mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.38.1
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 43 shown, sorted by frequency from high to low) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP028101 | 618,209 | 0 | C | G | 70.5% | 196.9 / inf | 265 | noncoding (2881/2928 nt) | C7Y58_03125 | 23S ribosomal RNA |
| * | CP028101 | 1,889,727 | 0 | C | G | 41.8% | 250.5 / 109.7 | 180 | S100T (AGT→ACT) | C7Y58_09125 | diguanylate cyclase |
| * | CP028101 | 1,153,299 | 0 | A | G | 39.1% | 245.0 / 184.9 | 235 | F126L (TTT→CTT) | C7Y58_05555 | autotransporter subunit beta |
| * | CP028101 | 1,860,126 | 0 | G | C | 34.9% | 346.1 / 96.8 | 185 | V296L (GTC→CTC) | C7Y58_08965 | heavy metal translocating P‑type ATPase |
| * | CP028101 | 1,951,387 | 0 | C | T | 34.7% | 298.1 / 40.2 | 201 | D68N (GAT→AAT) ‡ | C7Y58_09440 | 30S ribosomal protein S13 |
| * | CP028101 | 1,515,247 | 0 | T | G | 34.4% | 329.1 / 76.7 | 181 | *205E (TAA→GAA) | C7Y58_07260 | DUF4125 domain‑containing protein |
| * | CP028101 | 345,350 | 0 | C | G | 34.3% | 429.6 / 140.7 | 310 | intergenic (‑4/+31) | C7Y58_01810/C7Y58_01815 | ethanolamine utilization microcompartment protein EutM/ethanolamine utilization protein EutM |
| * | CP028101 | 345,348 | 0 | A | G | 33.1% | 366.0 / 139.6 | 308 | intergenic (‑2/+33) | C7Y58_01810/C7Y58_01815 | ethanolamine utilization microcompartment protein EutM/ethanolamine utilization protein EutM |
| * | CP028101 | 688,652 | 0 | G | C | 32.8% | 476.1 / 127.8 | 255 | S1197T (AGT→ACT) | C7Y58_03385 | autotransporter domain‑containing protein |
| * | CP028101 | 1,374,796 | 0 | T | C | 31.8% | 259.7 / 72.5 | 195 | D188D (GAT→GAC) | C7Y58_06585 | segregation/condensation protein A |
| * | CP028101 | 1,530,400 | 1 | . | C | 31.8% | 90.8 / 112.9 | 63 | pseudogene (3/325 nt) | C7Y58_07345 | hypothetical protein |
| * | CP028101 | 158,536 | 0 | A | G | 31.6% | 314.1 / 80.7 | 218 | G89G (GGT→GGC) ‡ | C7Y58_00820 | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | CP028101 | 1,847,131 | 0 | C | T | 31.4% | 320.7 / 38.6 | 245 | E718K (GAA→AAA) | C7Y58_08910 | CRISPR‑associated helicase/endonuclease Cas3 |
| * | CP028101 | 1,119,638 | 0 | G | A | 29.9% | 349.6 / 34.2 | 212 | G254E (GGA→GAA) | lysS | lysine‑‑tRNA ligase |
| * | CP028101 | 81,639 | 0 | C | T | 29.8% | 374.8 / 27.3 | 235 | L225F (CTT→TTT) | C7Y58_00320 | potassium/proton antiporter |
| * | CP028101 | 845,508 | 0 | C | T | 29.2% | 303.2 / 62.7 | 192 | A53V (GCA→GTA) | C7Y58_04180 | carbon starvation protein A |
| * | CP028101 | 1,951,385 | 0 | A | G | 28.9% | 297.1 / 91.8 | 204 | D68D (GAT→GAC) ‡ | C7Y58_09440 | 30S ribosomal protein S13 |
| * | CP028101 | 845,501 | 0 | C | T | 28.4% | 329.1 / 45.2 | 190 | P51S (CCA→TCA) | C7Y58_04180 | carbon starvation protein A |
