mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.39.0
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 50 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,661,394 | 0 | G | A | 66.7% | 96.2 / 74.3 | 78 | G280D (GGC→GAC) | ynfF | putative selenate reductase YnfF |
| * | NC_000913 | 4,166,849 | 0 | G | A | 45.3% | 20.5 / 72.0 | 53 | noncoding (191/1542 nt) | rrsB | 16S ribosomal RNA |
| * | NC_000913 | 190,843 | 0 | C | A | 36.3% | 172.6 / 10.2 | 124 | intergenic (+244/‑14) | rpsB/tsf | 30S ribosomal subunit protein S2/protein chain elongation factor EF‑Ts |
| * | NC_000913 | 2,472,817 | 0 | C | A | 35.7% | 141.0 / 16.4 | 98 | G22V (GGA→GTA) | yfdN | uncharacterized protein YfdN |
| * | NC_000913 | 3,269,981 | 0 | A | C | 34.8% | 174.9 / 19.1 | 117 | intergenic (+379/+235) | yhaC/rnpB | uncharacterized protein YhaC/RNase P catalytic RNA component |
| * | NC_000913 | 3,911,533 | 0 | C | A | 34.1% | 293.1 / 24.4 | 174 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter periplasmic binding protein/L‑glutamine‑‑D‑fructose‑6‑phosphate aminotransferase |
| * | NC_000913 | 4,425,418 | 0 | C | A | 32.7% | 165.2 / 10.4 | 101 | P101T (CCG→ACG) | rpsF | 30S ribosomal subunit protein S6 |
| * | NC_000913 | 4,427,822 | 0 | C | A | 32.2% | 261.7 / 13.5 | 149 | intergenic (‑400/+257) | yjfZ/ytfB | DUF2686 domain‑containing protein YjfZ/cell division protein YtfB |
| * | NC_000913 | 2,767,445 | 0 | C | A | 32.0% | 231.9 / 16.3 | 103 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 847,955 | 0 | G | A | 31.6% | 196.6 / 61.4 | 139 | A17V (GCG→GTG) | glnH | L‑glutamine ABC transporter periplasmic binding protein |
| * | NC_000913 | 1,557,428 | 0 | G | T | 30.5% | 121.1 / 10.4 | 82 | S204* (TCG→TAG) | ddpF | putative D,D‑dipeptide ABC transporter ATP‑binding subunit DdpF |
| * | NC_000913 | 1,390,607 | 0 | C | A | 29.5% | 253.7 / 14.6 | 149 | intergenic (‑9/+73) | mpaA/ymjC | murein tripeptide amidase A/putative uncharacterized protein YmjC |
| * | NC_000913 | 58,065 | 0 | C | A | 29.5% | 176.2 / 21.9 | 105 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 3,054,886 | 0 | G | T | 29.4% | 194.5 / 31.5 | 119 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 442,025 | 0 | C | A | 29.2% | 184.9 / 11.2 | 106 | L159L (CTC→CTA) | thiI | tRNA uridine 4‑sulfurtransferase |
| * | NC_000913 | 3,054,894 | 0 | G | T | 29.2% | 173.5 / 21.6 | 106 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 141,849 | 0 | C | A | 28.2% | 274.2 / 25.5 | 143 | P140Q (CCG→CAG) | hpt | hypoxanthine phosphoribosyltransferase |
| * | NC_000913 | 228,689 | 0 | T | . | 27.7% | 217.3 / 130.7 | 114 | intergenic (+27/‑67) | rrlH/rrfH | 23S ribosomal RNA/5S ribosomal RNA |
| * | NC_000913 | 3,032,307 | 0 | C | T | 27.6% | 208.4 / 31.3 | 116 | T314M (ACG→ATG) | uacT | urate:H(+) symporter |
