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 |
| Marginal read alignment evidence | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,353,192 | 0 | C | A | 52.4% | 22.6 / 43.2 | 45 | F106L (TTC→TTA) | yrpB | 2‑nitropropane dioxygenase |
| * | NC_002947 | 4,348,705 | 0 | A | G | 49.6% | 31.9 / 179.4 | 126 | intergenic (‑70/+404) | PP_3820/galU | group II intron‑encoding maturase/UTP‑glucose‑1‑phosphate uridylyltransferase |
| * | NC_002947 | 195,634 | 0 | C | T | 45.6% | 57.2 / 173.8 | 138 | T380T (ACC→ACT) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 699,722 | 0 | A | G | 45.4% | 37.9 / 122.0 | 98 | intergenic (+115/‑129) | PP_t06/PP_23SD | tRNA‑Ala/23S ribosomal RNA |
| * | NC_002947 | 1,327,121 | 0 | C | T | 41.5% | 74.6 / 104.8 | 97 | intergenic (+97/‑196) | PP_16SE/PP_23SE | 16S ribosomal RNA/23S ribosomal RNA |
| * | NC_002947 | 195,559 | 0 | C | A | 30.5% | 141.7 / 74.4 | 95 | T355T (ACC→ACA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 2,282,770 | 0 | T | G | 29.4% | 52.7 / 38.0 | 51 | intergenic (‑162/+67) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,779 | 0 | C | A | 28.8% | 73.8 / 33.8 | 53 | intergenic (‑171/+58) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,774 | 0 | G | C | 28.0% | 64.1 / 36.8 | 50 | intergenic (‑166/+63) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 2,282,775 | 0 | G | C | 28.0% | 71.2 / 36.8 | 50 | intergenic (‑167/+62) | PP_2010/PP_2011 | cytochrome b561/hypothetical protein |
| * | NC_002947 | 5,740,467 | 0 | T | G | 23.1% | 50.9 / 17.8 | 40 | intergenic (+32/+39) | hutF/PP_5037 | formiminoglutamate deiminase/lipocalin family lipoprotein |
| * | NC_002947 | 6,013,846 | 0 | T | G | 22.5% | 75.9 / 10.0 | 40 | intergenic (+51/+59) | xpt/PP_5266 | xanthine phosphoribosyltransferase/acetyl‑CoA hydrolase family protein |
| * | NC_002947 | 197,590 | 0 | T | C | 21.6% | 209.7 / 55.5 | 111 | D1032D (GAT→GAC) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 197,572 | 0 | G | A | 21.1% | 218.9 / 49.5 | 109 | K1026K (AAG→AAA) | PP_0168 | putative surface adhesion protein |
| * | NC_002947 | 5,485,162 | 0 | T | C | 21.1% | 63.9 / 13.5 | 40 | intergenic (+68/‑79) | purH/purD | bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase/phosphoribosylamine‑‑glycine ligase |
| * | NC_002947 | 3,578,433 | 0 | G | T | 21.0% | 172.5 / 17.5 | 81 | intergenic (+110/‑214) | PP_3158/PP_5589 | hypothetical protein/rhs repeat‑associated core domain‑containing protein |
| * | NC_002947 | 1,544,489 | 0 | C | A | 20.6% | 71.0 / 12.0 | 34 | intergenic (+48/+66) | mdfA/ampG | multidrug MFS transporter/muropeptide permease AmpG |
| * | NC_002947 | 2,793,752 | 0 | G | T | 20.0% | 103.6 / 21.6 | 50 | intergenic (+61/+66) | PP_2445/PP_2446 | membrane protein/hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 551 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_002947 | 4808174 = | 10 (0.130) | 22 (0.370) | 18/216 | 3.7 | 43.3% | intergenic (‑283/‑272) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | = 5988935 | 50 (0.830) | intergenic (+229/‑317) | kefB‑III/PP_mr64 | glutathione‑regulated potassium/H+ antiporter/C4 ncRNA | |||||
| * | ? | NC_002947 | = 4808179 | 7 (0.090) | 21 (0.290) +CGGCGCTTCGCGG |
16/260 | 5.4 | 39.4% | intergenic (‑288/‑267) | PP_4234/dsbD‑II | bifunctional aldehyde oxidase/xanthine dehydrogenase/thiol/disulfide interchange protein 2 |
| ? | NC_002947 | 4945216 = | 64 (0.800) | intergenic (+576/+222) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein | |||||
| * | ? | NC_002947 | = 1419549 | 23 (0.290) | 17 (0.220) | 15/280 | 6.2 | 36.0% | intergenic (‑38/+98) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein |
| ? | NC_002947 | = 1419636 | 38 (0.490) | intergenic (‑125/+11) | PP_1242/PP_1244 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_002947 | = 5914184 | 40 (0.500) | 10 (0.160) | 10/230 | 6.6 | 24.1% | intergenic (+76/+77) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase |
| ? | NC_002947 | = 5914224 | 31 (0.480) | intergenic (+116/+37) | spuI/argA | glutamylpolyamine synthetase/amino acid N‑acetyltransferase | |||||
| * | ? | NC_002947 | = 5513267 | 73 (0.910) | 10 (0.150) | 10/234 | 6.7 | 16.1% | intergenic (+45/‑109) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein |
| ? | NC_002947 | = 5513323 | 45 (0.690) | intergenic (+101/‑53) | urtD/urtE | ABC transporter ATP‑binding protein/ABC transporter ATP‑binding protein | |||||
| * | ? | NC_002947 | 5477090 = | 52 (0.650) | 8 (0.140) | 8/204 | 6.7 | 19.5% | intergenic (+3/+109) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein |
| ? | NC_002947 | 5477189 = | 29 (0.510) | intergenic (+102/+10) | PP_4813/PP_4814 | PAP2 family protein/DedA family protein/ATP‑dependent protease La domain‑containing protein | |||||
| * | ? | NC_002947 | 1499507 = | 29 (0.360) | 17 (0.230) | 12/262 | 6.7 | 24.4% | intergenic (+84/‑80) | trpS/zapE | tryptophan‑‑tRNA ligase/nucleoside triphosphate hydrolase domain‑containing protein |
| ? | NC_002947 | = 6060505 | 79 (1.080) | intergenic (+141/+40) | PP_5311/PP_5312 | signal transduction protein/hypothetical protein | |||||
| * | ? | NC_002947 | 2295775 = | 76 (0.950) | 11 (0.170) | 10/238 | 6.9 | 14.8% | intergenic (+21/+112) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein |
| ? | NC_002947 | 2295860 = | 63 (0.950) | intergenic (+106/+27) | PP_5496/PP_2023 | hypothetical protein/glutathione S‑transferase family protein | |||||
| * | ? | NC_002947 | = 4647595 | 37 (0.460) | 7 (0.120) | 7/208 | 7.3 | 19.8% | intergenic (+48/+83) | fusB/PP_4112 | elongation factor G 2/sulfate transporter |
| ? | NC_002947 | = 4647625 | 30 (0.520) | intergenic (+78/+53) | fusB/PP_4112 | elongation factor G 2/sulfate transporter | |||||
| * | ? | NC_002947 | 1731163 = | 39 (0.490) | 10 (0.160) | 8/230 | 7.5 | 23.2% | intergenic (‑76/+115) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase |
| ? | NC_002947 | 1731255 = | 35 (0.550) | intergenic (‑168/+23) | dapE/PP_1526 | succinyl‑diaminopimelate desuccinylase/beta‑(1‑3)‑glucosyl transferase | |||||