Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,562,362 T→C P40P (CCA→CCG)  ddpA ← D,D‑dipeptide ABC transporter periplasmic binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,562,3620TC100.0% 167.0 / NA 48P40P (CCA→CCG) ddpAD,D‑dipeptide ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (28/20);  total (28/20)

TGCCAGATCGCCTTCAACGTCGGTTGAGCCTTTATCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGATCTCTTCATGA  >  NC_000913/1562233‑1562483
                                                                                                                                 |                                                                                                                         
tGCCAGATCGCCTTCAACGTCGGTTGAGCCTTTATCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATcg                                                                                                                     >  2:719003/1‑136 (MQ=255)
tGCCAGATCGCCTTCAACGTCGGTTGAGCCTTTATCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATcg                                                                                                                     <  1:719003/136‑1 (MQ=255)
                       ttGAGCCTTTATCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATc                                                                                           >  1:845042/1‑139 (MQ=255)
                                  tCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTAcgg                                                                                <  2:845042/139‑1 (MQ=255)
                                        tccgtTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGt                                                                          >  1:488321/1‑139 (MQ=255)
                                                      aaCCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCa                                                                     >  2:318982/1‑130 (MQ=255)
                                                      aaCCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCa                                                                     <  1:318982/130‑1 (MQ=255)
                                                           gCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTtgt                                                       >  2:926909/1‑139 (MQ=255)
                                                                tGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCata                                                                                             <  1:1193894/96‑1 (MQ=255)
                                                                tGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCata                                                                                             >  2:1193894/1‑96 (MQ=255)
                                                                  aTAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAgg                                                >  1:40015/1‑139 (MQ=255)
                                                                          ggTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     <  1:1376157/78‑1 (MQ=255)
                                                                          ggTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     >  2:1376157/1‑78 (MQ=255)
                                                                            tAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGcc                                                                                                               >  1:1371895/1‑66 (MQ=255)
                                                                            tAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGcc                                                                                                               <  2:1371895/66‑1 (MQ=255)
                                                                            tAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTtg                                                        >  1:1483801/1‑121 (MQ=255)
                                                                            tAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTtg                                                        <  2:1483801/121‑1 (MQ=255)
                                                                                 cACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAAt                                 >  2:202567/1‑139 (MQ=255)
                                                                                            cGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGTGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGaaa                      <  2:488321/139‑1 (MQ=255)
                                                                                                attatCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTAcg                                                                                 >  1:386815/1‑76 (MQ=255)
                                                                                                attatCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTAcg                                                                                 <  2:386815/76‑1 (MQ=255)
                                                                                                attatCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTAcg                                                                                 <  2:4345/76‑1 (MQ=255)
                                                                                                attatCTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTAcg                                                                                 >  1:4345/1‑76 (MQ=255)
                                                                                                     cTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGa             >  2:1490056/1‑139 (MQ=255)
                                                                                                     cTATTGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTAGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGa             >  2:917966/1‑139 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCggcggc                                                                                                                >  2:949484/1‑36 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCggcggc                                                                                                                <  1:949484/36‑1 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAAt                                                                                                       <  2:40431/45‑1 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAAt                                                                                                       >  1:40431/1‑45 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCAc                                                                                                    >  1:984824/1‑48 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCAc                                                                                                    <  2:984824/48‑1 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGa                        >  2:57978/1‑124 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGa                        <  1:57978/124‑1 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGAtctc         >  1:1276608/1‑139 (MQ=255)
                                                                                                         tGTTACCGCCGGGTCGAGGGTTCGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGAtctc         >  1:1235616/1‑139 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     >  2:290371/1‑45 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     <  1:290371/45‑1 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAAtg                                >  1:989097/1‑114 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAAtg                                <  2:989097/114‑1 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACg                         >  2:276166/1‑121 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACg                         <  1:276166/121‑1 (MQ=255)
                                                                                                           ttACCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGATCTCtt       >  2:903642/1‑139 (MQ=255)
                                                                                                             aCCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     <  2:626479/43‑1 (MQ=255)
                                                                                                             aCCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCa                                                                                                     >  1:626479/1‑43 (MQ=255)
                                                                                                             aCCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCa                                                                                                  <  2:524474/46‑1 (MQ=255)
                                                                                                             aCCGCCGGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATCACCa                                                                                                  >  1:524474/1‑46 (MQ=255)
                                                                                                                gctgggTCGAGGGTTGGGGTATCGGCGGCGTTACCAATCACCAGCATAGCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGTAAGGACGAGCGCGAGCAATGTGGTACGAAACGATATCGATCTCTTCATGa  <  2:329660/136‑1 (MQ=255)
                                                                                                                gccgGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATc                                                                                                      <  2:654802/39‑1 (MQ=255)
                                                                                                                gccgGGTCGAGGGTTTGCGGATCGGCGGCCTTACCAATc                                                                                                      >  1:654802/1‑39 (MQ=255)
                                                                                                                                 |                                                                                                                         
TGCCAGATCGCCTTCAACGTCGGTTGAGCCTTTATCACCGTCCGTTTTGTACTGAACCAGCCGCTGATAAGACGGGTAGGTCACTGTCCAGTCGTTATTATCTATTGTTACCGCCGGGTCGAGGGTTTGTGGATCGGCGGCCTTACCAATCACCAGCATATCTTTTGGTACGGCGGCGTGCGCAACCGGGAAATTTGTGGCAAGGACGAGCGCGAGCAATGTGGGACGAAACGATATCGATCTCTTCATGA  >  NC_000913/1562233‑1562483

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