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 184 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_012971 | 3,483,030 | 0 | G | A | 59.3% | 80.6 / 140.8 | 118 | L485L (TTG→TTA) ‡ | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,483,093 | 0 | T | C | 58.7% | 61.0 / 137.9 | 110 | T506T (ACT→ACC) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,482,990 | 0 | A | G | 58.0% | 74.1 / 152.5 | 132 | N472S (AAC→AGC) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,483,028 | 0 | T | A | 58.0% | 83.5 / 194.7 | 120 | L485M (TTG→ATG) ‡ | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,484,642 | 0 | G | C | 54.1% | 4.6 / 153.2 | 98 | E1023Q (GAA→CAA) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,484,234 | 0 | A | G | 53.1% | 3.3 / 166.8 | 114 | S887G (AGC→GGC) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,484,133 | 0 | A | C | 51.7% | 18.1 / 166.6 | 118 | Y853S (TAT→TCT) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,484,130 | 0 | A | T | 50.8% | ‑6.5 / 236.9 | 120 | Q852L (CAG→CTG) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,723,426 | 0 | A | C | 50.8% | 28.9 / 270.1 | 193 | T8T (ACA→ACC) | ECD_RS18465 | DUF957 domain‑containing protein |
| * | NC_012971 | 3,723,302 | 0 | G | A | 50.7% | ‑4.4 / 300.8 | 204 | V134I (GTC→ATC) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,484,806 | 0 | C | G | 50.4% | 74.5 / 249.3 | 135 | T1077T (ACC→ACG) ‡ | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,723,265 | 0 | G | A | 50.3% | 16.6 / 289.0 | 185 | K121K (AAG→AAA) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,723,293 | 0 | T | C | 50.3% | 22.1 / 314.1 | 196 | C131R (TGT→CGT) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,484,804 | 0 | A | G | 50.0% | 65.0 / 213.2 | 136 | T1077A (ACC→GCC) ‡ | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,484,086 | 0 | C | T | 49.2% | ‑3.1 / 191.6 | 122 | Y837Y (TAC→TAT) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,723,271 | 0 | G | A | 49.0% | 25.5 / 296.4 | 196 | L123L (CTG→CTA) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,484,596 | 0 | A | G | 49.0% | 27.3 / 140.3 | 96 | R1007R (CGA→CGG) | rhsB | rhs element protein RhsB |
| * | NC_012971 | 3,723,247 | 0 | C | T | 48.9% | 7.1 / 272.8 | 175 | Y115Y (TAC→TAT) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,723,274 | 0 | C | G | 48.5% | 51.2 / inf | 196 | G124G (GGC→GGG) | ECD_RS18460 | DUF5983 family protein |
| * | NC_012971 | 3,484,075 | 0 | T | A | 48.3% | 23.0 / 225.0 | 118 | S834T (TCC→ACC) | rhsB | rhs element protein RhsB |
| Marginal new junction evidence (lowest skew 10 of 32 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_012971 | 550553 = | 0 (0.000) | 44 (0.440) | 18/588 | 4.1 | 100% | pseudogene (4/364 nt) | ECD_RS02680 | prophage tail fiber N‑terminal domain‑containing protein |
| ? | NC_012971 | = 788130 | 0 (0.000) | pseudogene (6/1155 nt) | ECD_RS23105 | prophage tail fiber N‑terminal domain‑containing protein | |||||
| * | ? | NC_012971 | = 2785747 | 64 (0.630) | 10 (0.140) | 10/424 | 4.6 | 15.9% | intergenic (+4/‑30) | ECD_RS13895/ECD_RS13900 | tRNA‑Met/tRNA‑Met |
| ? | NC_012971 | 2785968 = | 60 (0.830) | intergenic (+5/+69) | ECD_RS13905/amiC | tRNA‑Met/N‑acetylmuramoyl‑L‑alanine amidase AmiC | |||||
| * | ? | NC_012971 | = 739785 | 84 (0.830) | 11 (0.150) | 10/438 | 4.7 | 16.0% | noncoding (76/76 nt) | ECD_RS03640 | tRNA‑Lys |
| ? | NC_012971 | 740008 = | 53 (0.710) | intergenic (+1/‑132) | ECD_RS03645/ECD_RS03650 | tRNA‑Lys/tRNA‑Lys | |||||
| * | ? | NC_012971 | = 740009 | 73 (0.720) | 10 (0.130) | 8/434 | 5.4 | 12.7% | intergenic (+2/‑131) | ECD_RS03645/ECD_RS03650 | tRNA‑Lys/tRNA‑Lys |
| ? | NC_012971 | 740218 = | 84 (1.130) | intergenic (+3/‑275) | ECD_RS03650/nadA | tRNA‑Lys/quinolinate synthase NadA | |||||
| * | ? | NC_012971 | = 656615 | 47 (0.460) | 10 (0.130) | 7/434 | 5.8 | 15.6% | intergenic (‑1/+15) | ECD_RS03205/ECD_RS03210 | tRNA‑Met/tRNA‑Gln |
| ? | NC_012971 | 657008 = | 74 (1.000) | intergenic (‑2/+379) | ECD_RS03225/asnB | tRNA‑Met/asparagine synthase B | |||||
| * | ? | NC_012971 | = 3723604 | 102 (1.010) | 17 (0.170) +CACTCATCATC |
8/568 | 6.9 | 14.8% | intergenic (+4/‑81) | ECD_RS18465/ECD_RS18470 | DUF957 domain‑containing protein/DUF4942 domain‑containing protein |
| ? | NC_012971 | 3723605 = | 102 (1.010) | intergenic (+5/‑80) | ECD_RS18465/ECD_RS18470 | DUF957 domain‑containing protein/DUF4942 domain‑containing protein | |||||
| * | ? | NC_012971 | = 3644070 | 103 (1.020) | 7 (0.070) | 7/580 | 7.4 | 6.8% | coding (2645/4851 nt) | ECD_RS18090 | YadA‑like family protein |
| ? | NC_012971 | 3644368 = | 90 (0.910) | coding (2943/4851 nt) | ECD_RS18090 | YadA‑like family protein | |||||
| * | ? | NC_012971 | 739215 = | 118 (1.170) | 6 (0.080) | 4/438 | 7.4 | 8.5% | noncoding (1/76 nt) | ECD_RS03620 | tRNA‑Lys |
| ? | NC_012971 | = 739503 | 42 (0.560) | intergenic (+2/‑1) | ECD_RS03625/ECD_RS03630 | tRNA‑Val/tRNA‑Lys | |||||
| * | ? | NC_012971 | = 2517850 | 0 (0.000) | 3 (0.040) +88 bp |
3/414 | 7.7 | 7.2% | intergenic (+31/‑53) | sseA/ECD_RS25300 | 3‑mercaptopyruvate sulfurtransferase/IS3‑like element ISEcB1 family transposase |
| ? | NC_012971 | 2519706 = | 110 (1.090) | intergenic (+446/‑220) | ECD_RS25300/timP | IS3‑like element ISEcB1 family transposase/small toxic inner membrane protein TimP | |||||
| * | ? | NC_012971 | 3136294 = | 98 (0.970) | 5 (0.060) +53 bp |
4/484 | 7.9 | 5.8% | intergenic (+392/+116) | yhaC/rnpB | YhaC family protein/RNase P RNA component class A |
| ? | NC_012971 | 4046335 = | 100 (0.990) | intergenic (‑131/+144) | yijF/gldA | DUF1287 domain‑containing protein/bifunctional L‑1,2‑propanediol dehydrogenase/glycerol dehydrogenase | |||||