Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS10885

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_RS10855 and HMPREF1078_RS10860 are separated by 52 nucleotidesHMPREF1078_RS10860 and HMPREF1078_RS10865 are separated by 10 nucleotidesHMPREF1078_RS10865 and HMPREF1078_RS10870 are separated by 42 nucleotidesHMPREF1078_RS10870 and HMPREF1078_RS10875 are separated by 93 nucleotidesHMPREF1078_RS10875 and HMPREF1078_RS10880 are separated by 95 nucleotidesHMPREF1078_RS10880 and HMPREF1078_RS10885 overlap by 4 nucleotidesHMPREF1078_RS10885 and HMPREF1078_RS10890 are separated by 82 nucleotidesHMPREF1078_RS10890 and HMPREF1078_RS10895 are separated by 97 nucleotides HMPREF1078_RS10855: HMPREF1078_RS10855 - elongation factor Tu, at 81,998 to 83,185 _RS10855 HMPREF1078_RS10860: HMPREF1078_RS10860 - tRNA-Thr, at 83,238 to 83,309 _RS10860 HMPREF1078_RS10865: HMPREF1078_RS10865 - tRNA-Gly, at 83,320 to 83,392 _RS10865 HMPREF1078_RS10870: HMPREF1078_RS10870 - tRNA-Tyr, at 83,435 to 83,517 _RS10870 HMPREF1078_RS10875: HMPREF1078_RS10875 - tRNA-Thr, at 83,611 to 83,684 _RS10875 HMPREF1078_RS10880: HMPREF1078_RS10880 - ribosome-associated translation inhibitor RaiA, at 83,780 to 84,079 _RS10880 HMPREF1078_RS10885: HMPREF1078_RS10885 - tyrosine recombinase XerC, at 84,076 to 84,978 _RS10885 HMPREF1078_RS10890: HMPREF1078_RS10890 - 30S ribosomal protein S21, at 85,061 to 85,252 _RS10890 HMPREF1078_RS10895: HMPREF1078_RS10895 - S-methyl-5-thioribose-1-phosphate isomerase, at 85,350 to 86,399 _RS10895 Position (kb) 84 85Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 83.224 kb on - strandat 83.313 kb on - strandat 83.317 kb on - strandat 83.417 kb on - strandat 83.747 kb on - strandat 83.767 kb on - strandat 83.782 kb on - strandat 83.810 kb on - strand, within HMPREF1078_RS10880at 83.810 kb on - strand, within HMPREF1078_RS10880at 83.810 kb on - strand, within HMPREF1078_RS10880at 83.813 kb on + strand, within HMPREF1078_RS10880at 83.834 kb on + strand, within HMPREF1078_RS10880at 83.863 kb on + strand, within HMPREF1078_RS10880at 83.863 kb on + strand, within HMPREF1078_RS10880at 83.863 kb on + strand, within HMPREF1078_RS10880at 83.864 kb on - strand, within HMPREF1078_RS10880at 83.864 kb on - strand, within HMPREF1078_RS10880at 83.870 kb on + strand, within HMPREF1078_RS10880at 83.870 kb on + strand, within HMPREF1078_RS10880at 83.871 kb on - strand, within HMPREF1078_RS10880at 83.899 kb on + strand, within HMPREF1078_RS10880at 83.900 kb on - strand, within HMPREF1078_RS10880at 83.903 kb on - strand, within HMPREF1078_RS10880at 83.914 kb on + strand, within HMPREF1078_RS10880at 83.915 kb on - strand, within HMPREF1078_RS10880at 83.975 kb on + strand, within HMPREF1078_RS10880at 83.976 kb on - strand, within HMPREF1078_RS10880at 83.977 kb on + strand, within HMPREF1078_RS10880at 83.977 kb on + strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.978 kb on - strand, within HMPREF1078_RS10880at 83.992 kb on - strand, within HMPREF1078_RS10880at 84.022 kb on + strand, within HMPREF1078_RS10880at 84.023 kb on - strand, within HMPREF1078_RS10880at 84.033 kb on - strand, within HMPREF1078_RS10880at 84.033 kb on - strand, within HMPREF1078_RS10880at 84.033 kb