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 | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,296,060 | 0 | C | T | 22.5% | 79.7 / 18.2 | 40 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 4,356,445 | 0 | A | T | 20.4% | 95.6 / 10.6 | 44 | intergenic (‑34/+25) | dtpC/cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| * | NC_000913 | 4,356,446 | 0 | A | T | 20.4% | 94.1 / 15.2 | 44 | intergenic (‑35/+24) | dtpC/cadA | dipeptide and tripeptide permease/lysine decarboxylase, acid‑inducible |
| * | NC_000913 | 1,306,787 | 0 | G | A | 20.0% | 84.7 / 14.5 | 40 | intergenic (+19/+34) | oppF/yciU | oligopeptide ABC transporter ATPase/UPF0263 family protein |
| * | NC_000913 | 1,306,788 | 0 | T | C | 20.0% | 82.2 / 15.7 | 40 | intergenic (+20/+33) | oppF/yciU | oligopeptide ABC transporter ATPase/UPF0263 family protein |
| Marginal new junction evidence (lowest skew 10 of 48 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1411899 = | 46 (1.230) | 6 (0.200) | 6/210 | 3.1 | 16.5% | coding (50/936 nt) | ttcA | tRNA s(2)C32 thioltransferase, iron sulfur cluster protein |
| ? | NC_000913 | = 1434958 | 24 (0.800) | pseudogene (51/51 nt) | ttcC | pseudogene, prophage Rac integration site ttcA duplication;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 739779 | 39 (1.040) | 6 (0.170) | 6/244 | 3.6 | 14.9% | coding (273/1419 nt) | phr | deoxyribodipyrimidine photolyase, FAD‑binding |
| ? | NC_000913 | = 739800 | 32 (0.920) | coding (294/1419 nt) | phr | deoxyribodipyrimidine photolyase, FAD‑binding | |||||
| * | ? | NC_000913 | = 4536095 | 58 (1.550) | 5 (0.140) | 5/244 | 4.0 | 8.6% | intergenic (+64/+519) | yjhR/nanS | pseudogene, helicase family; putative frameshift suppressor/9‑O‑acetyl N‑acetylneuraminic acid esterase |
| ? | NC_000913 | = 4536110 | 52 (1.500) | intergenic (+79/+504) | yjhR/nanS | pseudogene, helicase family; putative frameshift suppressor/9‑O‑acetyl N‑acetylneuraminic acid esterase | |||||
| * | ? | NC_000913 | 4372698 = | 37 (0.990) | 5 (0.140) | 5/246 | 4.0 | 12.4% | intergenic (+27/‑111) | groL/yjeI | Cpn60 chaperonin GroEL, large subunit of GroESL/DUF4156 family lipoprotein |
| ? | NC_000913 | 4372728 = | 36 (1.030) | intergenic (+57/‑81) | groL/yjeI | Cpn60 chaperonin GroEL, large subunit of GroESL/DUF4156 family lipoprotein | |||||
| * | ? | NC_000913 | 4096861 = | 35 (0.940) | 8 (0.230) | 5/248 | 4.0 | 18.4% | coding (588/1470 nt) | rhaB | rhamnulokinase |
| ? | NC_000913 | 4096886 = | 38 (1.080) | coding (563/1470 nt) | rhaB | rhamnulokinase | |||||
| * | ? | NC_000913 | = 316201 | NA (NA) | 5 (0.140) | 5/244 | 4.0 | NA | noncoding (973/1255 nt) | IS3 | repeat region |
| ? | NC_000913 | = 316220 | NA (NA) | noncoding (992/1255 nt) | IS3 | repeat region | |||||
| * | ? | NC_000913 | = 2153762 | 43 (1.150) | 7 (0.200) | 5/250 | 4.1 | 14.1% | noncoding (119/136 nt) | sibB | sRNA antisense regulator of toxic IbsB protein |
| ? | NC_000913 | = 2153770 | 44 (1.230) | noncoding (127/136 nt) | sibB | sRNA antisense regulator of toxic IbsB protein | |||||
| * | ? | NC_000913 | = 1696426 | 24 (0.640) | 5 (0.140) | 5/250 | 4.1 | 18.6% | intergenic (‑355/+36) | uidA/uidR | beta‑D‑glucuronidase/transcriptional repressor |
| ? | NC_000913 | = 1696439 | 21 (0.590) | intergenic (‑368/+23) | uidA/uidR | beta‑D‑glucuronidase/transcriptional repressor | |||||
| * | ? | NC_000913 | 559162 = | 35 (0.940) | 5 (0.140) | 5/250 | 4.1 | 12.8% | coding (189/693 nt) | sfmC | putative periplasmic pilus chaperone |
| ? | NC_000913 | 559214 = | 35 (0.980) | coding (241/693 nt) | sfmC | putative periplasmic pilus chaperone | |||||
| * | ? | NC_000913 | = 3150561 | 25 (0.670) | 4 (0.120) | 4/240 | 4.3 | 13.6% | noncoding (8/255 nt) | RIP222 (repetitive extragenic palindromic) element; contains 5 REP sequences and 2 IHF sites | RIP222 (repetitive extragenic palindromic) element; contains 5 REP sequences and 2 IHF sites |
| ? | NC_000913 | = 3150568 | 28 (0.820) | noncoding (15/255 nt) | RIP222 (repetitive extragenic palindromic) element; contains 5 REP sequences and 2 IHF sites | RIP222 (repetitive extragenic palindromic) element; contains 5 REP sequences and 2 IHF sites | |||||