Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS21515

Experiment: Mucin from porcine stomach type II 2.5 mg/ml (C)

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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_RS04615 and HMPREF1058_RS04610 are separated by 104 nucleotidesHMPREF1058_RS04610 and HMPREF1058_RS21515 are separated by 55 nucleotidesHMPREF1058_RS21515 and HMPREF1058_RS04605 overlap by 22 nucleotidesHMPREF1058_RS04605 and HMPREF1058_RS04600 are separated by 109 nucleotides HMPREF1058_RS04615: HMPREF1058_RS04615 - hypothetical protein, at 311 to 829 _RS04615 HMPREF1058_RS04610: HMPREF1058_RS04610 - ATP-binding protein, at 934 to 1,530 _RS04610 HMPREF1058_RS21515: HMPREF1058_RS21515 - hypothetical protein, at 1,586 to 2,380 _RS21515 HMPREF1058_RS04605: HMPREF1058_RS04605 - HNH endonuclease, at 2,359 to 2,856 _RS04605 HMPREF1058_RS04600: HMPREF1058_RS04600 - hypothetical protein, at 2,966 to 3,409 _RS04600 Position (kb) 1 2 3Strain fitness (log2 ratio) -2 -1 0 1 2at 0.647 kb on - strand, within HMPREF1058_RS04615at 0.647 kb on - strandat 0.648 kb on + strand, within HMPREF1058_RS04615at 0.664 kb on - strand, within HMPREF1058_RS04615at 0.856 kb on - strandat 0.859 kb on + strandat 0.859 kb on + strandat 0.859 kb on + strandat 0.863 kb on + strandat 0.864 kb on - strandat 0.923 kb on + strandat 0.923 kb on + strandat 0.928 kb on + strandat 0.929 kb on - strandat 1.052 kb on + strand, within HMPREF1058_RS04610at 1.053 kb on - strand, within HMPREF1058_RS04610at 1.159 kb on + strand, within HMPREF1058_RS04610at 1.160 kb on - strand, within HMPREF1058_RS04610at 1.221 kb on - strand, within HMPREF1058_RS04610at 1.226 kb on + strand, within HMPREF1058_RS04610at 1.234 kb on + strand, within HMPREF1058_RS04610at 1.234 kb on + strand, within HMPREF1058_RS04610at 1.253 kb on + strand, within HMPREF1058_RS04610at 1.446 kb on - strand, within HMPREF1058_RS04610at 1.448 kb on + strand, within HMPREF1058_RS04610at 1.602 kb on + strandat 1.631 kb on + strandat 1.631 kb on + strandat 1.631 kb on + strandat 1.665 kb on + strandat 1.736 kb on - strand, within HMPREF1058_RS21515at 1.836 kb on + strand, within HMPREF1058_RS21515at 1.884 kb on + strand, within HMPREF1058_RS21515at 1.885 kb on - strand, within HMPREF1058_RS21515at 1.885 kb on - strand, within HMPREF1058_RS21515at 1.999 kb on + strand, within HMPREF1058_RS21515at 2.024 kb on - strand, within HMPREF1058_RS21515at 2.033 kb on + strand, within HMPREF1058_RS21515at 2.034 kb on - strand, within HMPREF1058_RS21515at 2.107 kb on + strand, within HMPREF1058_RS21515at 2.161 kb on + strand, within HMPREF1058_RS21515at 2.191 kb on - strand, within HMPREF1058_RS21515at 2.336 kb on - strandat 2.394 kb on + strandat 2.529 kb on + strand, within HMPREF1058_RS04605at 2.703 kb on + strand, within HMPREF1058_RS04605at 2.762 kb on + strand, within HMPREF1058_RS04605at 2.815 kb on + strandat 2.887 kb on + strandat 2.887 kb on + strandat 2.891 kb on + strandat 2.932 kb on + strandat 2.960 kb on + strandat 3.192 kb on + strand, within HMPREF1058_RS04600at 3.317 kb on + strand, within HMPREF1058_RS04600

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Per-strain Table

Position Strand Gene LocusTag Fraction Mucin from porcine stomach type II 2.5 mg/ml (C)
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647 - HMPREF1058_RS04615 0.65 -0.7
647 - +0.9
648 + HMPREF1058_RS04615 0.65 -0.4
664 - HMPREF1058_RS04615 0.68 +0.7
856 - +2.2
859 + -0.4
859 + +0.5
859 + -0.2
863 + -0.4
864 - +1.4
923 + -0.2
923 + -0.8
928 + -0.7
929 - -0.2
1,052 + HMPREF1058_RS04610 0.20 -1.0
1,053 - HMPREF1058_RS04610 0.20 -0.4
1,159 + HMPREF1058_RS04610 0.38 -0.7
1,160 - HMPREF1058_RS04610 0.38 -0.1
1,221 - HMPREF1058_RS04610 0.48 -0.4
1,226 + HMPREF1058_RS04610 0.49 +0.0
1,234 + HMPREF1058_RS04610 0.50 -0.3
1,234 + HMPREF1058_RS04610 0.50 -2.0
1,253 + HMPREF1058_RS04610 0.53 +0.3
1,446 - HMPREF1058_RS04610 0.86 -1.5
1,448 + HMPREF1058_RS04610 0.86 +0.6
1,602 + -2.7
1,631 + +0.5
1,631 + +1.2
1,631 + +0.2
1,665 + +0.3
1,736 - HMPREF1058_RS21515 0.19 -1.3
1,836 + HMPREF1058_RS21515 0.31 +0.1
1,884 + HMPREF1058_RS21515 0.37 -0.6
1,885 - HMPREF1058_RS21515 0.38 +0.6
1,885 - HMPREF1058_RS21515 0.38 -1.4
1,999 + HMPREF1058_RS21515 0.52 -0.3
2,024 - HMPREF1058_RS21515 0.55 -2.7
2,033 + HMPREF1058_RS21515 0.56 -0.6
2,034 - HMPREF1058_RS21515 0.56 +2.2
2,107 + HMPREF1058_RS21515 0.66 -1.3
2,161 + HMPREF1058_RS21515 0.72 -0.3
2,191 - HMPREF1058_RS21515 0.76 -1.9
2,336 - +0.4
2,394 + -0.5
2,529 + HMPREF1058_RS04605 0.34 -0.6
2,703 + HMPREF1058_RS04605 0.69 +0.0
2,762 + HMPREF1058_RS04605 0.81 -0.0
2,815 + -0.4
2,887 + -0.6
2,887 + -0.1
2,891 + +0.6
2,932 + -0.6
2,960 + -0.5
3,192 + HMPREF1058_RS04600 0.51 +1.0
3,317 + HMPREF1058_RS04600 0.79 +0.0

Or see this region's nucleotide sequence