Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS12455

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS12450 and HMPREF1078_RS12455 are separated by 77 nucleotidesHMPREF1078_RS12455 and HMPREF1078_RS12460 are separated by 195 nucleotides HMPREF1078_RS12450: HMPREF1078_RS12450 - carbamoyl-phosphate synthase (glutamine-hydrolyzing) large subunit, at 489,296 to 492,514 _RS12450 HMPREF1078_RS12455: HMPREF1078_RS12455 - transcriptional regulator, at 492,592 to 494,649 _RS12455 HMPREF1078_RS12460: HMPREF1078_RS12460 - FAD-dependent oxidoreductase, at 494,845 to 496,221 _RS12460 Position (kb) 492 493 494 495Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 491.696 kb on + strand, within HMPREF1078_RS12450at 491.851 kb on - strand, within HMPREF1078_RS12450at 491.851 kb on - strand, within HMPREF1078_RS12450at 491.912 kb on + strand, within HMPREF1078_RS12450at 492.007 kb on - strand, within HMPREF1078_RS12450at 492.007 kb on - strand, within HMPREF1078_RS12450at 492.016 kb on - strand, within HMPREF1078_RS12450at 492.016 kb on - strand, within HMPREF1078_RS12450at 492.016 kb on - strand, within HMPREF1078_RS12450at 492.019 kb on + strand, within HMPREF1078_RS12450at 492.020 kb on - strand, within HMPREF1078_RS12450at 492.120 kb on + strand, within HMPREF1078_RS12450at 492.120 kb on + strand, within HMPREF1078_RS12450at 492.120 kb on + strand, within HMPREF1078_RS12450at 492.203 kb on + strandat 492.204 kb on - strandat 492.301 kb on + strandat 492.377 kb on + strandat 492.380 kb on - strandat 492.466 kb on + strandat 492.491 kb on - strandat 492.507 kb on - strandat 492.512 kb on + strandat 492.513 kb on - strandat 492.513 kb on - strandat 492.513 kb on - strandat 492.530 kb on + strandat 492.558 kb on + strandat 492.559 kb on - strandat 492.578 kb on - strandat 492.591 kb on + strandat 492.592 kb on - strandat 492.592 kb on - strandat 492.595 kb on + strandat 492.596 kb on - strandat 492.667 kb on + strandat 492.667 kb on + strandat 492.667 kb on + strandat 492.671 kb on + strandat 492.672 kb on - strandat 492.672 kb on - strandat 492.672 kb on - strandat 492.700 kb on + strandat 492.747 kb on + strandat 492.748 kb on - strandat 492.754 kb on + strandat 492.755 kb on - strandat 492.806 kb on + strand, within HMPREF1078_RS12455at 492.806 kb on + strand, within HMPREF1078_RS12455at 492.809 kb on - strand, within HMPREF1078_RS12455at 492.809 kb on - strand, within HMPREF1078_RS12455at 492.865 kb on + strand, within HMPREF1078_RS12455at 492.866 kb on - strand, within HMPREF1078_RS12455at 492.902 kb on - strand, within HMPREF1078_RS12455at 492.902 kb on - strand, within HMPREF1078_RS12455at 492.991 kb on - strand, within HMPREF1078_RS12455at 493.035 kb on + strand, within HMPREF1078_RS12455at 493.079 kb on + strand, within HMPREF1078_RS12455at 493.081 kb on + strand, within HMPREF1078_RS12455at 493.136 kb on + strand, within HMPREF1078_RS12455at 493.287 kb on - strand, within HMPREF1078_RS12455at 493.303 kb on + strand, within HMPREF1078_RS12455at 493.303 kb on + strand, within HMPREF1078_RS12455at 493.303 kb on + strand, within HMPREF1078_RS12455at 493.304 kb on - strand, within HMPREF1078_RS12455at 493.396 kb on - strand, within HMPREF1078_RS12455at 493.505 kb on - strand, within HMPREF1078_RS12455at 493.596 kb on + strand, within HMPREF1078_RS12455at 493.599 kb on + strand, within HMPREF1078_RS12455at 