Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS12605

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_RS12600 and HMPREF1078_RS12605 overlap by 4 nucleotidesHMPREF1078_RS12605 and HMPREF1078_RS12610 are separated by 106 nucleotides HMPREF1078_RS12600: HMPREF1078_RS12600 - translocation/assembly module TamB domain-containing protein, at 535,024 to 539,652 _RS12600 HMPREF1078_RS12605: HMPREF1078_RS12605 - BamA/TamA family outer membrane protein, at 539,649 to 541,952 _RS12605 HMPREF1078_RS12610: HMPREF1078_RS12610 - arginase, at 542,059 to 542,955 _RS12610 Position (kb) 539 540 541 542Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 538.693 kb on - strand, within HMPREF1078_RS12600at 538.693 kb on - strand, within HMPREF1078_RS12600at 538.755 kb on + strand, within HMPREF1078_RS12600at 538.755 kb on + strand, within HMPREF1078_RS12600at 538.756 kb on - strand, within HMPREF1078_RS12600at 539.028 kb on + strand, within HMPREF1078_RS12600at 539.132 kb on - strand, within HMPREF1078_RS12600at 539.364 kb on + strandat 539.364 kb on + strandat 539.365 kb on - strandat 539.369 kb on + strandat 539.370 kb on - strandat 539.504 kb on - strandat 539.595 kb on + strandat 539.665 kb on - strandat 539.674 kb on - strandat 539.737 kb on + strandat 539.743 kb on - strandat 539.864 kb on + strandat 539.871 kb on - strandat 539.899 kb on - strand, within HMPREF1078_RS12605at 539.941 kb on + strand, within HMPREF1078_RS12605at 540.012 kb on + strand, within HMPREF1078_RS12605at 540.013 kb on - strand, within HMPREF1078_RS12605at 540.036 kb on + strand, within HMPREF1078_RS12605at 540.105 kb on + strand, within HMPREF1078_RS12605at 540.129 kb on + strand, within HMPREF1078_RS12605at 540.129 kb on + strand, within HMPREF1078_RS12605at 540.130 kb on - strand, within HMPREF1078_RS12605at 540.135 kb on + strand, within HMPREF1078_RS12605at 540.135 kb on + strand, within HMPREF1078_RS12605at 540.135 kb on + strand, within HMPREF1078_RS12605at 540.136 kb on - strand, within HMPREF1078_RS12605at 540.136 kb on - strand, within HMPREF1078_RS12605at 540.150 kb on + strand, within HMPREF1078_RS12605at 540.150 kb on + strand, within HMPREF1078_RS12605at 540.266 kb on - strand, within HMPREF1078_RS12605at 540.298 kb on - strand, within HMPREF1078_RS12605at 540.322 kb on - strand, within HMPREF1078_RS12605at 540.332 kb on + strand, within HMPREF1078_RS12605at 540.366 kb on - strand, within HMPREF1078_RS12605at 540.642 kb on + strand, within HMPREF1078_RS12605at 540.643 kb on - strand, within HMPREF1078_RS12605at 540.788 kb on + strand, within HMPREF1078_RS12605at 540.801 kb on - strand, within HMPREF1078_RS12605at 540.847 kb on - strand, within HMPREF1078_RS12605at 540.998 kb on + strand, within HMPREF1078_RS12605at 541.003 kb on - strand, within HMPREF1078_RS12605at 541.139 kb on + strand, within HMPREF1078_RS12605at 541.226 kb on + strand, within HMPREF1078_RS12605at 541.230 kb on + strand, within HMPREF1078_RS12605at 541.230 kb on + strand, within HMPREF1078_RS12605at 541.230 kb on + strand, within HMPREF1078_RS12605at 541.230 kb on + strand, within HMPREF1078_RS12605at 541.230 kb on + strand, within HMPREF1078_RS12605at 541.231 kb on - strand, within HMPREF1078_RS12605at 541.231 kb on - strand, within HMPREF1078_RS12605at 541.236 kb on + strand, within HMPREF1078_RS12605at 541.237 kb on - strand, within HMPREF1078_RS12605at 541.257 kb on - strand, within HMPREF1078_RS12605at 541.323 kb on + strand, within HMPREF1078_RS12605at 541.416 kb on + strand, within HMPREF1078_RS12605at 541.417 kb on - strand, within HMPREF1078_RS12605at 541.422 kb on + strand, within HMPREF1078_RS12605at 541.426 kb on - strand, within HMPREF1078_RS12605at 541.476 kb on + strand, within HMPREF1078_RS12605at 541.478 kb on + strand, within HMPREF1078_RS12605at 541.479 kb on - strand, within HMPREF1078_RS12605at 541.482 kb on + strand, within HMPREF1078_RS12605at 541.521 kb on + strand, within HMPREF1078_RS12605at 541.523 kb on + strand, within HMPREF1078_RS12605at 541.720 kb on + strand, within HMPREF1078_RS12605at 541.809 kb on + strandat 541.861 kb on + strandat 541.862 kb on - strandat 541.862 kb on - strandat 541.867 kb on - strandat 541.887 kb on + strandat 541.887 kb on + strandat 542.019 kb on - strandat 542.019 kb on - strandat 542.076 kb on + strandat 542.077 kb on - strandat 542.087 kb on - strandat 542.087 kb on - strandat 542.087 kb on - strandat 542.180 kb on - strand, within HMPREF1078_RS12610at 542.180 kb on - strand, within HMPREF1078_RS12610at 542.180 kb on - strand, within HMPREF1078_RS12610at 542.180 kb on - strand, within HMPREF1078_RS12610at 542.181 kb on + strand, within HMPREF1078_RS12610at 542.182 kb on - strand, within HMPREF1078_RS12610at 542.182 kb on - strand, within HMPREF1078_RS12610at 542.185 kb on + strand, within HMPREF1078_RS12610at 542.278 kb on + strand, within HMPREF1078_RS12610at 542.278 kb on + strand, within HMPREF1078_RS12610at 542.279 kb on - strand, within HMPREF1078_RS12610at 542.376 kb on + strand, within HMPREF1078_RS12610at 542.386 kb on + strand, within HMPREF1078_RS12610at 542.487 kb on + strand, within HMPREF1078_RS12610at 542.487 kb on + strand, within HMPREF1078_RS12610at 542.545 kb on - strand, within HMPREF1078_RS12610at 542.545 kb on - strand, within HMPREF1078_RS12610at 542.708 kb on + strand, within HMPREF1078_RS12610at 542.709 kb on - strand, within HMPREF1078_RS12610at 542.730 kb on + strand, within HMPREF1078_RS12610at 542.731 kb on - strand, within HMPREF1078_RS12610at 542.811 kb on - strand, within HMPREF1078_RS12610at 542.811 kb on - strand, within HMPREF1078_RS12610at 542.811 kb on - strand, within HMPREF1078_RS12610at 542.932 kb on + strandat 542.933 kb on - strandat 542.933 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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538,693 - HMPREF1078_RS12600 0.79 +0.9
538,693 - HMPREF1078_RS12600 0.79 +0.3
538,755 + HMPREF1078_RS12600 0.81 -3.0
538,755 + HMPREF1078_RS12600 0.81 -2.1
538,756 - HMPREF1078_RS12600 0.81 -2.2
539,028 + HMPREF1078_RS12600 0.86 -1.7
539,132 - HMPREF1078_RS12600 0.89 -0.7
539,364 + -0.7
539,364 + -3.7
539,365 - -1.9
539,369 + -3.2
539,370 - -0.8
539,504 - -2.6
539,595 + +0.6
539,665 - -3.9
539,674 - -1.9
539,737 + -1.7
539,743 - -0.9
539,864 + -1.7
539,871 - -0.7
539,899 - HMPREF1078_RS12605 0.11 +0.3
539,941 + HMPREF1078_RS12605 0.13 +0.2
