Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS05870

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_RS05865 and HMPREF1078_RS05870 are separated by 158 nucleotidesHMPREF1078_RS05870 and HMPREF1078_RS05875 are separated by 139 nucleotidesHMPREF1078_RS05875 and HMPREF1078_RS05880 are separated by 1 nucleotidesHMPREF1078_RS05880 and HMPREF1078_RS05885 are separated by 79 nucleotides HMPREF1078_RS05865: HMPREF1078_RS05865 - glycoside hydrolase family 2 TIM barrel-domain containing protein, at 501,143 to 503,644 _RS05865 HMPREF1078_RS05870: HMPREF1078_RS05870 - PglZ domain-containing protein, at 503,803 to 505,353 _RS05870 HMPREF1078_RS05875: HMPREF1078_RS05875 - tRNA (adenosine(37)-N6)-threonylcarbamoyltransferase complex ATPase subunit type 1 TsaE, at 505,493 to 505,912 _RS05875 HMPREF1078_RS05880: HMPREF1078_RS05880 - immunity 17 family protein, at 505,914 to 506,129 _RS05880 HMPREF1078_RS05885: HMPREF1078_RS05885 - ribonuclease R, at 506,209 to 508,389 _RS05885 Position (kb) 503 504 505 506Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 502.807 kb on + strand, within HMPREF1078_RS05865at 502.839 kb on + strand, within HMPREF1078_RS05865at 502.865 kb on + strand, within HMPREF1078_RS05865at 502.866 kb on - strand, within HMPREF1078_RS05865at 502.965 kb on + strand, within HMPREF1078_RS05865at 503.042 kb on - strand, within HMPREF1078_RS05865at 503.124 kb on - strand, within HMPREF1078_RS05865at 503.226 kb on + strand, within HMPREF1078_RS05865at 503.227 kb on - strand, within HMPREF1078_RS05865at 503.257 kb on - strand, within HMPREF1078_RS05865at 503.302 kb on + strand, within HMPREF1078_RS05865at 503.302 kb on + strand, within HMPREF1078_RS05865at 503.303 kb on - strand, within HMPREF1078_RS05865at 503.335 kb on - strand, within HMPREF1078_RS05865at 503.568 kb on - strandat 503.631 kb on - strandat 503.644 kb on + strandat 503.644 kb on + strandat 503.644 kb on + strandat 503.644 kb on + strandat 503.644 kb on + strandat 503.645 kb on - strandat 503.650 kb on + strandat 503.651 kb on - strandat 503.651 kb on - strandat 503.651 kb on - strandat 503.651 kb on - strandat 503.666 kb on - strandat 503.667 kb on + strandat 503.673 kb on - strandat 503.684 kb on - strandat 503.730 kb on + strandat 503.731 kb on - strandat 503.796 kb on + strandat 503.802 kb on + strandat 503.802 kb on + strandat 503.938 kb on - strandat 504.150 kb on + strand, within HMPREF1078_RS05870at 504.176 kb on + strand, within HMPREF1078_RS05870at 504.176 kb on + strand, within HMPREF1078_RS05870at 504.177 kb on - strand, within HMPREF1078_RS05870at 504.177 kb on - strand, within HMPREF1078_RS05870at 504.182 kb on + strand, within HMPREF1078_RS05870at 504.293 kb on - strand, within HMPREF1078_RS05870at 504.494 kb on + strand, within HMPREF1078_RS05870at 