Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS03550

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day7

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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_RS03540 and HMPREF1078_RS18385 overlap by 64 nucleotidesHMPREF1078_RS18385 and HMPREF1078_RS03550 are separated by 126 nucleotidesHMPREF1078_RS03550 and HMPREF1078_RS18390 are separated by 221 nucleotidesHMPREF1078_RS18390 and HMPREF1078_RS03560 are separated by 436 nucleotides HMPREF1078_RS03540: HMPREF1078_RS03540 - DUF3737 family protein, at 831,305 to 832,204 _RS03540 HMPREF1078_RS18385: HMPREF1078_RS18385 - MATE family efflux transporter, at 832,141 to 832,388 _RS18385 HMPREF1078_RS03550: HMPREF1078_RS03550 - MalY/PatB family protein, at 832,515 to 833,681 _RS03550 HMPREF1078_RS18390: HMPREF1078_RS18390 - DUF4248 domain-containing protein, at 833,903 to 834,126 _RS18390 HMPREF1078_RS03560: HMPREF1078_RS03560 - 3'-5' exonuclease, at 834,563 to 836,875 _RS03560 Position (kb) 832 833 834Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 831.533 kb on + strand, within HMPREF1078_RS03540at 831.559 kb on + strand, within HMPREF1078_RS03540at 831.560 kb on - strand, within HMPREF1078_RS03540at 831.560 kb on - strand, within HMPREF1078_RS03540at 831.560 kb on - strand, within HMPREF1078_RS03540at 831.619 kb on - strand, within HMPREF1078_RS03540at 831.619 kb on - strand, within HMPREF1078_RS03540at 831.706 kb on + strand, within HMPREF1078_RS03540at 831.727 kb on + strand, within HMPREF1078_RS03540at 831.728 kb on - strand, within HMPREF1078_RS03540at 831.729 kb on + strand, within HMPREF1078_RS03540at 831.729 kb on + strand, within HMPREF1078_RS03540at 831.730 kb on - strand, within HMPREF1078_RS03540at 831.845 kb on + strand, within HMPREF1078_RS03540at 831.905 kb on + strand, within HMPREF1078_RS03540at 831.938 kb on + strand, within HMPREF1078_RS03540at 832.002 kb on - strand, within HMPREF1078_RS03540at 832.169 kb on - strandat 832.200 kb on + strandat 832.316 kb on + strand, within HMPREF1078_RS18385at 832.350 kb on - strand, within HMPREF1078_RS18385at 832.361 kb on + strand, within HMPREF1078_RS18385at 832.362 kb on - strand, within HMPREF1078_RS18385at 832.396 kb on - strandat 832.419 kb on - strandat 832.420 kb on + strandat 832.420 kb on + strandat 832.478 kb on + strandat 832.521 kb on + strandat 832.594 kb on + strandat 832.595 kb on - strandat 832.601 kb on + strandat 832.601 kb on + strandat 832.601 kb on + strandat 832.602 kb on - strandat 832.602 kb on - strandat 832.621 kb on - strandat 832.640 kb on + strand, within HMPREF1078_RS03550at 832.708 kb on - strand, within HMPREF1078_RS03550at 832.756 kb on + strand, within HMPREF1078_RS03550at 832.756 kb on + strand, within HMPREF1078_RS03550at 832.757 kb on - strand, within HMPREF1078_RS03550at 832.757 kb on - strand, within HMPREF1078_RS03550at 832.864 kb on - strand, within HMPREF1078_RS03550at 833.350 kb on - strand, within HMPREF1078_RS03550at 833.403 kb on + strand, within HMPREF1078_RS03550at 833.404 kb on - strand, within HMPREF1078_RS03550at 833.410 kb on - strand, within HMPREF1078_RS03550at 833.473 kb on - strand, within HMPREF1078_RS03550at 833.575 kb on - strandat 833.612 kb on - strandat 833.654 kb on - strandat 833.752 kb on - strandat 833.811 kb on - strandat 833.811 kb on - strandat 833.811 kb on - strandat 