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 35 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 | 77.4% | 791.9 / inf | 668 | noncoding (2881/2928 nt) | C7Y58_03125 | 23S ribosomal RNA |
| * | CP028101 | 1,153,299 | 0 | A | G | 38.4% | 536.6 / inf | 474 | F126L (TTT→CTT) | C7Y58_05555 | autotransporter subunit beta |
| * | CP028101 | 345,350 | 0 | C | G | 38.4% | 698.8 / 270.1 | 489 | intergenic (‑4/+31) | C7Y58_01810/C7Y58_01815 | ethanolamine utilization microcompartment protein EutM/ethanolamine utilization protein EutM |
| * | CP028101 | 1,860,126 | 0 | G | C | 37.6% | 583.9 / 262.0 | 351 | V296L (GTC→CTC) | C7Y58_08965 | heavy metal translocating P‑type ATPase |
| * | CP028101 | 1,374,796 | 0 | T | C | 31.7% | 619.4 / 164.8 | 420 | D188D (GAT→GAC) | C7Y58_06585 | segregation/condensation protein A |
| * | CP028101 | 845,508 | 0 | C | T | 31.4% | 724.3 / 136.6 | 445 | A53V (GCA→GTA) | C7Y58_04180 | carbon starvation protein A |
| * | CP028101 | 1,951,385 | 0 | A | G | 30.9% | 671.9 / 210.1 | 424 | D68D (GAT→GAC) ‡ | C7Y58_09440 | 30S ribosomal protein S13 |
| * | CP028101 | 1,329,704 | 0 | G | C | 30.0% | 773.6 / 157.4 | 406 | S181T (AGT→ACT) | C7Y58_06380 | hypothetical protein |
| * | CP028101 | 345,348 | 0 | A | G | 29.7% | 684.1 / 177.2 | 496 | intergenic (‑2/+33) | C7Y58_01810/C7Y58_01815 | ethanolamine utilization microcompartment protein EutM/ethanolamine utilization protein EutM |
| * | CP028101 | 1,951,387 | 0 | C | T | 29.2% | 755.4 / 83.0 | 422 | D68N (GAT→AAT) ‡ | C7Y58_09440 | 30S ribosomal protein S13 |
| * | CP028101 | 1,727,846 | 0 | G | A | 27.9% | 664.9 / 58.6 | 390 | E327E (GAG→GAA) | yqeH | ribosome biogenesis GTPase YqeH |
| * | CP028101 | 1,515,247 | 0 | T | G | 27.5% | 933.1 / 115.2 | 405 | *205E (TAA→GAA) | C7Y58_07260 | DUF4125 domain‑containing protein |
| * | CP028101 | 1,889,727 | 0 | C | G | 27.1% | 827.0 / 150.8 | 392 | S100T (AGT→ACT) | C7Y58_09125 | diguanylate cyclase |
| * | CP028101 | 158,538 | 0 | C | G | 25.4% | 836.9 / 110.3 | 401 | G89R (GGT→CGT) ‡ | C7Y58_00820 | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | CP028101 | 1,847,131 | 0 | C | T | 24.4% | 682.6 / 47.0 | 402 | E718K (GAA→AAA) | C7Y58_08910 | CRISPR‑associated helicase/endonuclease Cas3 |
| * | CP028101 | 628,912 | 0 | G | C | 23.9% | 956.1 / 138.4 | 460 | E89D (GAG→GAC) | C7Y58_03170 | hypothetical protein |
| * | CP028101 | 128,387 | 0 | G | A | 23.8% | 1025.6 / 65.3 | 473 | E118K (GAA→AAA) | rpsB | 30S ribosomal protein S2 |
| * | CP028101 | 1,393,372 | 0 | A | G | 23.6% | 700.8 / 93.7 | 365 | D88D (GAT→GAC) | C7Y58_06685 | DUF4241 domain‑containing protein |
| * | CP028101 | 158,536 | 0 | A | G | 23.6% | 748.5 / 94.9 | 403 | G89G (GGT→GGC) ‡ | C7Y58_00820 | YebC/PmpR family DNA‑binding transcriptional regulator |
| * | CP028101 | 276,378 | 0 | A | C | 23.3% | 1147.7 / 61.7 | 473 | L97R (CTA→CGA) | C7Y58_01470 | DUF1266 domain‑containing protein |
| Marginal new junction evidence (lowest skew 10 of 152 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | CP028101 | 311512 = | 539 (1.130) | 29 (0.080) | 22/242 | 14.8 | 6.3% | intergenic (+67/+69) | C7Y58_01615/C7Y58_01620 | tRNA‑Tyr/ATP‑binding protein |
