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 45 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_012971 | 1,859,990 | 0 | A | C | 35.2% | 133.8 / 22.1 | 106 | D184E (GAT→GAG) | prc | carboxy terminal‑processing peptidase |
| * | NC_012971 | 3,800,334 | 0 | C | A | 34.6% | 227.7 / 28.0 | 153 | intergenic (‑8/+306) | pstS/glmS | phosphate ABC transporter substrate‑binding protein PstS/glutamine‑‑fructose‑6‑phosphate transaminase (isomerizing) |
| * | NC_012971 | 957,544 | 0 | G | T | 34.3% | 143.3 / 19.2 | 108 | P368T (CCG→ACG) | pflB | formate C‑acetyltransferase |
| * | NC_012971 | 1,006,183 | 0 | G | T | 32.2% | 172.7 / 16.9 | 121 | E627* (GAG→TAG) | elfC | fimbrial biogenesis usher protein |
| * | NC_012971 | 12,150 | 0 | G | T | 31.9% | 178.1 / 16.7 | 116 | intergenic (‑366/‑11) | yaaI/dnaK | DUF2541 family protein/molecular chaperone DnaK |
| * | NC_012971 | 88,456 | 0 | G | T | 31.2% | 176.2 / 10.6 | 125 | E8* (GAG→TAG) | ilvI | acetolactate synthase 3 large subunit |
| * | NC_012971 | 2,589,438 | 0 | G | T | 30.8% | 217.7 / 12.2 | 117 | E38* (GAG→TAG) | pssA | CDP‑diacylglycerol‑‑serine O‑phosphatidyltransferase |
| * | NC_012971 | 1,756,922 | 0 | G | T | 29.8% | 262.2 / 17.5 | 131 | L208L (CTC→CTA) | ydjO | protein YdjO |
| * | NC_012971 | 1,020,577 | 0 | C | A | 29.4% | 249.0 / 11.3 | 143 | intergenic (+29/‑227) | pqiC/rmf | membrane integrity‑associated transporter subunit PqiC/ribosome modulation factor |
| * | NC_012971 | 831,947 | 0 | G | A | 28.9% | 208.5 / 43.6 | 128 | A17V (GCG→GTG) | glnH | glutamine ABC transporter substrate‑binding protein GlnH |
| * | NC_012971 | 2,885,744 | 0 | G | T | 28.7% | 216.8 / 28.4 | 122 | Q187K (CAA→AAA) | ygfB | UPF0149 family protein YgfB |
| * | NC_012971 | 2,217,074 | 0 | C | A | 28.5% | 259.6 / 15.4 | 137 | P202Q (CCG→CAG) | atoB | acetyl‑CoA acetyltransferase |
| * | NC_012971 | 2,727,510 | 0 | G | T | 28.3% | 179.7 / 11.1 | 92 | P144Q (CCG→CAG) | ygcQ | electron transfer flavoprotein subunit alpha/FixB family protein |
| * | NC_012971 | 2,885,752 | 0 | G | T | 26.9% | 198.1 / 18.6 | 108 | P184Q (CCA→CAA) | ygfB | UPF0149 family protein YgfB |
| * | NC_012971 | 1,535,454 | 0 | C | A | 26.8% | 289.4 / 14.0 | 142 | G273V (GGA→GTA) | ydeM | anaerobic sulfatase maturase |
| * | NC_012971 | 2,002,158 | 0 | C | A | 26.7% | 152.8 / 40.2 | 86 | G201V (GGT→GTT) | ECD_RS10210 | glycosyltransferase family 4 protein |
| * | NC_012971 | 2,051,887 | 0 | T | C | 26.5% | 187.4 / 51.2 | 98 | intergenic (‑215/+59) | ibsA/ECD_RS25690 | type I toxin‑antitoxin system toxin IbsA/type I toxin‑antitoxin system Ibs family toxin |
| * | NC_012971 | 1,581,200 | 0 | G | T | 26.4% | 171.1 / 14.6 | 87 | pseudogene (383/1284 nt) | ydfJ | MHS family MFS transporter YdfJ |
| * | NC_012971 | 576,592 | 0 | C | A | 26.4% | 161.5 / 13.4 | 92 | S650* (TCG→TAG) | entF | enterobactin non‑ribosomal peptide synthetase EntF |
| * | NC_012971 | 284,777 | 0 | G | T | 25.7% | 314.0 / 12.5 | 140 | pseudogene (238/957 nt) | ECD_RS01355 | inverse autotransporter beta domain‑containing protein |
