Strain Fitness in Parabacteroides merdae CL09T00C40 around HMPREF1078_RS04480

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS04465 and HMPREF1078_RS04470 are separated by 81 nucleotidesHMPREF1078_RS04470 and HMPREF1078_RS04475 are separated by 73 nucleotidesHMPREF1078_RS04475 and HMPREF1078_RS04480 are separated by 15 nucleotidesHMPREF1078_RS04480 and HMPREF1078_RS04485 are separated by 7 nucleotidesHMPREF1078_RS04485 and HMPREF1078_RS04490 are separated by 126 nucleotides HMPREF1078_RS04465: HMPREF1078_RS04465 - HU family DNA-binding protein, at 128,389 to 128,835 _RS04465 HMPREF1078_RS04470: HMPREF1078_RS04470 - DUF4248 domain-containing protein, at 128,917 to 129,141 _RS04470 HMPREF1078_RS04475: HMPREF1078_RS04475 - glucosaminidase domain-containing protein, at 129,215 to 129,715 _RS04475 HMPREF1078_RS04480: HMPREF1078_RS04480 - hypothetical protein, at 129,731 to 130,078 _RS04480 HMPREF1078_RS04485: HMPREF1078_RS04485 - T9SS type A sorting domain-containing protein, at 130,086 to 130,415 _RS04485 HMPREF1078_RS04490: HMPREF1078_RS04490 - ribonuclease Z, at 130,542 to 131,456 _RS04490 Position (kb) 129 130 131Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 128.756 kb on - strand, within HMPREF1078_RS04465at 128.869 kb on - strandat 128.946 kb on - strand, within HMPREF1078_RS04470at 128.970 kb on - strand, within HMPREF1078_RS04470at 128.970 kb on - strand, within HMPREF1078_RS04470at 129.073 kb on - strand, within HMPREF1078_RS04470at 129.112 kb on + strand, within HMPREF1078_RS04470at 129.113 kb on - strand, within HMPREF1078_RS04470at 129.181 kb on - strandat 129.211 kb on + strandat 129.211 kb on + strandat 129.211 kb on + strandat 129.212 kb on - strandat 129.213 kb on + strandat 129.213 kb on + strandat 129.238 kb on - strandat 129.242 kb on - strandat 129.242 kb on - strandat 129.242 kb on - strandat 129.383 kb on + strand, within HMPREF1078_RS04475at 129.462 kb on - strand, within HMPREF1078_RS04475at 129.581 kb on + strand, within HMPREF1078_RS04475at 129.584 kb on - strand, within HMPREF1078_RS04475at 129.584 kb on - strand, within HMPREF1078_RS04475at 129.699 kb on + strandat 129.962 kb on + strand, within HMPREF1078_RS04480at 129.962 kb on + strand, within HMPREF1078_RS04480at 129.962 kb on + strand, within HMPREF1078_RS04480at 129.962 kb on + strand, within HMPREF1078_RS04480at 129.963 kb on - strand, within HMPREF1078_RS04480at 129.963 kb on - strand, within HMPREF1078_RS04480at 129.963 kb on - strand, within HMPREF1078_RS04480at 129.964 kb on + strand, within HMPREF1078_RS04480at 129.965 kb on - strand, within HMPREF1078_RS04480at 129.965 kb on - strand, within HMPREF1078_RS04480at 130.046 kb on + strandat 130.132 kb on + strand, within HMPREF1078_RS04485at 130.132 kb on + strand, within HMPREF1078_RS04485at 130.133 kb on - strand, within HMPREF1078_RS04485at 130.133 kb on - strand, within HMPREF1078_RS04485at 130.133 kb on - strand, within HMPREF1078_RS04485at 130.133 kb on - strand, within HMPREF1078_RS04485at 130.133 kb on - strand, within HMPREF1078_RS04485at 130.135 kb on + strand, within HMPREF1078_RS04485at 130.135 kb on + strand, within HMPREF1078_RS04485at 130.157 kb on + strand, within HMPREF1078_RS04485at 130.157 kb on + strand, within HMPREF1078_RS04485at 130.157 kb on + strand, within HMPREF1078_RS04485at 130.158 kb on - strand, within HMPREF1078_RS04485at 130.158 kb on - strand, within HMPREF1078_RS04485at 130.158 kb on - strand, within HMPREF1078_RS04485at 130.206 kb on + strand, within HMPREF1078_RS04485at 130.206 kb on + strand, within HMPREF1078_RS04485at 130.270 kb on + strand, within HMPREF1078_RS04485at 130.271 kb on - strand, within HMPREF1078_RS04485at 130.401 kb on - strandat 130.415 kb on + strandat 130.416 kb on - strandat 130.418 kb on - strandat 130.418 kb on - strandat 130.436 kb on - strandat 130.464 kb on + strandat 130.478 kb on + strandat 130.631 kb on - strandat 130.810 kb on + strand, within HMPREF1078_RS04490at 130.811 kb on - strand, within HMPREF1078_RS04490at 130.811 kb on - strand, within HMPREF1078_RS04490at 130.904 kb on - strand, within HMPREF1078_RS04490at 130.904 kb on - strand, within HMPREF1078_RS04490at 130.922 kb on + strand, within HMPREF1078_RS04490at 130.922 kb on + strand, within HMPREF1078_RS04490at 130.923 kb on - strand, within HMPREF1078_RS04490at 130.977 kb on - strand, within HMPREF1078_RS04490at 131.009 kb on - strand, within HMPREF1078_RS04490