| ? | CP028101 | 311573 = | 425 (1.100) | intergenic (+128/+8) | C7Y58_01615/C7Y58_01620 | tRNA‑Tyr/ATP‑binding protein | |||||
| * | ? | CP028101 | = 332833 | NA (NA) | 18 (0.040) | 15/282 | 19.2 | NA | noncoding (2300/2928 nt) | C7Y58_01745 | 23S ribosomal RNA |
| ? | CP028101 | = 332842 | NA (NA) | noncoding (2291/2928 nt) | C7Y58_01745 | 23S ribosomal RNA | |||||
| * | ? | CP028101 | = 82578 | 400 (0.840) | 10 (0.030) | 9/238 | 20.3 | 3.1% | coding (495/504 nt) | C7Y58_00325 | hypothetical protein |
| ? | CP028101 | = 82548 | 298 (0.790) | coding (1582/1584 nt) | C7Y58_00320 | potassium/proton antiporter | |||||
| * | ? | CP028101 | 1133411 = | 409 (0.860) | 11 (0.030) | 10/266 | 21.0 | 2.9% | coding (1116/1119 nt) | C7Y58_05455 | M23 family peptidase |
| ? | CP028101 | 1133444 = | 371 (0.870) | intergenic (+30/‑16) | C7Y58_05455/C7Y58_05460 | M23 family peptidase/4‑hydroxy‑3‑methylbut‑2‑en‑1‑yl diphosphate synthase (flavodoxin) | |||||
| * | ? | CP028101 | 677260 = | 419 (0.880) | 10 (0.030) | 7/242 | 21.8 | 2.8% | intergenic (+43/+35) | C7Y58_03345/C7Y58_03350 | Crp/Fnr family transcriptional regulator/PTS transporter subunit IIC |
| ? | CP028101 | 677288 = | 342 (0.890) | intergenic (+71/+7) | C7Y58_03345/C7Y58_03350 | Crp/Fnr family transcriptional regulator/PTS transporter subunit IIC | |||||
| * | ? | CP028101 | 515137 = | 535 (1.130) | 16 (0.040) | 8/262 | 22.0 | 3.4% | intergenic (+50/‑81) | C7Y58_02630/C7Y58_02635 | autotransporter domain‑containing protein/N‑acetyltransferase |
| ? | CP028101 | 515178 = | 445 (1.070) | intergenic (+91/‑40) | C7Y58_02630/C7Y58_02635 | autotransporter domain‑containing protein/N‑acetyltransferase | |||||
| * | ? | CP028101 | 788832 = | 381 (0.800) | 14 (0.030) | 9/278 | 22.1 | 3.8% | intergenic (+172/‑73) | C7Y58_03870/C7Y58_03875 | hypothetical protein/RNA‑directed DNA polymerase |
| ? | CP028101 | 788856 = | 358 (0.810) | intergenic (+196/‑49) | C7Y58_03870/C7Y58_03875 | hypothetical protein/RNA‑directed DNA polymerase | |||||
| * | ? | CP028101 | 1969119 = | 381 (0.800) | 5 (0.010) | 5/226 | 22.4 | 1.7% | intergenic (+16/‑118) | C7Y58_09535/C7Y58_09540 | cupin domain‑containing protein/methyltransferase |
| ? | CP028101 | 1969155 = | 298 (0.830) | intergenic (+52/‑82) | C7Y58_09535/C7Y58_09540 | cupin domain‑containing protein/methyltransferase | |||||
| * | ? | CP028101 | = 574164 | 524 (1.100) | 8 (0.020) | 8/276 | 22.6 | 1.6% | intergenic (‑67/+64) | C7Y58_02915/C7Y58_02920 | sodium‑dependent transporter/tyrosine phenol‑lyase |
| ? | CP028101 | = 574169 | 493 (1.120) | intergenic (‑72/+59) | C7Y58_02915/C7Y58_02920 | sodium‑dependent transporter/tyrosine phenol‑lyase | |||||
| * | ? | CP028101 | 539881 = | 494 (1.040) | 8 (0.020) | 8/278 | 22.7 | 1.7% | intergenic (+177/‑55) | rrf/C7Y58_02750 | 5S ribosomal RNA/ribosome maturation factor |
| ? | CP028101 | 539907 = | 454 (1.020) | intergenic (+203/‑29) | rrf/C7Y58_02750 | 5S ribosomal RNA/ribosome maturation factor | |||||