mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
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 | 3,705,984 | 0 | T | G | 35.2% | 210.6 / 159.5 | 126 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 34.9% | 181.8 / 129.0 | 126 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,048 | 0 | G | T | 29.5% | 284.7 / 122.9 | 132 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 4,296,060 | 0 | C | T | 24.8% | 291.4 / 94.7 | 153 | intergenic (+266/+376) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,705,970 | 0 | G | A | 24.8% | 229.2 / 70.2 | 109 | intergenic (‑180/+128) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,971 | 0 | C | A | 24.8% | 289.6 / 84.9 | 109 | intergenic (‑181/+127) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,978 | 0 | A | C | 22.9% | 270.0 / 84.1 | 125 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,017 | 0 | C | T | 21.2% | 257.6 / 60.1 | 123 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,781,152 | 0 | A | G | 21.1% | 142.0 / 13.0 | 76 | intergenic (+135/‑63) | lldD/trmL | L‑lactate dehydrogenase, FMN‑linked/tRNA Leu mC34,mU34 2'‑O‑methyltransferase, SAM‑dependent |
| * | NC_000913 | 3,706,029 | 0 | T | C | 20.8% | 261.5 / 63.0 | 128 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| Marginal new junction evidence (lowest skew 10 of 874 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | 1207790 = | 73 (0.870) | 20 (0.290) | 18/166 | 4.9 | 25.0% | coding (290/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | 1209619 = | 59 (0.840) | pseudogene (1/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 3708594 | 63 (0.750) | 15 (0.200) | 13/174 | 7.0 | 21.5% | intergenic (‑889/+22) | dppA/proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| ? | NC_000913 | = 3708597 | 54 (0.740) | intergenic (‑892/+19) | dppA/proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro | |||||
| * | ? | NC_000913 | = 3708441 | 84 (1.010) | 15 (0.200) | 13/174 | 7.0 | 19.1% | intergenic (‑736/+175) | dppA/proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro |
| ? | NC_000913 | = 3708582 | 53 (0.720) | intergenic (‑877/+34) | dppA/proK | dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor/tRNA‑Pro | |||||
| * | ? | NC_000913 | = 1207805 | 71 (0.850) | 16 (0.230) | 12/166 | 7.0 | 21.4% | coding (305/630 nt) | stfP | e14 prophage; uncharacterized protein |
| ? | NC_000913 | = 1209602 | 58 (0.830) | pseudogene (18/501 nt) | stfE | pseudogene, e14 prophage; side tail fiber protein fragment family;Phage or Prophage Related | |||||
| * | ? | NC_000913 | = 4168341 | 23 (0.280) | 18 (0.240) | 13/178 | 7.2 | 46.6% | intergenic (+141/‑31) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu |
| ? | NC_000913 | = 4168363 | NA (NA) | intergenic (+163/‑9) | rrsB/gltT | 16S ribosomal RNA of rrnB operon/tRNA‑Glu | |||||
| * | ? | NC_000913 | 2729453 = | NA (NA) | 18 (0.240) | 13/178 | 7.2 | 50.1% | intergenic (‑9/+163) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729475 = | 20 (0.240) | intergenic (‑31/+141) | gltW/rrsG | tRNA‑Glu/16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 780631 | 102 (1.220) | 20 (0.240) +GT |
15/194 | 7.2 | 16.7% | intergenic (+2/‑134) | lysT/valT | tRNA‑Lys/tRNA‑Val |
| ? | NC_000913 | = 781839 | NA (NA) | intergenic (+187/‑246) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||
| * | ? | NC_000913 | 4366839 = | 99 (1.190) | 11 (0.160) | 11/168 | 7.6 | 12.1% | intergenic (‑66/+52) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase |
| ? | NC_000913 | 4366871 = | 76 (1.080) | intergenic (‑98/+20) | dcuA/aspA | C4‑dicarboxylate antiporter/aspartate ammonia‑lyase | |||||
| * | ? | NC_000913 | 2118562 = | 76 (0.910) | 10 (0.160) +23 bp |
9/152 | 7.7 | 14.7% | noncoding (97/186 nt) | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences | REP144 (repetitive extragenic palindromic) element; contains 4 REP sequences |
| ? | NC_000913 | 4285302 = | NA (NA) | noncoding (1/77 nt) | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | REP320 (repetitive extragenic palindromic) element; contains 2 REP sequences | |||||
| * | ? | NC_000913 | = 781222 | 106 (1.270) | 18 (0.220) +ATGT |
13/190 | 7.7 | 15.0% | noncoding (76/76 nt) | lysY | tRNA‑Lys |
| ? | NC_000913 | = 781839 | NA (NA) | intergenic (+187/‑246) | lysQ/nadA | tRNA‑Lys/quinolinate synthase, subunit A | |||||