mutation predictions | marginal predictions | summary statistics | genome diff | command line log
|
breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 51 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,985 | 0 | T | C | 43.3% | 223.0 / inf | 248 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,984 | 0 | T | G | 43.1% | 286.1 / inf | 248 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,970 | 0 | G | A | 35.3% | 290.6 / 199.2 | 201 | 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 | 35.3% | 362.1 / 232.6 | 201 | intergenic (‑181/+127) | 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 | 34.8% | 463.2 / 282.2 | 265 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 2,644,289 | 0 | A | C | 30.8% | 283.6 / 191.5 | 196 | intergenic (‑6/+144) | rlmN/ndk | dual specificity 23S rRNA m(2)A2503, tRNA m(2)A37 methyltransferase, SAM‑dependent/multifunctional nucleoside diphosphate kinase and apyrimidinic endonuclease and 3'‑phosphodiesterase |
| * | NC_000913 | 3,706,017 | 0 | C | T | 30.2% | 386.9 / 181.3 | 251 | intergenic (‑227/+81) | 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 | 29.0% | 427.3 / 220.1 | 250 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 2,028,158 | 0 | G | C | 25.2% | 205.0 / 79.0 | 99 | intergenic (‑141/+30) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 2,028,159 | 0 | T | A | 25.2% | 181.2 / 69.7 | 99 | intergenic (‑142/+29) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 2,028,160 | 0 | G | C | 25.2% | 195.6 / 79.0 | 99 | intergenic (‑143/+28) | yedQ/yodC | putative membrane‑anchored diguanylate cyclase/uncharacterized protein |
| * | NC_000913 | 3,477,878 | 0 | T | A | 25.2% | 197.6 / 71.5 | 108 | intergenic (+20/+29) | slyX/slyD | phi X174 lysis protein/FKBP‑type peptidyl prolyl cis‑trans isomerase (rotamase) |
| * | NC_000913 | 3,706,029 | 0 | T | C | 24.4% | 450.4 / 147.6 | 253 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,657,599 | 0 | T | A | 24.1% | 319.3 / 105.3 | 158 | intergenic (+32/‑767) | hdeD/gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| * | NC_000913 | 3,657,603 | 0 | T | A | 24.0% | 325.9 / 98.2 | 154 | intergenic (+36/‑763) | hdeD/gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| * | NC_000913 | 3,657,601 | 0 | G | C | 23.3% | 351.6 / 115.4 | 159 | intergenic (+34/‑765) | hdeD/gadE | acid‑resistance membrane protein/gad regulon transcriptional activator |
| * | NC_000913 | 4,088,091 | 0 | G | C | 23.2% | 214.0 / 70.7 | 99 | intergenic (+34/+16) | yiiG/frvR | DUF3829 family lipoprotein/putative frv operon regulator; contains a PTS EIIA domain |
| * | NC_000913 | 1,273,229 | 0 | A | T | 23.0% | 230.0 / 71.4 | 113 | intergenic (+27/+17) | chaC/ychN | cation transport regulator/putative sulfur relay protein |
| * | NC_000913 | 2,980,742 | 0 | A | G | 23.0% | 212.7 / 65.0 | 114 | intergenic (‑107/+22) | ygeA/araE | Asp/Glu_racemase family protein/arabinose transporter |
| * | NC_000913 | 2,653,367 | 0 | G | A | 22.9% | 273.8 / 79.5 | 140 | intergenic (+28/+790) | sseA/sseB | 3‑mercaptopyruvate sulfurtransferase/rhodanase‑like enzyme, sulfur transfer from thiosulfate |
| Marginal new junction evidence (lowest skew 10 of 1350 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 274419 | NA (NA) | 102 (0.920) | 30/188 | 5.4 | NA | noncoding (731/1195 nt) | IS5 | repeat region |
| ? | NC_000913 | = 274423 | NA (NA) | noncoding (727/1195 nt) | IS5 | repeat region | |||||
| * | ? | NC_000913 | = 225281 | NA (NA) | 61 (0.550) | 25/188 | 6.7 | NA | noncoding (1511/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225293 | NA (NA) | noncoding (1523/1542 nt) | rrsH | 16S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 3944978 | NA (NA) | 62 (0.570) | 24/186 | 6.9 | 75.0% | noncoding (1275/2904 nt) | rrlC | 23S ribosomal RNA of rrnC operon |
| ? | NC_000913 | = 4038811 | 22 (0.190) | noncoding (1293/2905 nt) | rrlA | 23S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2727891 = | NA (NA) | 62 (0.570) | 24/186 | 6.9 | NA | noncoding (1294/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 225895 | NA (NA) | 64 (0.590) | 23/184 | 7.1 | NA | noncoding (137/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225899 | NA (NA) | noncoding (141/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 228108 | NA (NA) | 37 (0.330) | 23/190 | 7.4 | NA | noncoding (2350/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 228124 | NA (NA) | noncoding (2366/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 4093097 | 151 (1.290) | 31 (0.280) | 22/186 | 7.5 | 17.7% | intergenic (‑274/+27) | frvA/rhaM | putative enzyme IIA component of PTS/L‑rhamnose mutarotase |
| ? | NC_000913 | = 4093109 | 146 (1.330) | intergenic (‑286/+15) | frvA/rhaM | putative enzyme IIA component of PTS/L‑rhamnose mutarotase | |||||
| * | ? | NC_000913 | = 4040481 | NA (NA) | 105 (0.960) | 22/186 | 7.5 | 100% | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4040505 | 0 (0.000) | intergenic (+82/‑12) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 227052 | 36 (0.310) | 62 (0.570) | 22/186 | 7.5 | 64.7% | noncoding (1294/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | 2727910 = | NA (NA) | noncoding (1275/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 16507 | NA (NA) | 47 (0.440) | 21/182 | 7.6 | NA | noncoding (1121/1345 nt) | IS186 | repeat region |
| ? | NC_000913 | = 16511 | NA (NA) | noncoding (1125/1345 nt) | IS186 | repeat region | |||||