833.831 kb on + strandat 833.846 kb on - strandat 833.872 kb on - strandat 833.887 kb on + strandat 833.888 kb on - strandat 834.030 kb on - strand, within HMPREF1078_RS18390at 834.264 kb on + strandat 834.264 kb on + strandat 834.264 kb on + strandat 834.281 kb on - strandat 834.281 kb on - strandat 834.283 kb on - strandat 834.283 kb on - strandat 834.283 kb on - strandat 834.291 kb on - strandat 834.291 kb on - strandat 834.293 kb on - strandat 834.293 kb on - strandat 834.293 kb on - strandat 834.293 kb on - strandat 834.293 kb on - strandat 834.293 kb on - strandat 834.310 kb on - strandat 834.347 kb on + strandat 834.382 kb on + strandat 834.459 kb on + strandat 834.460 kb on - strandat 834.506 kb on + strandat 834.507 kb on - strandat 834.522 kb on + strandat 834.525 kb on + strandat 834.525 kb on + strandat 834.525 kb on + strandat 834.526 kb on - strandat 834.531 kb on - strandat 834.543 kb on + strandat 834.544 kb on - strandat 834.672 kb on - strandat 834.672 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day7
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831,533 + HMPREF1078_RS03540 0.25 -1.8
831,559 + HMPREF1078_RS03540 0.28 -0.4
831,560 - HMPREF1078_RS03540 0.28 -2.5
831,560 - HMPREF1078_RS03540 0.28 +0.3
831,560 - HMPREF1078_RS03540 0.28 -1.2
831,619 - HMPREF1078_RS03540 0.35 +1.4
831,619 - HMPREF1078_RS03540 0.35 +0.4
831,706 + HMPREF1078_RS03540 0.45 +0.6
831,727 + HMPREF1078_RS03540 0.47 +0.3
831,728 - HMPREF1078_RS03540 0.47 -0.2
831,729 + HMPREF1078_RS03540 0.47 -0.4
831,729 + HMPREF1078_RS03540 0.47 +0.0
831,730 - HMPREF1078_RS03540 0.47 -0.6
831,845 + HMPREF1078_RS03540 0.60 +1.4
831,905 + HMPREF1078_RS03540 0.67 +0.2
831,938 + HMPREF1078_RS03540 0.70 +2.4
832,002 - HMPREF1078_RS03540 0.77 +0.4
832,169 - +1.1
832,200 + +2.4
832,316 + HMPREF1078_RS18385 0.71 -0.2
832,350 - HMPREF1078_RS18385 0.84 +2.4
832,361 + HMPREF1078_RS18385 0.89 +0.3
832,362 - HMPREF1078_RS18385 0.89 +0.4
832,396 - -0.1
832,419 - -0.8
832,420 + -0.5
832,420 + -0.3
832,478 + +0.4
832,521 + -1.1
832,594 + -0.2
832,595 - +1.4
832,601 + +0.0
832,601 + -0.4
832,601 + -0.5
832,602 - +2.8
832,602 - +0.8
832,621 - -0.4
832,640 + HMPREF1078_RS03550 0.11 +0.8
832,708 - HMPREF1078_RS03550 0.17 -2.5
832,756 + HMPREF1078_RS03550 0.21 +1.4
832,756 + HMPREF1078_RS03550 0.21 -1.0
832,757 - HMPREF1078_RS03550 0.21 +2.4
832,757 - HMPREF1078_RS03550 0.21 +1.4
832,864 - HMPREF1078_RS03550 0.30 +0.4
833,350 - HMPREF1078_RS03550 0.72 -0.7
833,403 + HMPREF1078_RS03550 0.76 +1.4
833,404 - HMPREF1078_RS03550 0.76 -0.8
833,410 - HMPREF1078_RS03550 0.77 +0.4
833,473 - HMPREF1078_RS03550 0.82 -0.1
833,575 - +0.4
833,612 - +0.5
833,654 - +2.8
833,752 - -0.3
833,811 - -0.1
833,811 - +0.1
833,811 - -1.0
833,831 + -2.4
833,846 - +0.0
833,872 - -1.4
833,887 + +0.4
833,888 - +0.8
834,030 - HMPREF1078_RS18390 0.57 +0.4
834,264 + -0.2
834,264 + +0.4
834,264 + +0.6
834,281 - -0.1
834,281 - +2.4
834,283 - +0.0
834,283 - +0.2
834,283 - +1.1
834,291 - -0.3
834,291 - -1.1
834,293 - +2.4
834,293 - +1.0
834,293 - -2.2
834,293 - +0.4
834,293 - +2.0
834,293 - -0.6
834,310 - -0.2
834,347 + -0.2
834,382 + +0.4
834,459 + +0.0
834,460 - +2.4
834,506 + +1.8
834,507 - +0.8
834,522 + +0.3
834,525 + +0.1
834,525 + -1.6
834,525 + -0.0
834,526 - -1.0
834,531 - -3.3
834,543 + -1.7
834,544 - -0.8
834,672 - +0.4
834,672 - -0.5

Or see this region's nucleotide sequence