| Marginal new junction evidence (lowest skew 10 of 25 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_012971 | = 656615 | 84 (0.800) | 15 (0.190) | 13/432 | 4.0 | 20.9% | intergenic (‑1/+15) | ECD_RS03205/ECD_RS03210 | tRNA‑Met/tRNA‑Gln |
| ? | NC_012971 | 657008 = | 52 (0.680) | intergenic (‑2/+379) | ECD_RS03225/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NC_012971 | = 3510532 | 121 (1.160) | 13 (0.150) | 12/472 | 4.7 | 10.8% | intergenic (‑358/‑382) | dinQ/arsR | damage‑inducible type I toxin DinQ/As(III)‑sensing metalloregulatory transcriptional repressor ArsR |
| ? | NC_012971 | 3510764 = | 118 (1.400) | intergenic (‑590/‑150) | dinQ/arsR | damage‑inducible type I toxin DinQ/As(III)‑sensing metalloregulatory transcriptional repressor ArsR | |||||
| * | ? | NC_012971 | = 2519344 | 101 (0.960) | 17 (0.180) | 13/538 | 5.1 | 15.0% | intergenic (+84/‑582) | ECD_RS25300/timP | IS3‑like element ISEcB1 family transposase/small toxic inner membrane protein TimP |
| ? | NC_012971 | 2519671 = | 100 (1.040) | intergenic (+411/‑255) | ECD_RS25300/timP | IS3‑like element ISEcB1 family transposase/small toxic inner membrane protein TimP | |||||
| * | ? | NC_012971 | = 739785 | 79 (0.750) | 13 (0.170) | 9/436 | 5.3 | 18.5% | noncoding (76/76 nt) | ECD_RS03640 | tRNA‑Lys |
| ? | NC_012971 | 740008 = | 56 (0.720) | intergenic (+1/‑132) | ECD_RS03645/ECD_RS03650 | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_012971 | = 739579 | 86 (0.820) | 12 (0.150) | 9/436 | 5.3 | 16.6% | noncoding (76/76 nt) | ECD_RS03630 | tRNA‑Lys |
| ? | NC_012971 | 740008 = | 57 (0.730) | intergenic (+1/‑132) | ECD_RS03645/ECD_RS03650 | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_012971 | = 739290 | 113 (1.080) | 10 (0.130) | 8/436 | 5.7 | 12.1% | noncoding (76/76 nt) | ECD_RS03620 | tRNA‑Lys |
| ? | NC_012971 | 739580 = | 61 (0.790) | intergenic (+1/‑51) | ECD_RS03630/ECD_RS03635 | tRNA‑Lys/tRNA‑Val | |||||
| * | ? | NC_012971 | = 656315 | 98 (0.940) | 12 (0.120) | 11/564 | 6.0 | 12.8% | noncoding (64/75 nt) | ECD_RS03195 | tRNA‑Gln |
| ? | NC_012971 | 656751 = | 70 (0.700) | noncoding (63/75 nt) | ECD_RS03215 | tRNA‑Gln | |||||
| * | ? | NC_012971 | 739932 = | 79 (0.750) | 11 (0.110) +GG |
11/584 | 6.2 | 12.4% | noncoding (1/76 nt) | ECD_RS03645 | tRNA‑Lys |
| ? | NC_012971 | = 2397543 | 78 (0.740) | noncoding (76/76 nt) | ECD_RS11975 | tRNA‑Val | |||||
| * | ? | NC_012971 | = 739290 | 113 (1.080) | 7 (0.090) | 6/436 | 6.5 | 8.5% | noncoding (76/76 nt) | ECD_RS03620 | tRNA‑Lys |
| ? | NC_012971 | 739786 = | 66 (0.850) | intergenic (+1/‑146) | ECD_RS03640/ECD_RS03645 | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_012971 | = 132475 | 122 (1.170) | 9 (0.090) | 9/566 | 6.7 | 7.5% | coding (1591/1854 nt) | yacH | DUF3300 domain‑containing protein |
| ? | NC_012971 | 132572 = | 103 (1.020) | coding (1494/1854 nt) | yacH | DUF3300 domain‑containing protein | |||||