493.676 kb on + strand, within HMPREF1078_RS12455at 493.748 kb on - strand, within HMPREF1078_RS12455at 493.748 kb on - strand, within HMPREF1078_RS12455at 493.748 kb on - strand, within HMPREF1078_RS12455at 493.874 kb on - strand, within HMPREF1078_RS12455at 493.904 kb on - strand, within HMPREF1078_RS12455at 493.957 kb on + strand, within HMPREF1078_RS12455at 493.979 kb on - strand, within HMPREF1078_RS12455at 494.040 kb on + strand, within HMPREF1078_RS12455at 494.040 kb on + strand, within HMPREF1078_RS12455at 494.041 kb on - strand, within HMPREF1078_RS12455at 494.041 kb on - strand, within HMPREF1078_RS12455at 494.044 kb on - strand, within HMPREF1078_RS12455at 494.049 kb on - strand, within HMPREF1078_RS12455at 494.065 kb on + strand, within HMPREF1078_RS12455at 494.066 kb on - strand, within HMPREF1078_RS12455at 494.107 kb on + strand, within HMPREF1078_RS12455at 494.326 kb on + strand, within HMPREF1078_RS12455at 494.347 kb on + strand, within HMPREF1078_RS12455at 494.403 kb on - strand, within HMPREF1078_RS12455at 494.416 kb on + strand, within HMPREF1078_RS12455at 494.464 kb on + strandat 494.552 kb on + strandat 494.553 kb on - strandat 494.612 kb on + strandat 494.677 kb on - strandat 494.678 kb on + strandat 494.679 kb on - strandat 494.686 kb on + strandat 494.687 kb on - strandat 494.731 kb on - strandat 494.778 kb on - strandat 494.873 kb on + strandat 494.873 kb on + strandat 494.940 kb on - strandat 495.003 kb on - strand, within HMPREF1078_RS12460at 495.107 kb on - strand, within HMPREF1078_RS12460at 495.140 kb on + strand, within HMPREF1078_RS12460at 495.140 kb on + strand, within HMPREF1078_RS12460at 495.141 kb on - strand, within HMPREF1078_RS12460at 495.141 kb on - strand, within HMPREF1078_RS12460at 495.141 kb on - strand, within HMPREF1078_RS12460at 495.141 kb on - strand, within HMPREF1078_RS12460at 495.141 kb on - strand, within HMPREF1078_RS12460at 495.143 kb on - strand, within HMPREF1078_RS12460at 495.274 kb on + strand, within HMPREF1078_RS12460at 495.323 kb on + strand, within HMPREF1078_RS12460at 495.323 kb on + strand, within HMPREF1078_RS12460at 495.323 kb on + strand, within HMPREF1078_RS12460at 495.323 kb on + strand, within HMPREF1078_RS12460at 495.324 kb on - strand, within HMPREF1078_RS12460at 495.324 kb on - strand, within HMPREF1078_RS12460at 495.330 kb on + strand, within HMPREF1078_RS12460at 495.331 kb on - strand, within HMPREF1078_RS12460at 495.374 kb on - strand, within HMPREF1078_RS12460at 495.374 kb on - strand, within HMPREF1078_RS12460at 495.410 kb on + strand, within HMPREF1078_RS12460at 495.411 kb on - strand, within HMPREF1078_RS12460at 495.445 kb on + strand, within HMPREF1078_RS12460at 495.445 kb on + strand, within HMPREF1078_RS12460at 495.445 kb on + strand, within HMPREF1078_RS12460at 495.445 kb on + strand, within HMPREF1078_RS12460at 495.446 kb on - strand, within HMPREF1078_RS12460at 495.446 kb on - strand, within HMPREF1078_RS12460at 495.453 kb on + strand, within HMPREF1078_RS12460at 495.454 kb on - strand, within HMPREF1078_RS12460at 495.457 kb on + strand, within HMPREF1078_RS12460at 495.457 kb on + strand, within HMPREF1078_RS12460at 495.457 kb on + strand, within HMPREF1078_RS12460at 495.457 kb on + strand, within HMPREF1078_RS12460at 495.457 kb on + strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.458 kb on - strand, within