Strain Fitness in Shewanella loihica PV-4 around Shew_3311

Experiment: Motility M4

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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 ntShew_3309 and Shew_3310 overlap by 4 nucleotidesShew_3310 and Shew_3311 are separated by 134 nucleotidesShew_3311 and Shew_3312 are separated by 30 nucleotidesShew_3312 and Shew_3313 are separated by 2 nucleotidesShew_3313 and Shew_3314 overlap by 4 nucleotides Shew_3309: Shew_3309 - OstA family protein (RefSeq), at 3,950,185 to 3,950,730 _3309 Shew_3310: Shew_3310 - ABC transporter-related protein (RefSeq), at 3,950,727 to 3,951,458 _3310 Shew_3311: Shew_3311 - RNA polymerase factor sigma-54 (RefSeq), at 3,951,593 to 3,953,080 _3311 Shew_3312: Shew_3312 - sigma 54 modulation protein/ribosomal protein S30EA (RefSeq), at 3,953,111 to 3,953,398 _3312 Shew_3313: Shew_3313 - PTS IIA-like nitrogen-regulatory protein PtsN (RefSeq), at 3,953,401 to 3,953,844 _3313 Shew_3314: Shew_3314 - hypothetical protein (RefSeq), at 3,953,841 to 3,954,689 _3314 Position (kb) 3951 3952 3953 3954Strain fitness (log2 ratio) -7 -6 -5 -4 -3 -2 -1 0 1at 3951.933 kb on - strand, within Shew_3311at 3952.179 kb on - strand, within Shew_3311at 3952.193 kb on + strand, within Shew_3311at 3952.738 kb on + strand, within Shew_3311at 3953.051 kb on - strandat 3953.217 kb on - strand, within Shew_3312at 3953.569 kb on + strand, within Shew_3313at 3953.569 kb on + strand, within Shew_3313

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Per-strain Table

Position Strand Gene LocusTag Fraction Motility M4
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3,951,933 - Shew_3311 0.23 -5.6
3,952,179 - Shew_3311 0.39 -6.8
3,952,193 + Shew_3311 0.40 -6.5
3,952,738 + Shew_3311 0.77 -6.3
3,953,051 - -5.2
3,953,217 - Shew_3312 0.37 +0.4
3,953,569 + Shew_3313 0.38 +0.2
3,953,569 + Shew_3313 0.38 +0.8

Or see this region's nucleotide sequence