Table 1.
Strains |
||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1A42 | 5A14 | A0641M | A0643DD | AE608H | AK11 | AK75 | C0431A | C0438LL | H1 | Rm1021 | AK83 | BL225C | SM11 | |
General stats | ||||||||||||||
Length (bp) | 7,162,724 | 8,942,552 | 7,953,713 | 7,351,905 | 7,347,181 | 6,843,938 | 6,992,595 | 7,086,830 | 7,064,773 | 6,923,151 | 6,691,694 | 7,140,471 | 6,978,785 | 7,499,157 |
G + C content | 62.02 | 61.98 | 61.88 | 61.84 | 62.00 | 62.03 | 61.86 | 61.96 | 61.96 | 61.96 | 0.61 | 0.62 | 0.62 | 61.91 |
Coding % | 85.25 | 85.57 | 85.17 | 85.28 | 85.46 | 85.75 | 85.28 | 85.20 | 85.44 | 85.11 | 86.13 | 82.53 | 84.56 | 86.40 |
Coding | 6,106,284 | 7,652,148 | 6,774,171 | 6,269,850 | 6,279,117 | 5,868,819 | 5,963,196 | 6,037,653 | 6,035,811 | 5,892,396 | 5,763,546 | 5,893,086 | 5,901,528 | 6,479,490 |
ORFs | 7,374 | 8,735 | 8,411 | 7,771 | 7,197 | 6,895 | 7,555 | 7,386 | 7,242 | 6,993 | 6,218 | 6,518 | 6,359 | 7,428 |
rRNA | 6 | 24 | 9 | 4 | 18 | 2 | 5 | 2 | 5 | 9 | 9 | 9 | 9 | 9 |
tRNA | 56 | 78 | 63 | 51 | 63 | 47 | 56 | 48 | 52 | 52 | 54 | 56 | 55 | 56 |
Annotation stats (%)b | ||||||||||||||
No function | 30.47 | 30.02 | 34.70 | 34.15 | 31.22 | 28.66 | 31.41 | 31.02 | 31.61 | 29.73 | 23.72 | 28.91 | 25.93 | 32.77 |
ORFans | 3.38 | 3.57 | 3.67 | 3.35 | 1.92 | 3.16 | 3.45 | 2.40 | 3.02 | 2.89 | 1.74 | 2.75 | 0.30 | 0.70 |
COG | 69.53 | 69.98 | 65.30 | 65.85 | 68.78 | 71.34 | 68.59 | 68.98 | 68.39 | 70.27 | 76.28 | 71.09 | 74.07 | 67.23 |
Interpro | 87.86 | 86.14 | 84.65 | 85.28 | 85.24 | 88.69 | 87.66 | 85.96 | 86.33 | 88.15 | 88.68 | 84.84 | 87.42 | 81.35 |
GO | 62.19 | 63.18 | 59.09 | 59.85 | 62.05 | 63.90 | 61.69 | 61.72 | 61.39 | 62.81 | 67.88 | 64.32 | 66.06 | 61.16 |
KEGG | 44.36 | 45.20 | 41.31 | 41.56 | 44.69 | 45.82 | 43.35 | 43.39 | 43.84 | 44.96 | 50.63 | 46.59 | 48.51 | 43.09 |
Rhizobasec | 87.32 | 78.95 | 83.21 | 84.00 | 84.80 | 88.70 | 87.40 | 86.79 | 85.97 | 88.07 | 92.23 | 87.48 | 90.64 | 84.05 |
Replicon sizes (bp) | ||||||||||||||
Chromosome | 3,731,100 | 4,990,772 | 4,063,405 | 3,643,054 | 3,891,677 | 3,572,765 | 3,447,294 | 3,613,238 | 3,588,400 | 3,558,302 | 3,650,000 | 3,820,000 | 3,670,000 | 3,908,022 |
Chromid pSymB | 1,588,418 | 1,878,443 | 1,754,039 | 1,593,848 | 1,630,437 | 1,565,308 | 1,647,631 | 1,558,480 | 1,626,313 | 1,603,718 | 1,680,000 | 1,680,000 | 1,690,000 | 1,632,395 |
Megaplasmid pSymA | 1,396,116 | 1,506,164 | 1,457,555 | 1,307,958 | 1,285,253 | 1,387,542 | 1,518,412 | 1,389,865 | 1,313,050 | 1,374,799 | 1,350,000 | 1,310,000 | 1,610,000 | 1,633,319 |
pSINME01 | 209,195 | 232,672 | 111,645 | 136,588 | 125,681 | 109,990 | 76,265 | 112,338 | 94,450 | 127,226 | 260,000 | |||
pSINME02 | 11,278 | 25,905 | 7,018 | 70,000 | ||||||||||
pSmeSM11b | 140,640 | 178,756 | 63,273 | 122,560 | 132,879 | 11,263 | 33,722 | 71,081 | 13,413 | 181,251 | ||||
pSmeSM11a | 14,949 | 3,811 | 232,455 | 19,702 | 14,801 | 3,810 | 144,170 | |||||||
Not mapped | 82,306 | 155,746 | 499,985 | 304,164 | 281,255 | 151,462 | 269,272 | 398,109 | 360,652 | 245,693 |
aThe general statistics and the putative mapping of reads to the six replicons present in the completely sequenced genomes (Rm1021, AK83, BL225C, and SM11) are reported.
bPercentage on total ORFs.
cRm1021 is excluded.