242,346 - -0.6
242,371 + +0.7
242,377 + -2.8
242,385 - -0.3
242,393 + -0.5
242,393 + -1.5
242,400 - -0.9
242,459 - +0.9
242,497 + -2.7
242,497 + -0.2
242,522 + -0.2
242,570 + HMPREF1078_RS04935 0.15 -0.0
242,578 + HMPREF1078_RS04935 0.17 -0.6
242,625 + HMPREF1078_RS04935 0.32 -1.8
242,625 + HMPREF1078_RS04935 0.32 -3.0
242,632 + HMPREF1078_RS04935 0.34 -1.9
242,632 + HMPREF1078_RS04935 0.34 -0.9
242,632 + HMPREF1078_RS04935 0.34 -2.4
242,638 + HMPREF1078_RS04935 0.36 -1.9
242,731 + HMPREF1078_RS04935 0.65 -2.0
243,597 + -2.0
243,645 - -0.5
243,645 - +1.1
243,654 + -0.6
243,654 + -0.9
243,663 - +0.8
243,670 + -0.6
243,671 - -0.2
243,674 - -0.2
243,677 + -0.7
243,678 - -1.2
243,696 + +0.5
243,708 - +1.1
243,710 - +0.8
243,739 - -1.5
243,753 + HMPREF1078_RS19520 0.15 -0.5
243,785 - HMPREF1078_RS19520 0.29 -0.4
243,799 + HMPREF1078_RS19520 0.35 -0.9
243,800 - HMPREF1078_RS19520 0.35 -0.3
243,800 - HMPREF1078_RS19520 0.35 +0.4

Or see this region's nucleotide sequence