mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.35.4 revision f352f80f4bc9
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 375 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 1,949,356 | 0 | T | C | 74.2% | 1477.0 / inf | 983 | S178S (AGT→AGC) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,359 | 0 | C | T | 73.4% | 1777.5 / inf | 969 | I179I (ATC→ATT) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,362 | 0 | C | T | 72.8% | 1677.5 / inf | 956 | N180N (AAC→AAT) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,436 | 0 | A | G | 72.1% | 1137.8 / inf | 825 | L6L (CTA→CTG) | yecE | hypothetical protein |
| * | NC_000913 | 1,634,023 | 0 | A | T | 72.1% | 54.4 / 59.4 | 68 | G123G (GGT→GGA) | nohA | NohA |
| * | NC_000913 | 1,949,411 | 0 | A | C | 71.8% | 2032.8 / inf | 943 | N197H (AAC→CAC) | yecD | hypothetical protein |
| * | NC_000913 | 1,949,410 | 0 | C | T | 71.3% | 1624.4 / inf | 949 | L196L (CTC→CTT) | yecD | hypothetical protein |
| * | NC_000913 | 3,941,090 | 0 | T | C | 70.0% | 175.7 / 199.5 | 237 | noncoding (34/76 nt) | gltU | tRNA‑Val |
| * | NC_000913 | 526,302 | 0 | G | . | 68.0% | 351.0 / 312.8 | 247 | coding (3818/4281 nt) | rhsD | RhsD |
| * | NC_000913 | 3,847,877 | 0 | G | A | 67.0% | 603.6 / inf | 424 | A159A (GCC→GCT) | uhpA | UhpA |
| * | NC_000913 | 4,117,363 | 0 | G | A | 66.9% | 525.7 / inf | 393 | C189C (TGC→TGT) | menA | MenA |
| * | NC_000913 | 4,284,190 | 0 | T | C | 66.6% | 312.7 / 292.4 | 324 | N254S (AAC→AGC) | acs | acetyl‑CoA synthetase |
| * | NC_000913 | 3,951,082 | 0 | C | T | 66.5% | 606.7 / inf | 459 | intergenic (+46/‑50) | ilvE/ilvD | branched‑chain amino‑acid aminotransferase/dihydroxyacid dehydratase |
| * | NC_000913 | 580,498 | 0 | G | A | 66.2% | 51.9 / 59.9 | 77 | V148I (GTT→ATT) | nohB | bacteriophage DNA packaging protein |
| * | NC_000913 | 3,161,224 | 0 | T | C | 66.0% | 321.7 / inf | 371 | T92A (ACG→GCG) | plsC | 1‑acyl‑sn‑glycerol‑3‑phosphate acyltransferase |
| * | NC_000913 | 1,949,472 | 0 | G | T | 65.8% | 420.8 / inf | 492 | G18G (GGG→GGT) | yecE | hypothetical protein |
| * | NC_000913 | 3,376,038 | 0 | A | G | 65.6% | 390.8 / inf | 410 | G83G (GGT→GGC) | rplM | 50S ribosomal subunit protein L13 |
| * | NC_000913 | 4,020,045 | 0 | C | T | 65.0% | 475.8 / inf | 411 | A54V (GCG→GTG) | b3838 | hypothetical protein |
| * | NC_000913 | 3,436,837 | 0 | T | C | 64.9% | 443.0 / inf | 527 | T104A (ACC→GCC) | yhdN | hypothetical protein |
| * | NC_000913 | 3,817,967 | 0 | A | G | 64.9% | 342.5 / inf | 424 | D279D (GAT→GAC) | yicF | hypothetical protein |
| Marginal new junction evidence (lowest skew 10 of 21 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 1986123 | 246 (0.680) | 72 (0.190) +CCC |
35/166 | 5.7 | 22.3% | intergenic (+318/‑122) | b1903/b1904 | hypothetical protein/hypothetical protein |
| ? | NC_000913 | 1986124 = | 256 (0.660) | intergenic (+319/‑121) | b1903/b1904 | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_000913 | 3422995 = | NA (NA) | 74 (0.200) | 34/178 | 6.2 | NA | noncoding (1426/2904 nt) | rrlD | 23S ribosomal RNA |
| ? | NC_000913 | 3942750 = | NA (NA) | noncoding (1425/2906 nt) | rrlC | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 2725778 | NA (NA) | 217 (0.580) +CCC |
29/166 | 6.5 | 100% | noncoding (1427/2904 nt) | rrlG | 23S ribosomal RNA |
| ? | NC_000913 | 2725779 = | 0 (0.000) | noncoding (1426/2904 nt) | rrlG | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 4008398 | 125 (0.330) | 86 (0.230) +AAGA |
29/172 | 6.7 | 41.6% | coding (481/516 nt) | b4555 | hypothetical protein |
| ? | NC_000913 | 4008399 = | 125 (0.320) | coding (482/516 nt) | b4555 | hypothetical protein | |||||
| * | ? | NC_000913 | = 227178 | NA (NA) | 210 (0.560) +GGG |
26/166 | 7.0 | NA | noncoding (1420/2904 nt) | rrlH | 23S ribosomal RNA |
| ? | NC_000913 | 227179 = | NA (NA) | noncoding (1421/2904 nt) | rrlH | 23S ribosomal RNA | |||||
| * | ? | NC_000913 | = 3424440 | 0 (0.000) | 1417 (4.500) +TTTCGATTCATCATCGT |
6/150 | 11.3 | 100% | intergenic (‑20/+155) | rrlD/alaU | 23S ribosomal RNA/tRNA‑Asx |
| ? | NC_000913 | 3424449 = | NA (NA) | intergenic (‑29/+146) | rrlD/alaU | 23S ribosomal RNA/tRNA‑Asx | |||||
| * | ? | NC_000913 | = 2727224 | NA (NA) | 745 (2.370) +TTTCGATTCATCATCGT |
5/150 | 11.8 | 71.9% | intergenic (‑20/+165) | rrlG/gltW | 23S ribosomal RNA/tRNA‑Sec |
| ? | NC_000913 | 2727233 = | 358 (0.930) | intergenic (‑29/+156) | rrlG/gltW | 23S ribosomal RNA/tRNA‑Sec | |||||
| * | ? | NC_000913 | = 274135 | NA (NA) | 6 (0.020) | 6/180 | 12.1 | NA | coding (207/1017 nt) | trs51 | IS5 transposase |
| ? | NC_000913 | = 274151 | NA (NA) | coding (191/1017 nt) | trs51 | IS5 transposase | |||||
| * | ? | NC_000913 | = 3129355 | NA (NA) | 36 (0.090) | 6/184 | 12.2 | 14.6% | intergenic (+146/+1) | trs59/b2983 | IS5 transposase/hypothetical protein |
| ? | NC_000913 | 3132097 = | 211 (0.550) | intergenic (‑125/‑49) | yghS/yghT | hypothetical protein/hypothetical protein | |||||
| * | ? | NC_000913 | 3431823 = | 584 (1.510) | 5 (0.010) | 4/160 | 12.5 | 0.97% | coding (497/510 nt) | def | peptide deformylase |
| ? | NC_000913 | 3431835 = | 509 (1.520) | coding (509/510 nt) | def | peptide deformylase | |||||