HMPREF1078_RS12460at 495.459 kb on + strand, within HMPREF1078_RS12460at 495.460 kb on - strand, within HMPREF1078_RS12460at 495.460 kb on - strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.514 kb on + strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.515 kb on - strand, within HMPREF1078_RS12460at 495.517 kb on - strand, within HMPREF1078_RS12460at 495.580 kb on + strand, within HMPREF1078_RS12460at 495.580 kb on + strand, within HMPREF1078_RS12460at 495.580 kb on + strand, within HMPREF1078_RS12460at 495.580 kb on + strand, within HMPREF1078_RS12460at 495.580 kb on + strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.581 kb on - strand, within HMPREF1078_RS12460at 495.619 kb on + strand, within HMPREF1078_RS12460at 495.639 kb on + strand, within HMPREF1078_RS12460at 495.639 kb on + strand, within HMPREF1078_RS12460

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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491,696 + HMPREF1078_RS12450 0.75 -0.2
491,851 - HMPREF1078_RS12450 0.79 -1.1
491,851 - HMPREF1078_RS12450 0.79 -0.9
491,912 + HMPREF1078_RS12450 0.81 -1.2
492,007 - HMPREF1078_RS12450 0.84 -1.7
492,007 - HMPREF1078_RS12450 0.84 -0.2
492,016 - HMPREF1078_RS12450 0.84 -1.8
492,016 - HMPREF1078_RS12450 0.84 -2.6
492,016 - HMPREF1078_RS12450 0.84 -2.0
492,019 + HMPREF1078_RS12450 0.85 -2.1
492,020 - HMPREF1078_RS12450 0.85 -2.5
492,120 + HMPREF1078_RS12450 0.88 +0.5
492,120 + HMPREF1078_RS12450 0.88 -2.8
492,120 + HMPREF1078_RS12450 0.88 -2.9
492,203 + -2.5
492,204 - -0.9
492,301 + -2.0
492,377 + -3.7
492,380 - -0.7
492,466 + -1.1
492,491 - -2.3
492,507 - -3.0
492,512 + +3.0
492,513 - -2.9
492,513 - -3.3
492,513 - -3.9
492,530 + +1.3
492,558 + -0.0
492,559 - -0.7
492,578 - -4.0
492,591 + -2.7
492,592 - -2.7
492,592 - -4.7
492,595 + -4.4
492,596 - -0.9
492,667 + -4.5
492,667 + -2.5
492,667 + -3.5
492,671 + -3.0
492,672 - -3.3
492,672 - -4.1
492,672 - -3.0
492,700 + -0.5
492,747 + -4.1
492,748 - -3.5
492,754 + -2.7
492,755 - -2.9
492,806 + HMPREF1078_RS12455 0.10 -4.0
492,806 + HMPREF1078_RS12455 0.10 -2.5
492,809 - HMPREF1078_RS12455 0.11 -3.7
492,809 - HMPREF1078_RS12455 0.11 -4.3
492,865 + HMPREF1078_RS12455 0.13 -1.6
492,866 - HMPREF1078_RS12455 0.13 -4.1
492,902 - HMPREF1078_RS12455 0.15 -1.9
492,902 - HMPREF1078_RS12455 0.15 -3.3
492,991 - HMPREF1078_RS12455 0.19 -3.3
493,035 + HMPREF1078_RS12455 0.22 -2.9
493,079 + HMPREF1078_RS12455 0.24 -1.7
493,081 + HMPREF1078_RS12455 0.24 -5.5
493,136 + HMPREF1078_RS12455 0.26 -2.2
493,287 - HMPREF1078_RS12455 0.34 -3.1
493,303 + HMPREF1078_RS12455 0.35 -5.0
493,303 + HMPREF1078_RS12455 0.35 -1.5
493,303 + HMPREF1078_RS12455 0.35 -1.8
493,304 - HMPREF1078_RS12455 0.35 -3.1
493,396 - HMPREF1078_RS12455 0.39 -3.0
493,505 - HMPREF1078_RS12455 0.44 -2.4
493,596 + HMPREF1078_RS12455 0.49 -4.4
493,599 + HMPREF1078_RS12455 0.49 -4.1
493,676 + HMPREF1078_RS12455 0.53 -2.6
493,748 - HMPREF1078_RS12455 0.56 -3.1
493,748 - HMPREF1078_RS12455 0.56 -3.3
493,748 - HMPREF1078_RS12455 0.56 -3.3
493,874 - HMPREF1078_RS12455 0.62 -2.5
493,904 - HMPREF1078_RS12455 0.64 -1.3
493,957 + HMPREF1078_RS12455 0.66 -4.0
493,979 - HMPREF1078_RS12455 0.67 -2.6
494,040 + HMPREF1078_RS12455 0.70 -2.5
494,040 + HMPREF1078_RS12455 0.70 -5.1
494,041 - HMPREF1078_RS12455 0.70 -2.5
494,041 - HMPREF1078_RS12455 0.70 -2.1
494,044 - HMPREF1078_RS12455 0.71 +0.1
