Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06640

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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 ntHMPREF1058_RS06645 and HMPREF1058_RS06640 are separated by 7 nucleotidesHMPREF1058_RS06640 and HMPREF1058_RS06635 are separated by 176 nucleotidesHMPREF1058_RS06635 and HMPREF1058_RS06630 overlap by 1 nucleotides HMPREF1058_RS06645: HMPREF1058_RS06645 - SLBB domain-containing protein, at 428,720 to 431,212 _RS06645 HMPREF1058_RS06640: HMPREF1058_RS06640 - chain-length determining protein, at 431,220 to 432,359 _RS06640 HMPREF1058_RS06635: HMPREF1058_RS06635 - dTDP-4-dehydrorhamnose 3,5-epimerase, at 432,536 to 433,105 _RS06635 HMPREF1058_RS06630: HMPREF1058_RS06630 - glucose-1-phosphate thymidylyltransferase RfbA, at 433,105 to 433,992 _RS06630 Position (kb) 431 432 433Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 430.268 kb on + strand, within HMPREF1058_RS06645at 430.328 kb on - strand, within HMPREF1058_RS06645at 430.330 kb on + strand, within HMPREF1058_RS06645at 430.330 kb on + strand, within HMPREF1058_RS06645at 430.332 kb on + strand, within HMPREF1058_RS06645at 430.442 kb on + strand, within HMPREF1058_RS06645at 430.442 kb on + strand, within HMPREF1058_RS06645at 430.515 kb on + strand, within HMPREF1058_RS06645at 430.515 kb on + strand, within HMPREF1058_RS06645at 430.517 kb on + strand, within HMPREF1058_RS06645at 430.518 kb on - strand, within HMPREF1058_RS06645at 430.518 kb on - strand, within HMPREF1058_RS06645at 430.525 kb on + strand, within HMPREF1058_RS06645at 430.666 kb on + strand, within HMPREF1058_RS06645at 430.718 kb on - strand, within HMPREF1058_RS06645at 430.789 kb on + strand, within HMPREF1058_RS06645at 430.794 kb on - strand, within HMPREF1058_RS06645at 430.794 kb on - strand, within HMPREF1058_RS06645at 430.796 kb on + strand, within HMPREF1058_RS06645at 430.797 kb on - strand, within HMPREF1058_RS06645at 430.890 kb on - strand, within HMPREF1058_RS06645at 430.903 kb on - strand, within HMPREF1058_RS06645at 430.967 kb on + strandat 430.972 kb on + strandat 430.972 kb on + strandat 430.973 kb on - strandat 430.974 kb on + strandat 431.022 kb on - strandat 431.028 kb on + strandat 431.033 kb on - strandat 431.180 kb on - strandat 431.180 kb on - strandat 431.180 kb on - strandat 431.191 kb on + strandat 431.191 kb on + strandat 431.197 kb on + strandat 431.205 kb on + strandat 431.246 kb on + strandat 431.306 kb on + strandat 431.351 kb on - strand, within HMPREF1058_RS06640at 431.357 kb on + strand, within HMPREF1058_RS06640at 431.397 kb on + strand, within HMPREF1058_RS06640at 431.399 kb on + strand, within HMPREF1058_RS06640at 431.400 kb on - strand, within HMPREF1058_RS06640at 431.521 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.610 kb on - strand, within HMPREF1058_RS06640at 431.621 kb on - strand, within HMPREF1058_RS06640at 431.626 kb on - strand, within HMPREF1058_RS06640at 431.911 kb on - strand, within HMPREF1058_RS06640at 431.970 kb on + strand, within HMPREF1058_RS06640at 431.971 kb on - strand, within HMPREF1058_RS06640at 431.991 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.995 kb on - strand, within HMPREF1058_RS06640at 431.995 kb on - strand, within HMPREF1058_RS06640at 432.012 kb on + strand, within HMPREF1058_RS06640at 432.012 kb on + strand, within HMPREF1058_RS06640at 432.102 kb on + strand, within HMPREF1058_RS06640at 432.103 kb on - strand, within