Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,645,013	C→T	*771* (TAG→TAA)	pbpC ←	penicillin‑insensitive murein repair transglycosylase, inactive transpeptidase domain protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,645,013	0	C	T	100.0%	208.2 / NA	64	*771* (TAG→TAA)	pbpC	penicillin‑insensitive murein repair transglycosylase, inactive transpeptidase domain protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (32/32);  total (32/32)

TTCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGACTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCCGCGTTCAGTTAACGGTTCGCCATTCAGAAACCAC  >  NC_000913/2644883‑2645148                                                                                                                                   |                                                                                                                                        ttCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCAt                                                                                                                                 >  1:1781064/1‑139 (MQ=255) ttCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCAt                                                                                                                                 >  1:1177097/1‑139 (MQ=255) ttCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTACTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCAt                                                                                                                                 >  2:1821451/1‑139 (MQ=255)  tCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATg                                                                                                                                <  2:1177097/139‑1 (MQ=255)      ttgttgtCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACaa                                                                                                                            >  1:1239196/1‑139 (MQ=255)         ttgtCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAAtt                                                                                                                         >  2:664963/1‑139 (MQ=255)                      cGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAt                                                                                                            <  2:1781064/139‑1 (MQ=255)                      cGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAt                                                                                                            <  2:137912/139‑1 (MQ=255)                      cGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAt                                                                                                            >  2:380817/1‑139 (MQ=255)                          cGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAtt                                                                                                           <  1:115013/136‑1 (MQ=255)                          cGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAtt                                                                                                           >  2:115013/1‑136 (MQ=255)                                  cgcgGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTc                                                                                                >  1:1120235/1‑139 (MQ=255)                                  cgcgGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTc                                                                                                >  1:961200/1‑139 (MQ=255)                                    cgGATTATAATTAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcat                                                                                              <  2:1221739/139‑1 (MQ=255)                                                aGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCa                                                                                  <  1:380817/139‑1 (MQ=255)                                                  cAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAATATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                <  2:1120235/139‑1 (MQ=255)                                                  cAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                >  2:369580/1‑139 (MQ=255)                                                  cAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                <  2:961200/139‑1 (MQ=255)                                                  cAACAGGGCCGTTGACTACTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                <  1:1821451/139‑1 (MQ=255)                                                     cAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAt                                                                                                            <  1:176754/108‑1 (MQ=255)                                                     cAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGAt                                                                                                            >  2:176754/1‑108 (MQ=255)                                                     cAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGa                                                                             >  1:1387583/1‑139 (MQ=255)                                                        ggCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATaa                                                                          <  2:1239196/139‑1 (MQ=255)                                                          ccGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATc                                                                        >  1:1154112/1‑139 (MQ=255)                                                                  tATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTAt                                                                <  1:664963/139‑1 (MQ=255)                                                                    ttGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACa                                                                                                                             >  2:1343262/1‑76 (MQ=255)                                                                    ttGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACa                                                                                                                             <  1:1343262/76‑1 (MQ=255)                                                                          aaGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAg                                                                                    <  1:151319/111‑1 (MQ=255)                                                                          aaGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAg                                                                                    >  2:151319/1‑111 (MQ=255)                                                                          aaGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCaaa                                                        >  1:409798/1‑139 (MQ=255)                                                                            ggTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATg                                                      >  1:551033/1‑139 (MQ=255)                                                                              tAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatccatc                                                                                         <  1:1507843/102‑1 (MQ=255)                                                                              tAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatccatc                                                                                         >  2:1507843/1‑102 (MQ=255)                                                                               aaCATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAg                                                   >  1:1041074/1‑139 (MQ=255)                                                                                 cATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGt                                                            >  2:1537815/1‑128 (MQ=255)                                                                                 cATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGt                                                            <  1:1537815/128‑1 (MQ=255)                                                                                  aTTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGt                                                <  2:551033/139‑1 (MQ=255)                                                                                   tttttttAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTc                                               <  1:369580/139‑1 (MQ=255)                                                                                      ttttATAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGt                                                            <  2:1105323/123‑1 (MQ=255)                                                                                      ttttAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                <  1:414381/103‑1 (MQ=255)                                                                                      ttttAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAAt                                                                                >  2:414381/1‑103 (MQ=255)                                                                                      ttttAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTAt                                                                >  1:225008/1‑119 (MQ=255)                                                                                      ttttAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTAt                                                                <  2:225008/119‑1 (MQ=255)                                                                                      ttttAAAATAAAATGAGTTTCAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGt                                                            >  1:1105323/1‑123 (MQ=255)                                                                                                  atGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCCGCGt                                <  2:1041074/139‑1 (MQ=255)                                                                                                  atGAGTTTTAGCAACAATCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTCCGCCCGCGt                                <  2:1261813/139‑1 (MQ=255)                                                                                                               acaaTCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatccatc                                                                                         >  2:1071719/1‑69 (MQ=255)                                                                                                               acaaTCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatccatc                                                                                         <  1:1071719/69‑1 (MQ=255)                                                                                                               acaaTCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatc                                                                                             <  1:546823/65‑1 (MQ=255)                                                                                                               acaaTCAGGGACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTcatc                                                                                             >  2:546823/1‑65 (MQ=255)                                                                                                                      gggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCAcc                                                                                      >  2:1572365/1‑65 (MQ=255)                                                                                                                      gggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCAcc                                                                                      <  1:1572365/65‑1 (MQ=255)                                                                                                                       ggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATaa                                                                          >  2:1428130/1‑76 (MQ=255)                                                                                                                       ggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATaa                                                                          <  1:1428130/76‑1 (MQ=255)                                                                                                                       ggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTc                                                           >  2:27138/1‑91 (MQ=255)                                                                                                                       ggACAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTc                                                           <  1:27138/91‑1 (MQ=255)                                                                                                                          cAAAACAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCCGCGTTCAGTTAACGGTTCGCCATTCAGa        >  2:724215/1‑139 (MQ=255)                                                                                                                           aaaaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGt                                                                                                 <  1:880907/49‑1 (MQ=255)                                                                                                                           aaaaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGt                                                                                                 >  2:880907/1‑49 (MQ=255)                                                                                                                            aaaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCAc                                                                                       >  1:93133/1‑58 (MQ=255)                                                                                                                            aaaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCAc                                                                                       <  2:93133/58‑1 (MQ=255)                                                                                                                             aaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCcgc                                  >  2:1534041/1‑110 (MQ=255)                                                                                                                             aaCAGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCcgc                                  <  1:1534041/110‑1 (MQ=255)                                                                                                                                aGATTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCCGCGTTCAGTTAACGGTTCGCCATTCAGAAaccac  <  2:409798/139‑1 (MQ=255)                                                                                                                                   |                                                                                                                                        TTCTGTTGTTGTCTGTACCAGCGTACGAGATGGCGCGGATTATAATGAGCAACAGGGCCGTTGACTATTGATGAAGGTAACATTTTTTTAAAATAAAATGAGTTTTAGCAACAATCAGGGACAAAACAGACTATTGCATGACAAATTTCACTGTCGCGATTTGCCCCACGTCATCCATCACCAGCAATTGATAATCACCTTTATCCGTCAAATGCAGGGTCACGTTGCGCCCGCGTTCAGTTAACGGTTCGCCATTCAGAAACCAC  >  NC_000913/2644883‑2645148

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