494,049 - HMPREF1078_RS12455 0.71 -3.3
494,065 + HMPREF1078_RS12455 0.72 -3.8
494,066 - HMPREF1078_RS12455 0.72 -3.9
494,107 + HMPREF1078_RS12455 0.74 -3.8
494,326 + HMPREF1078_RS12455 0.84 -3.9
494,347 + HMPREF1078_RS12455 0.85 -4.0
494,403 - HMPREF1078_RS12455 0.88 -2.3
494,416 + HMPREF1078_RS12455 0.89 -3.1
494,464 + -3.1
494,552 + -5.0
494,553 - -0.7
494,612 + -4.1
494,677 - -2.1
494,678 + -4.2
494,679 - -1.5
494,686 + -1.1
494,687 - -2.0
494,731 - -3.2
494,778 - -1.2
494,873 + -1.5
494,873 + -3.6
494,940 - -0.7
495,003 - HMPREF1078_RS12460 0.11 -3.6
495,107 - HMPREF1078_RS12460 0.19 -3.8
495,140 + HMPREF1078_RS12460 0.21 -2.1
495,140 + HMPREF1078_RS12460 0.21 -4.1
495,141 - HMPREF1078_RS12460 0.21 -3.5
495,141 - HMPREF1078_RS12460 0.21 -2.8
495,141 - HMPREF1078_RS12460 0.21 -3.3
495,141 - HMPREF1078_RS12460 0.21 -3.7
495,141 - HMPREF1078_RS12460 0.21 -3.7
495,143 - HMPREF1078_RS12460 0.22 -2.1
495,274 + HMPREF1078_RS12460 0.31 -2.4
495,323 + HMPREF1078_RS12460 0.35 -3.9
495,323 + HMPREF1078_RS12460 0.35 -2.7
495,323 + HMPREF1078_RS12460 0.35 +1.3
495,323 + HMPREF1078_RS12460 0.35 -3.0
495,324 - HMPREF1078_RS12460 0.35 -2.0
495,324 - HMPREF1078_RS12460 0.35 -3.1
495,330 + HMPREF1078_RS12460 0.35 -1.2
495,331 - HMPREF1078_RS12460 0.35 -3.4
495,374 - HMPREF1078_RS12460 0.38 -3.0
495,374 - HMPREF1078_RS12460 0.38 -2.4
495,410 + HMPREF1078_RS12460 0.41 -4.1
495,411 - HMPREF1078_RS12460 0.41 -5.0
495,445 + HMPREF1078_RS12460 0.44 -1.4
495,445 + HMPREF1078_RS12460 0.44 -0.4
495,445 + HMPREF1078_RS12460 0.44 -3.9
495,445 + HMPREF1078_RS12460 0.44 -1.8
495,446 - HMPREF1078_RS12460 0.44 -2.9
495,446 - HMPREF1078_RS12460 0.44 -4.2
495,453 + HMPREF1078_RS12460 0.44 -0.5
495,454 - HMPREF1078_RS12460 0.44 -4.4
495,457 + HMPREF1078_RS12460 0.44 -0.5
495,457 + HMPREF1078_RS12460 0.44 -0.4
495,457 + HMPREF1078_RS12460 0.44 -0.8
495,457 + HMPREF1078_RS12460 0.44 -3.1
495,457 + HMPREF1078_RS12460 0.44 -0.4
495,458 - HMPREF1078_RS12460 0.45 -2.8
495,458 - HMPREF1078_RS12460 0.45 -1.5
495,458 - HMPREF1078_RS12460 0.45 -3.1
495,458 - HMPREF1078_RS12460 0.45 -2.4
495,458 - HMPREF1078_RS12460 0.45 -3.3
495,458 - HMPREF1078_RS12460 0.45 -3.9
495,459 + HMPREF1078_RS12460 0.45 -2.0
495,460 - HMPREF1078_RS12460 0.45 -1.4
495,460 - HMPREF1078_RS12460 0.45 -0.7
495,514 + HMPREF1078_RS12460 0.49 -2.7
495,514 + HMPREF1078_RS12460 0.49 -2.9
495,514 + HMPREF1078_RS12460 0.49 -2.7
495,514 + HMPREF1078_RS12460 0.49 -4.4
495,514 + HMPREF1078_RS12460 0.49 -3.7
495,514 + HMPREF1078_RS12460 0.49 -0.5
495,515 - HMPREF1078_RS12460 0.49 -0.9
495,515 - HMPREF1078_RS12460 0.49 -1.8
495,515 - HMPREF1078_RS12460 0.49 -2.5
495,515 - HMPREF1078_RS12460 0.49 -2.5
495,515 - HMPREF1078_RS12460 0.49 -2.6
495,515 - HMPREF1078_RS12460 0.49 -2.9
495,517 - HMPREF1078_RS12460 0.49 -0.5
495,580 + HMPREF1078_RS12460 0.53 -1.9
495,580 + HMPREF1078_RS12460 0.53 -2.8
495,580 + HMPREF1078_RS12460 0.53 -1.2
495,580 + HMPREF1078_RS12460 0.53 -2.1
495,580 + HMPREF1078_RS12460 0.53 -0.6
495,581 - HMPREF1078_RS12460 0.53 -3.1
495,581 - HMPREF1078_RS12460 0.53 -4.2
495,581 - HMPREF1078_RS12460 0.53 -2.1
495,581 - HMPREF1078_RS12460 0.53 -3.7
495,581 - HMPREF1078_RS12460 0.53 -4.1
495,581 - HMPREF1078_RS12460 0.53 -2.4
495,619 + HMPREF1078_RS12460 0.56 -2.1
495,639 + HMPREF1078_RS12460 0.58 -1.8
495,639 + HMPREF1078_RS12460 0.58 -3.2

Or see this region's nucleotide sequence