on - strand, within HMPREF1078_RS10880at 84.070 kb on + strandat 84.079 kb on + strandat 84.079 kb on + strandat 84.079 kb on + strandat 84.082 kb on + strandat 84.083 kb on - strandat 84.083 kb on - strandat 84.119 kb on + strandat 84.120 kb on - strandat 84.120 kb on - strandat 84.120 kb on - strandat 84.120 kb on - strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.147 kb on + strandat 84.148 kb on - strandat 84.148 kb on - strandat 84.155 kb on + strandat 84.155 kb on + strandat 84.155 kb on + strandat 84.156 kb on - strandat 84.156 kb on - strandat 84.159 kb on + strandat 84.165 kb on + strandat 84.165 kb on + strandat 84.165 kb on + strandat 84.165 kb on + strandat 84.180 kb on + strand, within HMPREF1078_RS10885at 84.231 kb on + strand, within HMPREF1078_RS10885at 84.231 kb on + strand, within HMPREF1078_RS10885at 84.231 kb on + strand, within HMPREF1078_RS10885at 84.232 kb on - strand, within HMPREF1078_RS10885at 84.232 kb on - strand, within HMPREF1078_RS10885at 84.232 kb on - strand, within HMPREF1078_RS10885at 84.232 kb on - strand, within HMPREF1078_RS10885at 84.232 kb on - strand, within HMPREF1078_RS10885at 84.253 kb on + strand, within HMPREF1078_RS10885at 84.254 kb on - strand, within HMPREF1078_RS10885at 84.256 kb on + strand, within HMPREF1078_RS10885at 84.256 kb on + strand, within HMPREF1078_RS10885at 84.310 kb on + strand, within HMPREF1078_RS10885at 84.315 kb on + strand, within HMPREF1078_RS10885at 84.315 kb on + strand, within HMPREF1078_RS10885at 84.315 kb on + strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.316 kb on - strand, within HMPREF1078_RS10885at 84.324 kb on + strand, within HMPREF1078_RS10885at 84.324 kb on + strand, within HMPREF1078_RS10885at 84.331 kb on - strand, within HMPREF1078_RS10885at 84.407 kb on + strand, within HMPREF1078_RS10885at 84.407 kb on + strand, within HMPREF1078_RS10885at 84.407 kb on + strand, within HMPREF1078_RS10885at 84.408 kb on - strand, within HMPREF1078_RS10885at 84.408 kb on - strand, within HMPREF1078_RS10885at 84.428 kb on - strand, within HMPREF1078_RS10885at 84.463 kb on - strand, within HMPREF1078_RS10885at 84.463 kb on - strand, within HMPREF1078_RS10885at 84.469 kb on - strand, within HMPREF1078_RS10885at 84.469 kb on - strand, within HMPREF1078_RS10885at 84.489 kb on + strand, within HMPREF1078_RS10885at 84.497 kb on + strand, within HMPREF1078_RS10885at 84.497 kb on + strand, within HMPREF1078_RS10885at 84.497 kb on + strand, within HMPREF1078_RS10885at 84.497 kb on + strand, within HMPREF1078_RS10885at 84.498 kb on - strand, within HMPREF1078_RS10885at 84.498 kb on - strand, within HMPREF1078_RS10885at 84.502 kb on + strand, within HMPREF1078_RS10885at 84.502 kb on + strand, within HMPREF1078_RS10885at 84.503 kb on - strand, within HMPREF1078_RS10885at 84.503 kb on - strand, within HMPREF1078_RS10885at 84.503 kb on - strand, within HMPREF1078_RS10885at 84.503 kb on - strand, within HMPREF1078_RS10885at 84.550 kb on - strand, within HMPREF1078_RS10885at 84.654 kb on + strand, within HMPREF1078_RS10885at 84.655 kb on - strand, within HMPREF1078_RS10885at 84.726 kb on + strand, within HMPREF1078_RS10885at 84.775 kb on + strand, within HMPREF1078_RS10885at 84.808 kb on - strand, within HMPREF1078_RS10885at 84.808 kb on - strand, within HMPREF1078_RS10885at 84.808 kb on - strand, within HMPREF1078_RS10885at 84.854 kb on - strand, within HMPREF1078_RS10885at 84.854 kb on - strand, within HMPREF1078_RS10885at 85.019 kb on - strandat 85.019 kb on - strandat 85.019 kb on - strandat 85.385 kb on + strandat 85.399 kb on - strandat 85.428 kb on + strandat 85.445 kb on + strandat 85.448 kb on - strandat 85.484 kb on - strand, within HMPREF1078_RS10895at 85.491 kb on - strand, within HMPREF1078_RS10895at 85.521 kb on + strand, within HMPREF1078_RS10895at 85.522 kb on - strand, within HMPREF1078_RS10895at 85.576 kb on - strand, within HMPREF1078_RS10895at 85.576 kb on - strand, within HMPREF1078_RS10895at 85.582 kb on + strand, within HMPREF1078_RS10895at 85.725 kb on - strand, within HMPREF1078_RS10895at 85.728 kb on - strand, within HMPREF1078_RS10895at 85.728 kb on - strand, within HMPREF1078_RS10895at 85.728 kb on - strand, within HMPREF1078_RS10895at 85.743 kb on - strand, within HMPREF1078_RS10895at 85.771 kb on + strand, within HMPREF1078_RS10895at 85.851 kb on + strand, within HMPREF1078_RS10895at 85.962 kb on + strand, within HMPREF1078_RS10895at 85.962 kb on + strand, within HMPREF1078_RS10895at 85.963 kb on - strand, within HMPREF1078_RS10895at 85.968 kb on - strand, within HMPREF1078_RS10895

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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83,224 - +0.1
83,313 - +1.1
83,317 - -0.5
83,417 - +0.1
83,747 - +1.1
83,767 - -1.2
83,782 - -0.5
83,810 - HMPREF1078_RS10880 0.10 +0.3
83,810 - HMPREF1078_RS10880 0.10 -0.9
83,810 - HMPREF1078_RS10880 0.10 -1.0
83,813 + HMPREF1078_RS10880 0.11 -0.1
83,834 + HMPREF1078_RS10880 0.18 -0.9
83,863 + HMPREF1078_RS10880 0.28 -1.5
83,863 + HMPREF1078_RS10880 0.28 -2.5
83,863 + HMPREF1078_RS10880 0.28 -2.3
83,864 - HMPREF1078_RS10880 0.28 -1.2
83,864 - HMPREF1078_RS10880 0.28 -2.5
83,870 + HMPREF1078_RS10880 0.30 -2.7
83,870 + HMPREF1078_RS10880 0.30 -2.8
83,871 - HMPREF1078_RS10880 0.30 -1.0
83,899 + HMPREF1078_RS10880 0.40 -4.0
83,900 - HMPREF1078_RS10880 0.40 -0.4
83,903 - HMPREF1078_RS10880 0.41 +1.1
83,914 + HMPREF1078_RS10880 0.45 +1.1
83,915 - HMPREF1078_RS10880 0.45 +0.1
83,975 + HMPREF1078_RS10880 0.65 -0.3
83,976 - HMPREF1078_RS10880 0.65 -1.5
83,977 + HMPREF1078_RS10880 0.66 -1.7
83,977 + HMPREF1078_RS10880 0.66 -2.0
83,978 - HMPREF1078_RS10880 0.66 +0.2
83,978 - HMPREF1078_RS10880 0.66 -0.2
83,978 - HMPREF1078_RS10880 0.66 -0.6
83,978 - HMPREF1078_RS10880 0.66 -1.3
83,978 - HMPREF1078_RS10880 0.66 -2.0
83,978 - HMPREF1078_RS10880 0.66 -1.0
83,978 - HMPREF1078_RS10880 0.66 -0.9
83,978 - HMPREF1078_RS10880 0.66 -3.3
83,992 - HMPREF1078_RS10880 0.71 +0.0
84,022 + HMPREF1078_RS10880 0.81 -2.2
84,023 - HMPREF1078_RS10880 0.81 -0.4
84,033 - HMPREF1078_RS10880 0.84 -0.5
84,033 - HMPREF1078_RS10880 0.84 -0.5
84,033 - HMPREF1078_RS10880 0.84 +0.1
84,070 + -3.6
84,079 + -2.7
84,079 + +0.1
84,079 + -2.8
84,082 + -1.7
84,083 - -0.5
84,083 - -1.2
84,119 + -2.8
84,120 - -1.2
84,120 - -2.2
84,120 - -4.1
84,120 - -1.7
84,147 + -0.5
84,147 + +0.1
84,147 + -1.5
84,147 + -0.5
84,147 + -0.5
84,147 + -2.5
84,147 + -1.7
84,148 - -3.1
84,148 - -2.1
