Strain Fitness in Pseudomonas fluorescens FW300-N1B4 around Pf1N1B4_1080

Experiment: Doxycycline hyclate 0.0001 mg/ml

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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 ntPf1N1B4_1078 and Pf1N1B4_1079 overlap by 1 nucleotidesPf1N1B4_1079 and Pf1N1B4_1080 are separated by 209 nucleotidesPf1N1B4_1080 and Pf1N1B4_1081 are separated by 79 nucleotidesPf1N1B4_1081 and Pf1N1B4_1082 are separated by 54 nucleotidesPf1N1B4_1082 and Pf1N1B4_1083 are separated by 2 nucleotides Pf1N1B4_1078 - LptA, protein essential for LPS transport across the periplasm, at 1,210,749 to 1,211,240 _1078 Pf1N1B4_1079 - Lipopolysaccharide ABC transporter, ATP-binding protein LptB, at 1,211,240 to 1,211,965 _1079 Pf1N1B4_1080 - RNA polymerase sigma-54 factor RpoN, at 1,212,175 to 1,213,644 _1080 Pf1N1B4_1081 - Ribosome hibernation protein YhbH, at 1,213,724 to 1,214,032 _1081 Pf1N1B4_1082 - PTS IIA-like nitrogen-regulatory protein PtsN, at 1,214,087 to 1,214,509 _1082 Pf1N1B4_1083 - Hypothetical ATP-binding protein UPF0042, contains P-loop, at 1,214,512 to 1,215,369 _1083 Position (kb) 1212 1213 1214Strain fitness (log2 ratio) -2 -1 0 1 2at 1211.964 kb on - strandat 1211.964 kb on - strandat 1211.964 kb on - strandat 1212.009 kb on - strandat 1212.027 kb on + strandat 1212.027 kb on + strandat 1212.028 kb on - strandat 1212.033 kb on + strandat 1212.033 kb on + strandat 1212.034 kb on - strandat 1212.044 kb on - strandat 1212.044 kb on - strandat 1212.044 kb on - strandat 1212.071 kb on - strandat 1212.071 kb on - strandat 1212.103 kb on + strandat 1212.131 kb on + strandat 1212.139 kb on + strandat 1213.696 kb on + strandat 1213.696 kb on + strandat 1213.723 kb on + strandat 1213.723 kb on + strandat 1213.723 kb on + strandat 1213.778 kb on + strandat 1213.778 kb on + strand, within Pf1N1B4_1081at 1213.778 kb on + strand, within Pf1N1B4_1081at 1213.888 kb on + strand, within Pf1N1B4_1081at 1213.888 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strand, within Pf1N1B4_1081at 1213.934 kb on + strandat 1213.934 kb on + strand, within Pf1N1B4_1081

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Per-strain Table

Position Strand Gene LocusTag Fraction Doxycycline hyclate 0.0001 mg/ml
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1,211,964 - -0.6
1,211,964 - -0.1
1,211,964 - +1.0
1,212,009 - +0.4
1,212,027 + +0.2
1,212,027 + +1.1
1,212,028 - +1.6
1,212,033 + -1.2
1,212,033 + +1.4
1,212,034 - +0.4
1,212,044 - +1.4
1,212,044 - +2.4
1,212,044 - +0.4
1,212,071 - -0.6
1,212,071 - -1.6
1,212,103 + +1.1
1,212,131 + +2.0
1,212,139 + +1.8
1,213,696 + +1.1
1,213,696 + +0.8
1,213,723 + -2.6
1,213,723 + +0.4
1,213,723 + +0.5
1,213,778 + +0.4
1,213,778 + Pf1N1B4_1081 0.17 +1.4
1,213,778 + Pf1N1B4_1081 0.17 -1.8
1,213,888 + Pf1N1B4_1081 0.53 -0.7
1,213,888 + Pf1N1B4_1081 0.53 -1.5
1,213,934 + -0.6
1,213,934 + Pf1N1B4_1081 0.68 -1.1
1,213,934 + Pf1N1B4_1081 0.68 +2.1
1,213,934 + Pf1N1B4_1081 0.68 +0.1
1,213,934 + Pf1N1B4_1081 0.68 +1.6
1,213,934 + Pf1N1B4_1081 0.68 -1.6
1,213,934 + Pf1N1B4_1081 0.68 -0.8
1,213,934 + Pf1N1B4_1081 0.68 -0.6
1,213,934 + Pf1N1B4_1081 0.68 -1.8
1,213,934 + Pf1N1B4_1081 0.68 -1.1
1,213,934 + Pf1N1B4_1081 0.68 -0.4
1,213,934 + Pf1N1B4_1081 0.68 -1.4
1,213,934 + Pf1N1B4_1081 0.68 -0.9
1,213,934 + Pf1N1B4_1081 0.68 -0.1
1,213,934 + -0.9
1,213,934 + -0.2
1,213,934 + Pf1N1B4_1081 0.68 -0.1
1,213,934 + Pf1N1B4_1081 0.68 -1.6
1,213,934 + Pf1N1B4_1081 0.68 -1.2
1,213,934 + Pf1N1B4_1081 0.68 -1.4
1,213,934 + Pf1N1B4_1081 0.68 -0.9
1,213,934 + Pf1N1B4_1081 0.68 -1.2
1,213,934 + +1.8
1,213,934 + Pf1N1B4_1081 0.68 +0.8

Or see this region's nucleotide sequence