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 | 4,296,268 | 0 | T | C | 27.9% | 190.5 / 65.3 | 105 | intergenic (+474/+168) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,521 | 0 | T | C | 27.7% | 145.2 / 53.6 | 103 | A28A (GCT→GCC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,522 | 0 | C | G | 26.0% | 192.3 / 47.0 | 103 | L29V (CTG→GTG) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,191 | 0 | A | C | 23.7% | 104.4 / 44.4 | 77 | intergenic (+397/+245) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,525 | 0 | G | T | 23.3% | 225.0 / 18.8 | 104 | V30F (GTT→TTT) | yidX | putative lipoprotein |
| * | NC_000913 | 4,296,190 | 0 | A | G | 23.0% | 112.6 / 31.5 | 77 | intergenic (+396/+246) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| * | NC_000913 | 3,875,529 | 0 | C | G | 21.1% | 230.1 / 39.3 | 106 | S31C (TCC→TGC) | yidX | putative lipoprotein |
| * | NC_000913 | 3,875,532 | 0 | A | T | 20.0% | 247.0 / 23.7 | 106 | H32L (CAT→CTT) | yidX | putative lipoprotein |
| Marginal new junction evidence (lowest skew 10 of 50 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4612024 | 94 (0.600) | 6 (0.040) | 6/548 | 13.7 | 6.1% | intergenic (+23/‑104) | osmY/ytjA | salt‑inducible putative ABC transporter periplasmic binding protein/uncharacterized protein |
| ? | NC_000913 | = 4612030 | 95 (0.630) | intergenic (+29/‑98) | osmY/ytjA | salt‑inducible putative ABC transporter periplasmic binding protein/uncharacterized protein | |||||
| * | ? | NC_000913 | = 4409634 | 171 (1.090) | 3 (0.020) +63 bp |
3/438 | 13.9 | 2.3% | coding (360/732 nt) | rlmB | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent |
| ? | NC_000913 | 4409698 = | 157 (1.000) | coding (424/732 nt) | rlmB | 23S rRNA mG2251 2'‑O‑ribose methyltransferase, SAM‑dependent | |||||
| * | ? | NC_000913 | 3381839 = | 133 (0.850) | 5 (0.030) | 5/546 | 14.3 | 3.6% | coding (1097/1368 nt) | degQ | serine endoprotease, periplasmic |
| ? | NC_000913 | 3381869 = | 137 (0.900) | coding (1127/1368 nt) | degQ | serine endoprotease, periplasmic | |||||
| * | ? | NC_000913 | 925857 = | 150 (0.960) | 14 (0.110) | 3/472 | 14.5 | 13.9% | intergenic (+317/+27) | clpA/serW | ATPase and specificity subunit of ClpA‑ClpP ATP‑dependent serine protease, chaperone activity/tRNA‑Ser |
| ? | NC_000913 | = 1097356 | 48 (0.370) | intergenic (+527/+209) | ycdU/serX | putative inner membrane protein/tRNA‑Ser | |||||
| * | ? | NC_000913 | 4295832 = | NA (NA) | 5 (0.040) | 3/486 | 14.8 | NA | intergenic (+38/+604) | gltP/yjcO | glutamate/aspartate:proton symporter/Sel1 family TPR‑like repeat protein |
| ? | NC_000913 | = 4296394 | NA (NA) | noncoding (560/600 nt) | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | RIP321 (repetitive extragenic palindromic) element; contains 11 REP sequences and 4 IHF sites | |||||
| * | ? | NC_000913 | = 4502104 | 192 (1.230) | 4 (0.030) | 4/542 | 15.0 | 2.2% | noncoding (1412/1426 nt) | IS4 | repeat region |
| ? | NC_000913 | = 4502108 | 179 (1.190) | noncoding (1408/1426 nt) | IS4 | repeat region | |||||
| * | ? | NC_000913 | = 2980741 | NA (NA) | 4 (0.030) | 4/542 | 15.0 | NA | noncoding (9/23 nt) | REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences |
| ? | NC_000913 | = 2980746 | NA (NA) | noncoding (14/23 nt) | REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences | REP208 (repetitive extragenic palindromic) element; contains 1 REP sequences | |||||
| * | ? | NC_000913 | 1230872 = | 151 (0.970) | 4 (0.030) | 4/544 | 15.0 | 2.6% | coding (106/420 nt) | umuD | translesion error‑prone DNA polymerase V subunit; RecA‑activated auto‑protease |
| ? | NC_000913 | 1231186 = | 151 (1.000) | coding (420/420 nt) coding (1/1269 nt) |
umuD umuC |
translesion error‑prone DNA polymerase V subunit; RecA‑activated auto‑protease translesion error‑prone DNA polymerase V subunit; DNA polymerase activity |
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| * | ? | NC_000913 | 967030 = | 187 (1.200) | 4 (0.030) | 4/544 | 15.0 | 2.1% | coding (410/1749 nt) | msbA | lipid ABC transporter permease/ATPase |
| ? | NC_000913 | = 967026 | 184 (1.220) | coding (406/1749 nt) | msbA | lipid ABC transporter permease/ATPase | |||||
| * | ? | NC_000913 | = 493155 | 104 (0.660) | 4 (0.030) | 4/548 | 15.1 | 3.8% | coding (1064/1932 nt) | dnaX | DNA polymerase III/DNA elongation factor III, tau and gamma subunits |
| ? | NC_000913 | = 493280 | 103 (0.680) | coding (1189/1932 nt) | dnaX | DNA polymerase III/DNA elongation factor III, tau and gamma subunits | |||||