mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Predicted mutations | |||||
|---|---|---|---|---|---|
| evidence | position | mutation | annotation | gene | description |
| RA | 697,097 | A→G | intergenic (+21/‑730) | mmsA‑I → / → PP_16SD | methylmalonate‑semialdehyde dehydrogenase/16S ribosomal RNA |
| RA | 1,484,303 | T→G | V125G (GTC→GGC) | yhdX → | amino acid ABC transporter permease |
| JC | 1,843,229 | (GCGCCAGTTCGTGGC)1→2 | coding (1607/2754 nt) | gacS ← | sensor protein GacS |
| RA | 3,823,901 | +T | coding (1248/1293 nt) | kguT ← | 2‑ketogluconate transporter, putative |
| RA | 3,824,415 | A→G | I245T (ATC→ACC) | kguT ← | 2‑ketogluconate transporter, putative |
| MC JC | 3,827,335 | Δ51 bp | coding (626‑676/1020 nt) | ptxS ← | 2‑ketogluconate utilization repressor |
| RA | 4,743,195 | +C | intergenic (+464/+288) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,197 | A→G | intergenic (+466/+286) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,199 | C→T | intergenic (+468/+284) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,202 | C→T | intergenic (+471/+281) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,205 | C→G | intergenic (+474/+278) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,207 | 2 bp→CT | intergenic (+476/+275) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,221 | C→T | intergenic (+490/+262) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,223 | A→C | intergenic (+492/+260) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| RA | 4,743,226 | 2 bp→GC | intergenic (+495/+256) | gltA → / ← yeiW | citrate synthase/putative oxidoreductase |
| Unassigned missing coverage evidence | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| seq id | start | end | size | ←reads | reads→ | gene | description | |||
| * | * | ÷ | NC_002947 | 97568 | 97611 | 44 | 22 [17] | [10] 22 | [PP_0090]–[PP_0091] | [PP_0090],[PP_0091] |
| * | * | ÷ | NC_002947 | 170750 | 171059–170881 | 132–310 | 19 [18] | [12] 19 | [PP_0159] | [PP_0159] |
| * | * | ÷ | NC_002947 | 171348–172965 | 176337–172969 | 5–4990 | 19 [18] | [17] 19 | PP_16SA–[PP_5SA] | PP_16SA,PP_23SA,[PP_5SA] |
| * | * | ÷ | NC_002947 | 176639–178395 | 181741–178399 | 5–5103 | 22 [11] | [18] 19 | PP_16SB–[PP_r01] | PP_16SB,PP_23SB,[PP_r01] |
| * | * | ÷ | NC_002947 | 524149 | 524224 | 76 | 21 [18] | [15] 20 | tyrS/PP_16SC | tyrosine‑‑tRNA ligase/16S ribosomal RNA |
| * | * | ÷ | NC_002947 | 4742783 | 4742844 | 62 | 19 [16] | [18] 22 | gltA/yeiW | citrate synthase/putative oxidoreductase |
| * | * | ÷ | NC_002947 | 6183852 | 6183858 | 7 | 117 [0] | [0] NA | atpI/– | ATP synthase protein I/– |
| Unassigned new junction evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 1 = | 0 (0.000) | 115 (0.630) | 50/264 | 0.6 | 100% | intergenic (–/+146) | –/parB | –/chromosome‑partitioning protein |
| ? | NC_002947 | = 6183851 | 0 (0.000) | intergenic (‑3/–) | atpI/– | ATP synthase protein I/– | |||||
| * | ? | NC_002947 | = 652785 | 175 (0.960) | 49 (0.320) | 19/224 | 1.9 | 39.8% | coding (1961/1962 nt) | ctpL | methyl‑accepting chemotaxis protein CtpL |
| ? | NC_002947 | = 4810126 | 0 (0.000) | intergenic (‑268/‑287) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 | |||||
| * | ? | NC_002947 | 3368518 = | 67 (0.370) | 91 (0.500) | 41/264 | 0.9 | 70.0% | intergenic (+219/‑142) | PP_2962/PP_2964 | alcohol dehydrogenase/transposase |
| ? | NC_002947 | 4459337 = | 11 (0.060) | coding (9/696 nt) | pcaI | 3‑oxoadipate CoA‑transferase subunit A | |||||
| * | ? | NC_002947 | = 3385530 | 55 (0.300) | 158 (0.870) | 65/264 | 0.3 | 84.7% | coding (501/546 nt) | PP_2985 | hypothetical protein |
| ? | NC_002947 | = 4459341 | 2 (0.010) | coding (13/696 nt) | pcaI | 3‑oxoadipate CoA‑transferase subunit A | |||||
| * | ? | NC_002947 | 4810141 = | 1 (0.010) | 73 (0.550) | 24/194 | 1.2 | 55.8% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5990913 | 115 (0.860) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||