| * | CP028101 | 158,538 | 0 | C | G | 28.2% | 390.6 / 83.8 | 215 | G89R (GGT→CGT) ‡ | C7Y58_00820 | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | CP028101 | 128,387 | 0 | G | A | 27.7% | 490.1 / 48.2 | 260 | E118K (GAA→AAA) | rpsB | 30S ribosomal protein S2 |
| Marginal new junction evidence (sorted from low to high skew) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP028101 | = 2136413 | 203 (0.880) | 21 (0.090) | 15/298 | 11.0 | 9.2% | intergenic (‑791/+84) | C7Y58_10225/C7Y58_10230 | autotransporter domain‑containing protein/hypothetical protein |
| ? | CP028101 | 2136935 = | 210 (0.910) | pseudogene (591/1029 nt) | C7Y58_10230 | hypothetical protein | |||||
| * | ? | CP028101 | 1754063 = | 192 (0.830) | 4 (0.020) | 4/266 | 15.3 | 2.3% | intergenic (+8/‑60) | C7Y58_08530/C7Y58_08535 | RNA 2'‑phosphotransferase/excinuclease ABC subunit UvrA |
| ? | CP028101 | 1754096 = | 167 (0.810) | intergenic (+41/‑27) | C7Y58_08530/C7Y58_08535 | RNA 2'‑phosphotransferase/excinuclease ABC subunit UvrA | |||||
| * | ? | CP028101 | = 696834 | NA (NA) | 4 (0.020) | 4/280 | 15.7 | NA | coding (835/1176 nt) | C7Y58_03420 | IS110 family transposase ISFnu4 |
| ? | CP028101 | = 696838 | NA (NA) | coding (831/1176 nt) | C7Y58_03420 | IS110 family transposase ISFnu4 | |||||
| * | ? | CP028101 | 14211 = | NA (NA) | 4 (0.020) | 4/296 | 16.2 | 1.6% | coding (77/99 nt) | C7Y58_00075 | hypothetical protein |
| ? | CP028101 | 272963 = | 246 (1.060) | intergenic (+25/+25) | C7Y58_01450/C7Y58_01455 | DNA mismatch repair protein MutT/hypothetical protein | |||||
| * | ? | CP028101 | = 131134 | 238 (1.030) | 4 (0.020) | 3/272 | 16.3 | 1.8% | intergenic (+28/+36) | C7Y58_00635/C7Y58_00640 | ribosome‑recycling factor/preprotein translocase subunit SecY |
| ? | CP028101 | = 131139 | 221 (1.050) | intergenic (+33/+31) | C7Y58_00635/C7Y58_00640 | ribosome‑recycling factor/preprotein translocase subunit SecY | |||||
| * | ? | CP028101 | 718084 = | 207 (0.900) | 3 (0.010) | 3/276 | 16.4 | 1.6% | intergenic (+52/‑225) | C7Y58_03540/C7Y58_03545 | hypothetical protein/short‑chain fatty acids transporter |
| ? | CP028101 | 718110 = | 176 (0.820) | intergenic (+78/‑199) | C7Y58_03540/C7Y58_03545 | hypothetical protein/short‑chain fatty acids transporter | |||||
| * | ? | CP028101 | = 1727048 | 222 (0.960) | 4 (0.020) | 3/282 | 16.5 | 1.9% | coding (183/1101 nt) | yqeH | ribosome biogenesis GTPase YqeH |
| ? | CP028101 | = 1727052 | 212 (0.970) | coding (187/1101 nt) | yqeH | ribosome biogenesis GTPase YqeH | |||||
| * | ? | CP028101 | 593405 = | 325 (1.410) | 3 (0.010) | 3/282 | 16.5 | 0.97% | coding (2354/2829 nt) | C7Y58_02990 | DUF3427 domain‑containing protein |
| ? | CP028101 | 593422 = | 302 (1.380) | coding (2371/2829 nt) | C7Y58_02990 | DUF3427 domain‑containing protein | |||||