Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS12460

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1078_RS12455 and HMPREF1078_RS12460 are separated by 195 nucleotidesHMPREF1078_RS12460 and HMPREF1078_RS12465 are separated by 93 nucleotides 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 HMPREF1078_RS12465: HMPREF1078_RS12465 - 6-bladed beta-propeller, at 496,315 to 497,478 _RS12465 Position (kb) 494 495 496 497Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 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_RS12460at 495.653 kb on + strand, within HMPREF1078_RS12460at 495.731 kb on - strand, within HMPREF1078_RS12460at 495.743 kb on + strand, within HMPREF1078_RS12460at 495.751 kb on + strand, within HMPREF1078_RS12460at 495.751 kb on + strand, within HMPREF1078_RS12460at 495.751 kb on + strand, within HMPREF1078_RS12460at 495.797 kb on + strand, within HMPREF1078_RS12460at 495.828 kb on + strand, within HMPREF1078_RS12460at 495.828 kb on + strand, within HMPREF1078_RS12460at 495.857 kb on + strand, within HMPREF1078_RS12460at 495.858 kb on - strand, within HMPREF1078_RS12460at 495.887 kb on - strand, within HMPREF1078_RS12460at 496.021 kb on + strand, within HMPREF1078_RS12460at 496.057 kb on + strand, within HMPREF1078_RS12460at 496.057 kb on + strand, within HMPREF1078_RS12460at 496.089 kb on + strandat 496.089 kb on + strandat 496.090 kb on - strandat 496.171 kb on + strandat 496.189 kb on + strandat 496.190 kb on - strandat 496.190 kb on - strandat 496.190 kb on - strandat 496.195 kb on + strandat 496.228 kb on - strandat 496.240 kb on + strandat 496.240 kb on + strandat 496.282 kb on - strandat 496.282 kb on - strandat 496.316 kb on + strandat 496.317 kb on - strandat 496.317 kb on - strandat 496.317 kb on - strandat 496.323 kb on + strandat 496.324 kb on - strandat 496.448 kb on + strand, within HMPREF1078_RS12465at 496.506 kb on + strand, within HMPREF1078_RS12465at 496.507 kb on - strand, within HMPREF1078_RS12465at 496.537 kb on + strand, within HMPREF1078_RS12465at 496.559 kb on + strand, within HMPREF1078_RS12465at 496.560 kb on - strand, within HMPREF1078_RS12465at 496.603 kb on - strand, within HMPREF1078_RS12465at 496.660 kb on - strand, within HMPREF1078_RS12465at 496.730 kb on + strand, within HMPREF1078_RS12465at 496.731 kb on - strand, within HMPREF1078_RS12465at 496.736 kb on + strand, within HMPREF1078_RS12465at 496.737 kb on - strand, within HMPREF1078_RS12465at 496.792 kb on - strand, within HMPREF1078_RS12465at 496.818 kb on + strand, within HMPREF1078_RS12465at 496.849 kb on - strand, within HMPREF1078_RS12465at 496.946 kb on + strand, within HMPREF1078_RS12465at 496.946 kb on + strand, within HMPREF1078_RS12465at 496.947 kb on - strand, within HMPREF1078_RS12465at 496.947 kb on - strand, within HMPREF1078_RS12465at 496.959 kb on + strand, within HMPREF1078_RS12465at 496.964 kb on + strand, within HMPREF1078_RS12465at 496.989 kb on - strand, within HMPREF1078_RS12465at 496.989 kb on - strand, within HMPREF1078_RS12465at 497.136 kb on + strand, within HMPREF1078_RS12465at 497.145 kb on - strand, within HMPREF1078_RS12465at 497.217 kb on + strand, within HMPREF1078_RS12465at 497.218 kb on - strand, within HMPREF1078_RS12465

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
remove
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
495,653 + HMPREF1078_RS12460 0.59 +0.1
495,731 - HMPREF1078_RS12460 0.64 -2.8
495,743 + HMPREF1078_RS12460 0.65 +0.7
495,751 + HMPREF1078_RS12460 0.66 -0.9
495,751 + HMPREF1078_RS12460 0.66 +0.7
495,751 + HMPREF1078_RS12460 0.66 -3.3
495,797 + HMPREF1078_RS12460 0.69 -0.6
495,828 + HMPREF1078_RS12460 0.71 -1.7
495,828 + HMPREF1078_RS12460 0.71 -0.8
495,857 + HMPREF1078_RS12460 0.73 -0.4
495,858 - HMPREF1078_RS12460 0.74 -3.3
495,887 - HMPREF1078_RS12460 0.76 -1.4
496,021 + HMPREF1078_RS12460 0.85 -0.8
496,057 + HMPREF1078_RS12460 0.88 -1.2
496,057 + HMPREF1078_RS12460 0.88 -1.1
496,089 + -0.3
496,089 + -2.2
496,090 - -1.8
496,171 + -4.7
496,189 + -3.2
496,190 - -1.2
496,190 - -1.8
496,190 - -2.8
496,195 + -4.4
496,228 - -3.3
496,240 + -0.6
496,240 + -2.0
496,282 - -3.9
496,282 - -3.0
496,316 + -1.1
496,317 - +2.2
496,317 - +0.9
496,317 - -0.2
496,323 + +1.9
496,324 - +0.1
496,448 + HMPREF1078_RS12465 0.11 -1.0
496,506 + HMPREF1078_RS12465 0.16 +2.5
496,507 - HMPREF1078_RS12465 0.16 -3.5
496,537 + HMPREF1078_RS12465 0.19 +0.0
496,559 + HMPREF1078_RS12465 0.21 +0.5
496,560 - HMPREF1078_RS12465 0.21 -0.2
496,603 - HMPREF1078_RS12465 0.25 +0.3
496,660 - HMPREF1078_RS12465 0.30 +1.5
496,730 + HMPREF1078_RS12465 0.36 +0.9
496,731 - HMPREF1078_RS12465 0.36 -4.5
496,736 + HMPREF1078_RS12465 0.36 +3.7
496,737 - HMPREF1078_RS12465 0.36 -0.7
496,792 - HMPREF1078_RS12465 0.41 +1.9
496,818 + HMPREF1078_RS12465 0.43 +0.4
496,849 - HMPREF1078_RS12465 0.46 -0.1
496,946 + HMPREF1078_RS12465 0.54 +0.2
496,946 + HMPREF1078_RS12465 0.54 -2.0
496,947 - HMPREF1078_RS12465 0.54 +0.2
496,947 - HMPREF1078_RS12465 0.54 -0.8
496,959 + HMPREF1078_RS12465 0.55 +3.3
496,964 + HMPREF1078_RS12465 0.56 +1.6
496,989 - HMPREF1078_RS12465 0.58 +1.0
496,989 - HMPREF1078_RS12465 0.58 +0.8
497,136 + HMPREF1078_RS12465 0.71 -0.4
497,145 - HMPREF1078_RS12465 0.71 -2.2
497,217 + HMPREF1078_RS12465 0.77 +1.1
497,218 - HMPREF1078_RS12465 0.78 +0.5

Or see this region's nucleotide sequence