mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.33.1 revision 8505477f25b3
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 | 30.9% | 93.1 / 42.9 | 83 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 1,841,246 | 0 | G | T | 30.8% | 42.9 / 16.5 | 39 | A53E (GCG→GAG) | ynjF | CDP‑alcohol phosphatidyltransferase family inner membrane protein |
| * | NC_000913 | 1,197,373 | 0 | A | G | 29.3% | 87.8 / 45.1 | 75 | S54P (TCT→CCT) | ymfD | e14 prophage; putative SAM‑dependent methyltransferase |
| * | NC_000913 | 2,361,535 | 0 | A | T | 20.9% | 78.4 / 12.6 | 44 | I226N (ATC→AAC) | rhmR | putative DNA‑binding transcriptional regulator for the rhm operon |
| * | NC_000913 | 3,913,767 | 0 | C | A | 20.0% | 66.9 / 10.9 | 42 | intergenic (‑99/+63) | glmS/glmU | L‑glutamine:D‑fructose‑6‑phosphate aminotransferase/fused N‑acetyl glucosamine‑1‑phosphate uridyltransferase/glucosamine‑1‑phosphate acetyl transferase |
| Marginal new junction evidence (lowest skew 10 of 12 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 60 (0.970) | 13 (0.240) | 12/252 | 4.4 | 20.1% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 50 (0.910) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 1207805 | 51 (0.830) | 11 (0.200) | 11/252 | 4.8 | 18.8% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 50 (0.910) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 381681 = | NA (NA) | 7 (0.120) | 4/266 | 8.5 | NA | noncoding (422/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381753 = | NA (NA) | noncoding (494/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | 2078520 = | 73 (1.180) | 3 (0.050) | 3/264 | 9.1 | 4.2% | intergenic (+413/+29) | yeeW/yoeD | CP4‑44 prophage; uncharacterized protein;Phage or Prophage Related/pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related |
| ? | NC_000913 | 2078552 = | 69 (1.200) | pseudogene (126/129 nt) | yoeD | pseudogene, CP4‑44 putative prophage remnant;Phage or Prophage Related | |||||
| * | ? | NC_000913 | 202024 = | 63 (1.020) | 3 (0.050) | 3/268 | 9.2 | 4.9% | intergenic (+28/‑77) | lpxD/fabZ | UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase/(3R)‑hydroxymyristol acyl carrier protein dehydratase |
| ? | NC_000913 | 202060 = | 57 (0.980) | intergenic (+64/‑41) | lpxD/fabZ | UDP‑3‑O‑(3‑hydroxymyristoyl)‑glucosamine N‑acyltransferase/(3R)‑hydroxymyristol acyl carrier protein dehydratase | |||||
| * | ? | NC_000913 | 4606558 = | NA (NA) | 3 (0.050) | 3/270 | 9.3 | NA | noncoding (1/92 nt) | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences |
| ? | NC_000913 | 4606590 = | NA (NA) | noncoding (33/92 nt) | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP351 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | 4027518 = | 91 (1.470) | 4 (0.070) | 3/270 | 9.3 | 4.5% | noncoding (197/281 nt) | REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences |
| ? | NC_000913 | 4027550 = | 83 (1.410) | noncoding (229/281 nt) | REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences | REP291 (repetitive extragenic palindromic) element; contains 6 REP sequences | |||||
| * | ? | NC_000913 | 4418516 = | 57 (0.920) | 3 (0.050) | 3/276 | 9.4 | 5.6% | intergenic (‑63/+45) | ulaR/ulaG | transcriptional repressor for the L‑ascorbate utilization divergent operon/L‑ascorbate 6‑phosphate lactonase |
| ? | NC_000913 | 4418548 = | 46 (0.770) | intergenic (‑95/+13) | ulaR/ulaG | transcriptional repressor for the L‑ascorbate utilization divergent operon/L‑ascorbate 6‑phosphate lactonase | |||||
| * | ? | NC_000913 | 3818520 = | 68 (1.100) | 3 (0.050) | 3/278 | 9.5 | 4.5% | coding (761/825 nt) | dinD | DNA damage‑inducible protein |
| ? | NC_000913 | 3818541 = | 62 (1.030) | coding (782/825 nt) | dinD | DNA damage‑inducible protein | |||||
| * | ? | NC_000913 | 228183 = | NA (NA) | 3 (0.050) | 3/280 | 9.5 | 5.4% | noncoding (2425/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 916812 | 53 (0.860) | coding (340/1659 nt) | ybjD | putative OLD family ATP‑dependent endonuclease; DUF2813 family protein | |||||