84,155 + -2.5
84,155 + -2.9
84,155 + -0.5
84,156 - +1.1
84,156 - -2.3
84,159 + -1.9
84,165 + -2.7
84,165 + -1.9
84,165 + +0.1
84,165 + -0.9
84,180 + HMPREF1078_RS10885 0.12 -3.0
84,231 + HMPREF1078_RS10885 0.17 +1.1
84,231 + HMPREF1078_RS10885 0.17 -0.5
84,231 + HMPREF1078_RS10885 0.17 -3.3
84,232 - HMPREF1078_RS10885 0.17 -3.8
84,232 - HMPREF1078_RS10885 0.17 -1.7
84,232 - HMPREF1078_RS10885 0.17 -2.8
84,232 - HMPREF1078_RS10885 0.17 -1.2
84,232 - HMPREF1078_RS10885 0.17 -1.7
84,253 + HMPREF1078_RS10885 0.20 -3.5
84,254 - HMPREF1078_RS10885 0.20 -3.0
84,256 + HMPREF1078_RS10885 0.20 -2.6
84,256 + HMPREF1078_RS10885 0.20 -1.2
84,310 + HMPREF1078_RS10885 0.26 -0.5
84,315 + HMPREF1078_RS10885 0.26 -2.2
84,315 + HMPREF1078_RS10885 0.26 +1.1
84,315 + HMPREF1078_RS10885 0.26 -2.3
84,316 - HMPREF1078_RS10885 0.27 -3.7
84,316 - HMPREF1078_RS10885 0.27 -2.6
84,316 - HMPREF1078_RS10885 0.27 -3.1
84,316 - HMPREF1078_RS10885 0.27 -3.0
84,316 - HMPREF1078_RS10885 0.27 -1.2
84,316 - HMPREF1078_RS10885 0.27 +1.1
84,324 + HMPREF1078_RS10885 0.27 -3.0
84,324 + HMPREF1078_RS10885 0.27 -1.7
84,331 - HMPREF1078_RS10885 0.28 -1.9
84,407 + HMPREF1078_RS10885 0.37 +1.1
84,407 + HMPREF1078_RS10885 0.37 -0.9
84,407 + HMPREF1078_RS10885 0.37 -2.6
84,408 - HMPREF1078_RS10885 0.37 -3.5
84,408 - HMPREF1078_RS10885 0.37 -2.5
84,428 - HMPREF1078_RS10885 0.39 -0.9
84,463 - HMPREF1078_RS10885 0.43 -0.9
84,463 - HMPREF1078_RS10885 0.43 -2.3
84,469 - HMPREF1078_RS10885 0.44 -2.2
84,469 - HMPREF1078_RS10885 0.44 -4.0
84,489 + HMPREF1078_RS10885 0.46 -2.6
84,497 + HMPREF1078_RS10885 0.47 +0.1
84,497 + HMPREF1078_RS10885 0.47 -2.3
84,497 + HMPREF1078_RS10885 0.47 -0.5
84,497 + HMPREF1078_RS10885 0.47 -2.6
84,498 - HMPREF1078_RS10885 0.47 -2.9
84,498 - HMPREF1078_RS10885 0.47 -3.6
84,502 + HMPREF1078_RS10885 0.47 -2.6
84,502 + HMPREF1078_RS10885 0.47 -1.5
84,503 - HMPREF1078_RS10885 0.47 -0.7
84,503 - HMPREF1078_RS10885 0.47 +0.1
84,503 - HMPREF1078_RS10885 0.47 -1.7
84,503 - HMPREF1078_RS10885 0.47 -1.2
84,550 - HMPREF1078_RS10885 0.52 -3.0
84,654 + HMPREF1078_RS10885 0.64 -2.2
84,655 - HMPREF1078_RS10885 0.64 -0.9
84,726 + HMPREF1078_RS10885 0.72 +1.1
84,775 + HMPREF1078_RS10885 0.77 -1.5
84,808 - HMPREF1078_RS10885 0.81 +1.1
84,808 - HMPREF1078_RS10885 0.81 +0.1
84,808 - HMPREF1078_RS10885 0.81 +1.1
84,854 - HMPREF1078_RS10885 0.86 -1.5
84,854 - HMPREF1078_RS10885 0.86 -1.2
85,019 - -1.5
85,019 - -0.5
85,019 - -1.7
85,385 + -0.6
85,399 - +0.3
85,428 + -1.5
85,445 + -1.7
85,448 - +0.2
85,484 - HMPREF1078_RS10895 0.13 -0.7
85,491 - HMPREF1078_RS10895 0.13 -0.3
85,521 + HMPREF1078_RS10895 0.16 -0.5
85,522 - HMPREF1078_RS10895 0.16 +2.2
85,576 - HMPREF1078_RS10895 0.22 +0.8
85,576 - HMPREF1078_RS10895 0.22 +0.5
85,582 + HMPREF1078_RS10895 0.22 -0.2
85,725 - HMPREF1078_RS10895 0.36 -0.5
85,728 - HMPREF1078_RS10895 0.36 +1.0
85,728 - HMPREF1078_RS10895 0.36 +0.9
85,728 - HMPREF1078_RS10895 0.36 -0.9
85,743 - HMPREF1078_RS10895 0.37 +0.9
85,771 + HMPREF1078_RS10895 0.40 -0.9
85,851 + HMPREF1078_RS10895 0.48 +1.1
85,962 + HMPREF1078_RS10895 0.58 -0.3
85,962 + HMPREF1078_RS10895 0.58 +0.1
85,963 - HMPREF1078_RS10895 0.58 -0.2
85,968 - HMPREF1078_RS10895 0.59 -1.1

Or see this region's nucleotide sequence