504.494 kb on + strand, within HMPREF1078_RS05870at 504.495 kb on - strand, within HMPREF1078_RS05870at 504.562 kb on + strand, within HMPREF1078_RS05870at 504.563 kb on - strand, within HMPREF1078_RS05870at 504.566 kb on - strand, within HMPREF1078_RS05870at 504.616 kb on + strand, within HMPREF1078_RS05870at 504.768 kb on + strand, within HMPREF1078_RS05870at 504.769 kb on - strand, within HMPREF1078_RS05870at 504.769 kb on - strand, within HMPREF1078_RS05870at 504.788 kb on + strand, within HMPREF1078_RS05870at 504.788 kb on + strand, within HMPREF1078_RS05870at 504.788 kb on + strand, within HMPREF1078_RS05870at 504.802 kb on + strand, within HMPREF1078_RS05870at 504.803 kb on - strand, within HMPREF1078_RS05870at 504.864 kb on - strand, within HMPREF1078_RS05870at 504.879 kb on + strand, within HMPREF1078_RS05870at 504.880 kb on - strand, within HMPREF1078_RS05870at 504.943 kb on + strand, within HMPREF1078_RS05870at 505.002 kb on + strand, within HMPREF1078_RS05870at 505.002 kb on + strand, within HMPREF1078_RS05870at 505.020 kb on + strand, within HMPREF1078_RS05870at 505.021 kb on - strand, within HMPREF1078_RS05870at 505.021 kb on - strand, within HMPREF1078_RS05870at 505.079 kb on + strand, within HMPREF1078_RS05870at 505.079 kb on + strand, within HMPREF1078_RS05870at 505.093 kb on - strand, within HMPREF1078_RS05870at 505.098 kb on + strand, within HMPREF1078_RS05870at 505.135 kb on + strand, within HMPREF1078_RS05870at 505.141 kb on - strand, within HMPREF1078_RS05870at 505.210 kb on + strandat 505.211 kb on - strandat 505.212 kb on + strandat 505.212 kb on + strandat 505.212 kb on + strandat 505.213 kb on - strandat 505.213 kb on - strandat 505.255 kb on + strandat 505.255 kb on + strandat 505.255 kb on + strandat 505.256 kb on - strandat 505.256 kb on - strandat 505.257 kb on + strandat 505.257 kb on + strandat 505.265 kb on - strandat 505.274 kb on - strandat 505.279 kb on - strandat 505.284 kb on + strandat 505.284 kb on + strandat 505.302 kb on + strandat 505.302 kb on + strandat 505.302 kb on + strandat 505.303 kb on - strandat 505.369 kb on + strandat 505.390 kb on + strandat 505.390 kb on + strandat 505.899 kb on + strandat 505.929 kb on + strandat 505.942 kb on + strand, within HMPREF1078_RS05880at 506.042 kb on - strand, within HMPREF1078_RS05880at 506.068 kb on - strand, within HMPREF1078_RS05880at 506.115 kb on - strandat 506.130 kb on + strandat 506.164 kb on - strandat 506.264 kb on - strandat 506.345 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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502,807 + HMPREF1078_RS05865 0.67 +1.7
502,839 + HMPREF1078_RS05865 0.68 +0.3
502,865 + HMPREF1078_RS05865 0.69 +0.2
502,866 - HMPREF1078_RS05865 0.69 +0.1
502,965 + HMPREF1078_RS05865 0.73 -1.6
