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 51 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,037,275 | 0 | C | T | 64.3% | 69.7 / 120.4 | 113 | noncoding (16/76 nt) | alaT | tRNA‑Ala |
| * | NC_000913 | 4,037,496 | 0 | A | T | 49.7% | 55.3 / inf | 175 | intergenic (+161/‑23) | alaT/rrlA | tRNA‑Ala/23S ribosomal RNA |
| * | NC_000913 | 3,054,894 | 0 | G | T | 41.1% | 103.3 / 37.0 | 90 | P184Q (CCA→CAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 190,843 | 0 | C | A | 39.4% | 115.0 / 12.8 | 99 | intergenic (+244/‑14) | rpsB/tsf | 30S ribosomal subunit protein S2/protein chain elongation factor EF‑Ts |
| * | NC_000913 | 2,767,445 | 0 | C | A | 39.2% | 170.3 / 27.7 | 108 | intergenic (+90/‑265) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 1,097,158 | 0 | C | T | 36.4% | 23.9 / 35.3 | 45 | intergenic (+329/+407) | ycdU/serX | uncharacterized protein YcdU/tRNA‑Ser |
| * | NC_000913 | 2,767,444 | 0 | C | A | 36.1% | 188.0 / 14.7 | 108 | intergenic (+89/‑266) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,767,443 | 0 | C | A | 35.5% | 188.6 / 17.6 | 108 | intergenic (+88/‑267) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| * | NC_000913 | 2,477,265 | 0 | A | C | 35.2% | 148.3 / 33.9 | 91 | L122* (TTA→TGA) | dsdC | DNA‑binding transcriptional dual regulator DsdC |
| * | NC_000913 | 3,054,886 | 0 | G | T | 35.2% | 130.8 / 31.6 | 91 | Q187K (CAA→AAA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 4,296,268 | 0 | T | C | 35.1% | 32.8 / 33.2 | 38 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate : H(+) symporter GltP/Sel1 repeat‑containing protein YjcO |
| * | NC_000913 | 1,611,507 | 0 | G | T | 34.5% | 179.0 / 11.9 | 116 | L116L (CTC→CTA) | dgcF | putative diguanylate cyclase DgcF |
| * | NC_000913 | 3,054,888 | 0 | A | C | 34.4% | 145.8 / 12.6 | 92 | V186G (GTA→GGA) | ygfB | PF03695 family protein YgfB |
| * | NC_000913 | 1,631,903 | 0 | G | T | 31.4% | 192.6 / 12.1 | 105 | S128Y (TCC→TAC) | ydfJ | putative transporter YdfJ |
| * | NC_000913 | 4,136,467 | 0 | A | C | 31.4% | 111.1 / 20.1 | 73 | E120D (GAA→GAC) | yijE | cystine exporter |
| * | NC_000913 | 58,065 | 0 | C | A | 31.4% | 187.7 / 14.0 | 102 | P234P (CCC→CCA) | djlA | co‑chaperone protein DjlA |
| * | NC_000913 | 161,559 | 0 | G | A | 30.9% | 125.8 / 12.4 | 68 | S158L (TCG→TTG) | thpR | RNA 2',3'‑cyclic phosphodiesterase |
| * | NC_000913 | 4,249,810 | 0 | C | A | 30.8% | 171.5 / 11.3 | 91 | P86Q (CCG→CAG) | malM | maltose regulon periplasmic protein |
| * | NC_000913 | 2,895,349 | 0 | G | T | 30.5% | 173.4 / 17.5 | 82 | P144Q (CCG→CAG) | ygcQ | putative flavoprotein |
| * | NC_000913 | 2,767,449 | 0 | C | A | 29.9% | 216.6 / 20.3 | 117 | intergenic (+94/‑261) | rnlB/yfjP | antitoxin RnlB/putative GTP‑binding protein YfjP |
| Marginal new junction evidence (lowest skew 10 of 23 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 3186096 = | NA (NA) | 17 (0.160) | 15/598 | 6.0 | 13.9% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 3403633 | 105 (0.960) | coding (150/975 nt) | yhdH | acrylyl‑CoA reductase | |||||
| * | ? | NC_000913 | 2996361 = | NA (NA) | 12 (0.110) | 12/598 | 6.9 | 10.1% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 3403629 = | 107 (0.980) | coding (146/975 nt) | yhdH | acrylyl‑CoA reductase | |||||
| * | ? | NC_000913 | 2818197 = | 45 (0.410) | 5 (0.070) +114 bp |
5/370 | 6.9 | 15.1% | intergenic (‑62/+1) | argZ/argY | tRNA‑Arg/tRNA‑Arg |
| ? | NC_000913 | = 2818216 | 46 (0.420) | noncoding (59/77 nt) | argY | tRNA‑Arg | |||||
| * | ? | NC_000913 | 1186387 = | 87 (0.800) | 13 (0.120) | 12/596 | 6.9 | 13.0% | coding (544/1227 nt) | pepT | peptidase T |
| ? | NC_000913 | = 1186391 | 88 (0.810) | coding (548/1227 nt) | pepT | peptidase T | |||||
| * | ? | NC_000913 | = 696741 | 59 (0.540) | 6 (0.070) | 6/442 | 7.5 | 11.5% | intergenic (‑1/+15) | metU/glnW | tRNA‑Met/tRNA‑Gln |
| ? | NC_000913 | 697135 = | 49 (0.610) | intergenic (‑2/+378) | metT/asnB | tRNA‑Met/asparagine synthetase B | |||||
| * | ? | NC_000913 | 381260 = | NA (NA) | 9 (0.080) | 9/596 | 8.0 | 5.0% | noncoding (1/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | = 572067 | 170 (1.560) | coding (614/798 nt) | ybcM | putative DNA‑binding transcriptional regulator | |||||
| * | ? | NC_000913 | = 781222 | 60 (0.550) | 5 (0.060) | 5/446 | 8.1 | 8.1% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | 781653 = | 68 (0.840) | intergenic (+1/‑432) | lysQ/nadA | tRNA‑Lys/quinolinate synthase | |||||
| * | ? | NC_000913 | 2996361 = | NA (NA) | 8 (0.070) | 8/598 | 8.4 | 8.8% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 3396891 = | 83 (0.760) | coding (905/1470 nt) | rng | RNase G | |||||
| * | ? | NC_000913 | = 382590 | NA (NA) | 9 (0.080) | 8/598 | 8.4 | 5.0% | noncoding (1331/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 572063 = | 170 (1.560) | coding (610/798 nt) | ybcM | putative DNA‑binding transcriptional regulator | |||||
| * | ? | NC_000913 | = 1287084 | 68 (0.620) | 7 (0.070) | 7/558 | 8.5 | 8.9% | noncoding (153/171 nt) | rttR | small RNA RttR |
| ? | NC_000913 | 1287557 = | 80 (0.790) | noncoding (66/85 nt) | tyrT | tRNA‑Tyr | |||||