540,012 + HMPREF1078_RS12605 0.16 -1.4
540,013 - HMPREF1078_RS12605 0.16 -1.5
540,036 + HMPREF1078_RS12605 0.17 -2.6
540,105 + HMPREF1078_RS12605 0.20 -1.5
540,129 + HMPREF1078_RS12605 0.21 -2.7
540,129 + HMPREF1078_RS12605 0.21 +0.9
540,130 - HMPREF1078_RS12605 0.21 -3.8
540,135 + HMPREF1078_RS12605 0.21 -1.7
540,135 + HMPREF1078_RS12605 0.21 -2.5
540,135 + HMPREF1078_RS12605 0.21 -2.2
540,136 - HMPREF1078_RS12605 0.21 -3.5
540,136 - HMPREF1078_RS12605 0.21 -2.4
540,150 + HMPREF1078_RS12605 0.22 -1.0
540,150 + HMPREF1078_RS12605 0.22 +0.9
540,266 - HMPREF1078_RS12605 0.27 -1.2
540,298 - HMPREF1078_RS12605 0.28 -1.2
540,322 - HMPREF1078_RS12605 0.29 -1.9
540,332 + HMPREF1078_RS12605 0.30 -0.1
540,366 - HMPREF1078_RS12605 0.31 -2.0
540,642 + HMPREF1078_RS12605 0.43 -2.5
540,643 - HMPREF1078_RS12605 0.43 -1.2
540,788 + HMPREF1078_RS12605 0.49 -1.4
540,801 - HMPREF1078_RS12605 0.50 -3.3
540,847 - HMPREF1078_RS12605 0.52 -1.9
540,998 + HMPREF1078_RS12605 0.59 -1.1
541,003 - HMPREF1078_RS12605 0.59 -2.4
541,139 + HMPREF1078_RS12605 0.65 -0.1
541,226 + HMPREF1078_RS12605 0.68 -3.0
541,230 + HMPREF1078_RS12605 0.69 -3.5
541,230 + HMPREF1078_RS12605 0.69 -2.2
541,230 + HMPREF1078_RS12605 0.69 -1.9
541,230 + HMPREF1078_RS12605 0.69 -1.7
541,230 + HMPREF1078_RS12605 0.69 -1.7
541,231 - HMPREF1078_RS12605 0.69 -2.4
541,231 - HMPREF1078_RS12605 0.69 +0.6
541,236 + HMPREF1078_RS12605 0.69 -1.4
541,237 - HMPREF1078_RS12605 0.69 -0.1
541,257 - HMPREF1078_RS12605 0.70 -2.4
541,323 + HMPREF1078_RS12605 0.73 -2.0
541,416 + HMPREF1078_RS12605 0.77 -0.5
541,417 - HMPREF1078_RS12605 0.77 +0.9
541,422 + HMPREF1078_RS12605 0.77 -2.2
541,426 - HMPREF1078_RS12605 0.77 -1.9
541,476 + HMPREF1078_RS12605 0.79 -1.4
541,478 + HMPREF1078_RS12605 0.79 +0.6
541,479 - HMPREF1078_RS12605 0.79 -0.2
541,482 + HMPREF1078_RS12605 0.80 -0.7
541,521 + HMPREF1078_RS12605 0.81 -1.4
541,523 + HMPREF1078_RS12605 0.81 -0.1
541,720 + HMPREF1078_RS12605 0.90 -0.4
541,809 + -2.8
541,861 + -2.5
541,862 - -1.6
541,862 - +1.3
541,867 - +0.8
541,887 + +1.1
541,887 + -1.8
542,019 - -0.2
542,019 - +1.1
542,076 + +1.3
542,077 - +0.5
542,087 - -0.1
542,087 - +2.0
542,087 - +0.9
542,180 - HMPREF1078_RS12610 0.13 -2.0
542,180 - HMPREF1078_RS12610 0.13 -0.3
542,180 - HMPREF1078_RS12610 0.13 -1.4
542,180 - HMPREF1078_RS12610 0.13 +2.6
542,181 + HMPREF1078_RS12610 0.14 +1.9
542,182 - HMPREF1078_RS12610 0.14 -0.7
542,182 - HMPREF1078_RS12610 0.14 +1.6
542,185 + HMPREF1078_RS12610 0.14 -0.7
542,278 + HMPREF1078_RS12610 0.24 +0.3
542,278 + HMPREF1078_RS12610 0.24 -1.8
542,279 - HMPREF1078_RS12610 0.25 -0.5
542,376 + HMPREF1078_RS12610 0.35 +0.8
542,386 + HMPREF1078_RS12610 0.36 +3.4
542,487 + HMPREF1078_RS12610 0.48 -2.1
542,487 + HMPREF1078_RS12610 0.48 +0.6
542,545 - HMPREF1078_RS12610 0.54 -0.9
542,545 - HMPREF1078_RS12610 0.54 -0.7
542,708 + HMPREF1078_RS12610 0.72 +1.1
542,709 - HMPREF1078_RS12610 0.72 -0.0
542,730 + HMPREF1078_RS12610 0.75 -2.8
542,731 - HMPREF1078_RS12610 0.75 +1.1
542,811 - HMPREF1078_RS12610 0.84 -0.1
542,811 - HMPREF1078_RS12610 0.84 -0.8
542,811 - HMPREF1078_RS12610 0.84 -0.1
542,932 + -0.4
542,933 - +0.2
542,933 - -2.3

Or see this region's nucleotide sequence