Strain Fitness in Shewanella oneidensis MR-1 around SO1896

Experiment: Gly-DL-Asp (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 ntSO1894 and SO1895 overlap by 1 nucleotidesSO1895 and pccB-1 are separated by 46 nucleotidespccB-1 and ivd are separated by 116 nucleotides SO1894: SO1894 - acetyl-CoA carboxylase, biotin carboxylase, putative (NCBI ptt file), at 1,990,428 to 1,992,512 SO1894 SO1895: SO1895 - enoyl-CoA hydratase/isomerase family protein (NCBI ptt file), at 1,992,512 to 1,993,378 SO1895 SO1896: pccB-1 - 3-methylcrotonyl CoA carboxylase, beta subunit (NCBI ptt file), at 1,993,425 to 1,995,032 pccB-1 SO1897: ivd - isovaleryl-CoA dehydrogenase (NCBI ptt file), at 1,995,149 to 1,996,318 ivd Position (kb) 1993 1994 1995 1996Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 1992.427 kb on - strandat 1992.495 kb on + strandat 1992.584 kb on + strandat 1992.663 kb on + strand, within SO1895at 1992.826 kb on + strand, within SO1895at 1992.968 kb on + strand, within SO1895at 1992.980 kb on + strand, within SO1895at 1992.980 kb on + strand, within SO1895at 1993.056 kb on + strand, within SO1895at 1993.228 kb on + strand, within SO1895at 1993.261 kb on + strand, within SO1895at 1993.312 kb on + strandat 1993.355 kb on + strandat 1993.583 kb on + strandat 1993.890 kb on - strand, within pccB-1at 1993.892 kb on + strand, within pccB-1at 1993.892 kb on + strand, within pccB-1at 1994.079 kb on - strand, within pccB-1at 1994.261 kb on + strand, within pccB-1at 1994.269 kb on - strand, within pccB-1at 1994.269 kb on - strand, within pccB-1at 1994.469 kb on + strand, within pccB-1at 1994.472 kb on - strand, within pccB-1at 1994.477 kb on - strand, within pccB-1at 1994.503 kb on + strand, within pccB-1at 1994.927 kb on - strandat 1995.137 kb on + strandat 1995.142 kb on + strandat 1995.169 kb on - strandat 1995.204 kb on - strandat 1995.218 kb on + strandat 1995.218 kb on + strandat 1995.419 kb on + strand, within ivdat 1995.427 kb on - strand, within ivdat 1995.427 kb on - strand, within ivdat 1995.427 kb on - strand, within ivdat 1995.563 kb on - strand, within ivdat 1995.651 kb on + strand, within ivdat 1995.681 kb on - strand, within ivdat 1995.681 kb on - strand, within ivdat 1995.776 kb on - strand, within ivdat 1995.987 kb on + strand, within ivd

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Per-strain Table

Position Strand Gene LocusTag Fraction Gly-DL-Asp (C)
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1,992,427 - -1.6
1,992,495 + +0.1
1,992,584 + -0.9
1,992,663 + SO1895 0.17 -2.2
1,992,826 + SO1895 0.36 -3.2
1,992,968 + SO1895 0.53 -2.8
1,992,980 + SO1895 0.54 -1.9
1,992,980 + SO1895 0.54 -1.4
1,993,056 + SO1895 0.63 -1.4
1,993,228 + SO1895 0.83 -3.7
1,993,261 + SO1895 0.86 -2.4
1,993,312 + -1.6
1,993,355 + -0.9
1,993,583 + -1.3
1,993,890 - pccB-1 SO1896 0.29 -2.7
1,993,892 + pccB-1 SO1896 0.29 -3.1
1,993,892 + pccB-1 SO1896 0.29 -2.0
1,994,079 - pccB-1 SO1896 0.41 -2.9
1,994,261 + pccB-1 SO1896 0.52 -1.9
1,994,269 - pccB-1 SO1896 0.52 -3.8
1,994,269 - pccB-1 SO1896 0.52 -3.2
1,994,469 + pccB-1 SO1896 0.65 +0.1
1,994,472 - pccB-1 SO1896 0.65 -1.2
1,994,477 - pccB-1 SO1896 0.65 -2.8
1,994,503 + pccB-1 SO1896 0.67 -1.2
1,994,927 - -2.8
1,995,137 + -3.1
1,995,142 + -2.2
1,995,169 - -0.2
1,995,204 - -0.8
1,995,218 + -0.2
1,995,218 + -2.2
1,995,419 + ivd SO1897 0.23 +0.2
1,995,427 - ivd SO1897 0.24 -0.0
1,995,427 - ivd SO1897 0.24 +0.1
1,995,427 - ivd SO1897 0.24 -0.7
1,995,563 - ivd SO1897 0.35 -1.2
1,995,651 + ivd SO1897 0.43 +0.5
1,995,681 - ivd SO1897 0.45 +0.1
1,995,681 - ivd SO1897 0.45 +0.6
1,995,776 - ivd SO1897 0.54 +0.5
1,995,987 + ivd SO1897 0.72 -1.1

Or see this region's nucleotide sequence