| * | NC_000913 | 4,261,040 | 0 | C | A | 27.2% | 367.3 / 20.5 | 184 | Q148K (CAA→AAA) | yjbM | DUF2713 domain‑containing protein YjbM |
| Marginal new junction evidence (lowest skew 10 of 34 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4606166 | 104 (0.930) | 17 (0.220) | 16/410 | 3.2 | 20.9% | intergenic (‑1/+34) | leuV/leuP | tRNA‑Leu/tRNA‑Leu |
| ? | NC_000913 | 4606403 = | 56 (0.720) | intergenic (‑2/+266) | leuQ/rsmC | tRNA‑Leu/16S rRNA m(2)G1207 methyltransferase | |||||
| * | ? | NC_000913 | = 3648146 | 109 (0.980) | 15 (0.170) | 13/472 | 4.6 | 14.4% | intergenic (+2/‑148) | agrA/agrB | small RNA AgrA/small regulatory RNA AgrB |
| ? | NC_000913 | 3648378 = | 91 (1.020) | intergenic (+3/‑150) | agrB/arsR | small regulatory RNA AgrB/DNA‑binding transcriptional repressor ArsR | |||||
| * | ? | NC_000913 | = 2521006 | 111 (1.000) | 11 (0.130) | 9/436 | 5.5 | 14.0% | noncoding (76/76 nt) | valU | tRNA‑Val |
| ? | NC_000913 | 2521249 = | 53 (0.640) | intergenic (+1/‑4) | valY/lysV | tRNA‑Val/tRNA‑Lys | |||||
| * | ? | NC_000913 | = 2653419 | 115 (1.030) | 15 (0.150) | 12/538 | 5.6 | 12.1% | noncoding (37/100 nt) | timR | putative small regulatory RNA TimR |
| ? | NC_000913 | 2653746 = | 112 (1.100) | intergenic (‑291/‑109) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA | |||||
| * | ? | NC_000913 | = 1287329 | 66 (0.590) | 9 (0.110) | 8/414 | 5.6 | 15.7% | intergenic (‑1/+209) | tyrV/tyrT | tRNA‑Tyr/tRNA‑Tyr |
| ? | NC_000913 | 1287624 = | 50 (0.640) | intergenic (‑2/+158) | tyrT/purU | tRNA‑Tyr/formyltetrahydrofolate deformylase | |||||
| * | ? | NC_000913 | = 1287084 | 65 (0.580) | 12 (0.120) | 11/548 | 6.0 | 16.7% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 59 (0.570) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||
| * | ? | NC_000913 | = 2947467 | 62 (0.560) | 8 (0.100) | 7/422 | 6.1 | 13.5% | intergenic (+4/‑30) | metZ/metW | tRNA‑Met/tRNA‑Met |
| ? | NC_000913 | 2947688 = | 58 (0.720) | intergenic (+5/+69) | metV/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase C | |||||
| * | ? | NC_000913 | = 2817942 | 115 (1.030) | 11 (0.110) | 10/548 | 6.4 | 10.5% | intergenic (‑82/+117) | argQ/argZ | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | 2818492 = | 81 (0.780) | noncoding (58/77 nt) | argV | tRNA‑Arg | |||||
| * | ? | NC_000913 | = 4392437 | 86 (0.770) | 6 (0.070) | 6/432 | 6.7 | 7.6% | intergenic (+2/‑35) | glyV/glyX | tRNA‑Gly/tRNA‑Gly |
| ? | NC_000913 | 4392661 = | 83 (1.010) | intergenic (+3/‑231) | glyY/yjeV | tRNA‑Gly/uncharacterized protein YjeV | |||||
| * | ? | NC_000913 | = 2653549 | 114 (1.020) | 8 (0.080) | 8/556 | 7.2 | 7.1% | intergenic (‑94/‑306) | timR/ryfA | putative small regulatory RNA TimR/small regulatory RNA RyfA |
| ? | NC_000913 | 2653872 = | 103 (0.980) | noncoding (18/304 nt) | ryfA | small regulatory RNA RyfA | |||||