503,042 - HMPREF1078_RS05865 0.76 +0.8
503,124 - HMPREF1078_RS05865 0.79 -1.6
503,226 + HMPREF1078_RS05865 0.83 +0.4
503,227 - HMPREF1078_RS05865 0.83 +2.3
503,257 - HMPREF1078_RS05865 0.84 +1.3
503,302 + HMPREF1078_RS05865 0.86 -0.1
503,302 + HMPREF1078_RS05865 0.86 -0.3
503,303 - HMPREF1078_RS05865 0.86 -1.1
503,335 - HMPREF1078_RS05865 0.88 -1.1
503,568 - -0.1
503,631 - -2.4
503,644 + +1.6
503,644 + +1.8
503,644 + +0.9
503,644 + +1.3
503,644 + -1.0
503,645 - -0.1
503,650 + +0.0
503,651 - -3.2
503,651 - -0.0
503,651 - -2.5
503,651 - -0.3
503,666 - -0.1
503,667 + +0.4
503,673 - +0.4
503,684 - +0.1
503,730 + -0.8
503,731 - -2.4
503,796 + -0.9
503,802 + -0.7
503,802 + -0.6
503,938 - -2.1
504,150 + HMPREF1078_RS05870 0.22 -2.6
504,176 + HMPREF1078_RS05870 0.24 -2.6
504,176 + HMPREF1078_RS05870 0.24 +0.9
504,177 - HMPREF1078_RS05870 0.24 -2.9
504,177 - HMPREF1078_RS05870 0.24 -3.5
504,182 + HMPREF1078_RS05870 0.24 +0.9
504,293 - HMPREF1078_RS05870 0.32 -3.1
504,494 + HMPREF1078_RS05870 0.45 -2.8
504,494 + HMPREF1078_RS05870 0.45 +0.9
504,495 - HMPREF1078_RS05870 0.45 -2.1
504,562 + HMPREF1078_RS05870 0.49 -1.9
504,563 - HMPREF1078_RS05870 0.49 +0.9
504,566 - HMPREF1078_RS05870 0.49 -2.7
504,616 + HMPREF1078_RS05870 0.52 -4.0
504,768 + HMPREF1078_RS05870 0.62 -1.7
504,769 - HMPREF1078_RS05870 0.62 -2.4
504,769 - HMPREF1078_RS05870 0.62 -1.7
504,788 + HMPREF1078_RS05870 0.64 -1.1
504,788 + HMPREF1078_RS05870 0.64 -2.4
504,788 + HMPREF1078_RS05870 0.64 -1.9
504,802 + HMPREF1078_RS05870 0.64 -3.4
504,803 - HMPREF1078_RS05870 0.64 -1.1
504,864 - HMPREF1078_RS05870 0.68 -2.8
504,879 + HMPREF1078_RS05870 0.69 -3.6
504,880 - HMPREF1078_RS05870 0.69 -2.7
504,943 + HMPREF1078_RS05870 0.74 -3.4
505,002 + HMPREF1078_RS05870 0.77 -0.1
505,002 + HMPREF1078_RS05870 0.77 -3.0
505,020 + HMPREF1078_RS05870 0.78 -1.1
505,021 - HMPREF1078_RS05870 0.79 -1.4
505,021 - HMPREF1078_RS05870 0.79 -0.7
505,079 + HMPREF1078_RS05870 0.82 -1.1
505,079 + HMPREF1078_RS05870 0.82 -1.9
505,093 - HMPREF1078_RS05870 0.83 -1.9
505,098 + HMPREF1078_RS05870 0.83 -1.9
505,135 + HMPREF1078_RS05870 0.86 -3.4
505,141 - HMPREF1078_RS05870 0.86 -2.3
505,210 + -4.5
505,211 - -0.7
505,212 + -1.7
505,212 + -1.1
505,212 + +0.9
505,213 - -3.4
505,213 - -3.2
505,255 + -2.3
505,255 + -2.1
505,255 + -0.1
505,256 - -3.7
505,256 - -0.7
505,257 + -2.3
505,257 + -4.3
505,265 - -1.6
505,274 - -0.1
505,279 - -2.6
505,284 + -1.4
505,284 + -0.1
505,302 + -1.4
505,302 + -1.4
505,302 + -4.1
505,303 - -0.1
505,369 + -0.1
505,390 + +0.7
505,390 + +0.6
505,899 + -1.2
505,929 + +0.9
505,942 + HMPREF1078_RS05880 0.13 -1.0
506,042 - HMPREF1078_RS05880 0.59 -1.4
506,068 - HMPREF1078_RS05880 0.71 -0.3
506,115 - +0.1
506,130 + +0.1
506,164 - +0.5
506,264 - -1.7
506,345 + -2.7

Or see this region's nucleotide sequence