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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128,756 - HMPREF1078_RS04465 0.82 -1.1
128,869 - -0.6
128,946 - HMPREF1078_RS04470 0.13 -0.9
128,970 - HMPREF1078_RS04470 0.24 -1.2
128,970 - HMPREF1078_RS04470 0.24 -3.3
129,073 - HMPREF1078_RS04470 0.69 -2.1
129,112 + HMPREF1078_RS04470 0.87 -0.9
129,113 - HMPREF1078_RS04470 0.87 +0.1
129,181 - -0.0
129,211 + -2.4
129,211 + -0.7
129,211 + +2.2
129,212 - +1.5
129,213 + +0.1
129,213 + +2.1
129,238 - -2.9
129,242 - +1.4
129,242 - +1.0
129,242 - +0.6
129,383 + HMPREF1078_RS04475 0.34 -1.6
129,462 - HMPREF1078_RS04475 0.49 +4.4
129,581 + HMPREF1078_RS04475 0.73 -0.0
129,584 - HMPREF1078_RS04475 0.74 +0.7
129,584 - HMPREF1078_RS04475 0.74 -1.0
129,699 + +1.8
129,962 + HMPREF1078_RS04480 0.66 +1.3
129,962 + HMPREF1078_RS04480 0.66 -0.5
129,962 + HMPREF1078_RS04480 0.66 -0.7
129,962 + HMPREF1078_RS04480 0.66 +2.1
129,963 - HMPREF1078_RS04480 0.67 +0.7
129,963 - HMPREF1078_RS04480 0.67 -4.1
129,963 - HMPREF1078_RS04480 0.67 +1.2
129,964 + HMPREF1078_RS04480 0.67 +4.1
129,965 - HMPREF1078_RS04480 0.67 +0.3
129,965 - HMPREF1078_RS04480 0.67 +2.4
130,046 + +1.3
130,132 + HMPREF1078_RS04485 0.14 -1.4
130,132 + HMPREF1078_RS04485 0.14 -2.3
130,133 - HMPREF1078_RS04485 0.14 -2.5
130,133 - HMPREF1078_RS04485 0.14 +0.1
130,133 - HMPREF1078_RS04485 0.14 -1.7
130,133 - HMPREF1078_RS04485 0.14 -0.1
130,133 - HMPREF1078_RS04485 0.14 -2.1
130,135 + HMPREF1078_RS04485 0.15 -1.5
130,135 + HMPREF1078_RS04485 0.15 -1.5
130,157 + HMPREF1078_RS04485 0.22 -3.4
130,157 + HMPREF1078_RS04485 0.22 +2.3
130,157 + HMPREF1078_RS04485 0.22 -0.5
130,158 - HMPREF1078_RS04485 0.22 -1.6
130,158 - HMPREF1078_RS04485 0.22 +0.5
130,158 - HMPREF1078_RS04485 0.22 -3.5
130,206 + HMPREF1078_RS04485 0.36 -1.1
130,206 + HMPREF1078_RS04485 0.36 -0.8
130,270 + HMPREF1078_RS04485 0.56 -1.6
130,271 - HMPREF1078_RS04485 0.56 +1.1
130,401 - -1.7
130,415 + -0.2
130,416 - +0.7
130,418 - +1.5
130,418 - -1.7
130,436 - +0.5
130,464 + +2.3
130,478 + -2.1
130,631 - +4.2
130,810 + HMPREF1078_RS04490 0.29 -2.1
130,811 - HMPREF1078_RS04490 0.29 +0.2
130,811 - HMPREF1078_RS04490 0.29 +1.2
130,904 - HMPREF1078_RS04490 0.40 +0.5
130,904 - HMPREF1078_RS04490 0.40 +1.2
130,922 + HMPREF1078_RS04490 0.42 -0.2
130,922 + HMPREF1078_RS04490 0.42 -2.2
130,923 - HMPREF1078_RS04490 0.42 -0.9
130,977 - HMPREF1078_RS04490 0.48 +0.8
131,009 - HMPREF1078_RS04490 0.51 +3.8

Or see this region's nucleotide sequence