Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,424,516	C→T	*92* (TAG→TAA)	yjfY ←	YhcN family protein, periplasmic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,424,516	0	C	T	100.0%	111.2 / NA	35	*92* (TAG→TAA)	yjfY	YhcN family protein, periplasmic
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (18/17);  total (18/17)

GAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAGCGATAAATATCCGCGCTGGCGTGCATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGC  >  NC_000913/4424380‑4424650                                                                                                                                          |                                                                                                                                       gAAGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAACTTATGGCAAGGTTTCGTTGGTTATACCTGGTGTTa                                                                                                                                      >  1:980021/1‑139 (MQ=255)  aaGTAAAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAg                                                                                                                                     <  1:1134366/139‑1 (MQ=255)               gcTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCcg                                                                                                                        >  1:1324134/1‑139 (MQ=255)               gcTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCcg                                                                                                                        >  1:872212/1‑139 (MQ=255)                 tGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCcgcg                                                                                                                      <  2:382058/139‑1 (MQ=255)                 tGCGGAAATTTCCGTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCcgcg                                                                                                                      <  2:457366/139‑1 (MQ=255)                       aaTTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCg                                                                                                                >  1:120798/1‑139 (MQ=255)                          ttccttccTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAGCCCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTg                                                                                                              <  1:121105/139‑1 (MQ=255)                             cttcctCGGTAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTgatat                                                                                                          <  2:1134966/139‑5 (MQ=255)                             cttcctCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTgatat                                                                                                          <  2:980021/139‑5 (MQ=255)                                                gTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTc                                                                                      >  1:257753/1‑139 (MQ=255)                                                gTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTc                                                                                      >  1:1342399/1‑139 (MQ=255)                                                           cAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                           >  2:338116/1‑139 (MQ=255)                                                           cAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                           >  1:104287/1‑139 (MQ=255)                                                              ccGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAg                                                                                                                                     <  2:151864/79‑1 (MQ=255)                                                              ccGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAg                                                                                                                                     >  1:151864/1‑79 (MQ=255)                                                              ccGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGTGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTa                                                                        <  2:1324134/139‑1 (MQ=255)                                                                gTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACg                                                                      <  2:104287/139‑1 (MQ=255)                                                                       aaaaaaaaG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGgtagt                                                               <  2:1420933/139‑1 (MQ=255)                                                                               g‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTgcg                                                       <  2:209428/139‑1 (MQ=255)                                                                                       gCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTgcg                                                <  2:1381514/139‑1 (MQ=255)                                                                                               ggCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGtt                                        >  2:1511780/1‑139 (MQ=255)                                                                                                 caaagcaaaCTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTgatat                                                                                                          >  2:338594/1‑68 (MQ=255)                                                                                                 caaagcaaaCTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTgatat                                                                                                          <  1:338594/72‑5 (MQ=255)                                                                                                   aagcaaaCTATGGCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTttctt                                    <  2:1342399/139‑1 (MQ=255)                                                                                                              ggCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGcc                         >  1:831287/1‑139 (MQ=255)                                                                                                              ggCAATGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGcc                         >  1:368342/1‑139 (MQ=255)                                                                                                                  aTGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGAc                     >  1:217120/1‑139 (MQ=255)                                                                                                                   tGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                           >  2:1104050/1‑84 (MQ=255)                                                                                                                   tGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGaa                                                                           <  1:1104050/84‑1 (MQ=255)                                                                                                                   tGTTTCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACg                    >  1:684691/1‑139 (MQ=255)                                                                                                                     tttCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTa                                                                        <  1:94887/85‑1 (MQ=255)                                                                                                                     tttCGTTGGTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTa                                                                        >  2:94887/1‑85 (MQ=255)                                                                                                                            ggTTATACCTGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCt           >  2:636243/1‑139 (MQ=255)                                                                                                                                     tGGTGTTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGc  <  2:257753/139‑1 (MQ=255)                                                                                                                                       gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTccc                                                                                            <  2:1652766/47‑1 (MQ=38)                                                                                                                                       gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTttctt                                    <  2:1376585/103‑1 (MQ=255)                                                                                                                                       gtgtTAGCGATAAATATCCGCGCTGGCGTG‑ATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTttctt                                    >  1:1376585/1‑103 (MQ=255)                                                                                                                                          |                                                                                                                                       GAAGTAGAACACGCGCTGCGGAAATTTCCTTCCTCGGGAGATAACTGGTCTAATTCCGCAGCCGTTTTTCAAAAAAAAG‑CCCCCTGCGAAGGGGGCAAAGCAAACTATGGCAATGTTTCGTTGGTTATACCTGGTGCTAGCGATAAATATCCGCGCTGGCGTGCATATTGCCGTTACTCCCCGGTTCCCGCATCAGAATTACGTGGTAGTACGTTGCGCCTTGCGCATCTGTTTCTTCATTTAATGCCTGACGTGCTTCGCTTTCAGTGGC  >  NC_000913/4424380‑4424650

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