HMPREF1058_RS06640at 432.111 kb on + strand, within HMPREF1058_RS06640at 432.111 kb on + strand, within HMPREF1058_RS06640at 432.112 kb on - strand, within HMPREF1058_RS06640at 432.112 kb on - strand, within HMPREF1058_RS06640at 432.113 kb on + strand, within HMPREF1058_RS06640at 432.326 kb on + strandat 432.360 kb on + strandat 432.360 kb on + strandat 432.362 kb on + strandat 432.363 kb on - strandat 432.363 kb on - strandat 432.363 kb on - strandat 432.363 kb on - strandat 432.378 kb on + strandat 432.417 kb on - strandat 432.424 kb on + strandat 432.475 kb on - strandat 432.541 kb on - strandat 432.573 kb on + strandat 433.139 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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430,268 + HMPREF1058_RS06645 0.62 -3.5
430,328 - HMPREF1058_RS06645 0.65 -2.3
430,330 + HMPREF1058_RS06645 0.65 -1.0
430,330 + HMPREF1058_RS06645 0.65 -4.7
430,332 + HMPREF1058_RS06645 0.65 -2.8
430,442 + HMPREF1058_RS06645 0.69 -2.6
430,442 + HMPREF1058_RS06645 0.69 -2.8
430,515 + HMPREF1058_RS06645 0.72 -3.9
430,515 + HMPREF1058_RS06645 0.72 -1.6
430,517 + HMPREF1058_RS06645 0.72 -1.0
430,518 - HMPREF1058_RS06645 0.72 +1.2
430,518 - HMPREF1058_RS06645 0.72 -1.0
430,525 + HMPREF1058_RS06645 0.72 -2.2
430,666 + HMPREF1058_RS06645 0.78 -2.6
430,718 - HMPREF1058_RS06645 0.80 -3.5
430,789 + HMPREF1058_RS06645 0.83 -2.0
430,794 - HMPREF1058_RS06645 0.83 -3.2
430,794 - HMPREF1058_RS06645 0.83 -0.8
430,796 + HMPREF1058_RS06645 0.83 -1.6
430,797 - HMPREF1058_RS06645 0.83 -4.2
430,890 - HMPREF1058_RS06645 0.87 -1.0
430,903 - HMPREF1058_RS06645 0.88 -2.0
430,967 + -3.3
430,972 + -2.3
430,972 + +2.0
430,973 - -3.9
430,974 + -1.6
431,022 - -1.6
431,028 + -2.3
431,033 - -4.0
431,180 - -2.0
431,180 - -2.0
431,180 - -4.8
431,191 + -2.8
431,191 + -3.0
431,197 + -1.7
431,205 + +2.8
431,246 + -3.0
431,306 + -3.2
431,351 - HMPREF1058_RS06640 0.11 -1.0
431,357 + HMPREF1058_RS06640 0.12 -0.6
431,397 + HMPREF1058_RS06640 0.16 -1.6
431,399 + HMPREF1058_RS06640 0.16 -1.7
431,400 - HMPREF1058_RS06640 0.16 -3.6
431,521 + HMPREF1058_RS06640 0.26 -1.6
431,539 + HMPREF1058_RS06640 0.28 -3.7
431,539 + HMPREF1058_RS06640 0.28 -2.0
431,539 + HMPREF1058_RS06640 0.28 -3.0
431,540 - HMPREF1058_RS06640 0.28 -1.6
431,540 - HMPREF1058_RS06640 0.28 -3.0
431,540 - HMPREF1058_RS06640 0.28 -2.0
431,610 - HMPREF1058_RS06640 0.34 -3.3
431,621 - HMPREF1058_RS06640 0.35 -2.6
431,626 - HMPREF1058_RS06640 0.36 -3.6
431,911 - HMPREF1058_RS06640 0.61 -3.2
431,970 + HMPREF1058_RS06640 0.66 -3.8
431,971 - HMPREF1058_RS06640 0.66 -1.3
431,991 + HMPREF1058_RS06640 0.68 -3.2
431,994 + HMPREF1058_RS06640 0.68 -1.1
431,994 + HMPREF1058_RS06640 0.68 -2.1
431,994 + HMPREF1058_RS06640 0.68 -0.7
431,994 + HMPREF1058_RS06640 0.68 -1.6
431,995 - HMPREF1058_RS06640 0.68 -2.8
431,995 - HMPREF1058_RS06640 0.68 -0.9
432,012 + HMPREF1058_RS06640 0.69 -3.2
432,012 + HMPREF1058_RS06640 0.69 -1.6
432,102 + HMPREF1058_RS06640 0.77 -2.6
432,103 - HMPREF1058_RS06640 0.77 -3.8
432,111 + HMPREF1058_RS06640 0.78 -2.6
432,111 + HMPREF1058_RS06640 0.78 -2.8
432,112 - HMPREF1058_RS06640 0.78 -1.6
432,112 - HMPREF1058_RS06640 0.78 -0.0
432,113 + HMPREF1058_RS06640 0.78 -2.0
432,326 + -0.6
432,360 + +2.0
432,360 + +0.6
432,362 + +0.2
432,363 - -1.0
432,363 - +1.7
432,363 - +0.4
432,363 - +0.4
432,378 + -1.0
432,417 - +0.1
432,424 + -1.8
432,475 - +3.7
432,541 - -0.4
432,573 + -1.0
433,139 - -1.6

Or see this region's nucleotide sequence