Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,027,805 C→A 100% V48F (GTT→TTT)  vraS ← sensor histidine kinase VraS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,027,8050CA100.0% 181.4 / NA 50V48F (GTT→TTT) vraSsensor histidine kinase VraS
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (25/25);  total (25/25)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATGTAGT  >  CP000730/2027672‑2027939
                                                                                                                                     |                                                                                                                                      
ccAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTAtt                                                                                                                                 >  2:209865/1‑141 (MQ=255)
 cAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTc                                                                                                                                <  1:354725/141‑1 (MQ=255)
 cAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATGTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTc                                                                                                                                <  1:346975/141‑1 (MQ=255)
 cAACTGTTTAGCCTTCCAATGAAAAATAAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATAAGAAAAAAAAAAAAAAAAAATGGTATTc                                                                                                                                <  2:289329/141‑1 (MQ=255)
 aaaCTGTTTCGCATTACAAAAAACAATCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATCATGATGAGAAAAAAAAAAAAAAAAAATGGTATTc                                                                                                                                <  2:450559/140‑1 (MQ=255)
       tttCGCCTTCCATTAAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAAAACACAATAATATGATGATAAGATTTAAAAATAAAAAAAATGGTATTCCGAata                                                                                                                          <  1:354341/141‑1 (MQ=255)
         tCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATAtt                                                                                                                        >  1:120729/1‑141 (MQ=255)
           gCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGAGTTTGTAAGCAGGTACCTAACCAACAATAATACACAGTAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTtg                                                                                                                      >  2:353581/1‑141 (MQ=255)
             cTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAAAATTtgtg                                                                                                                    >  1:455712/1‑141 (MQ=255)
               tCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGta                                                                                                                  <  1:443101/141‑1 (MQ=255)
                         gCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATAc                                                                                                        >  1:2845/1‑141 (MQ=255)
                            taagttatgTCTTAATCAAATTTTTTTGCTTATTTATTTTGTAAGCTAATACCGAACCAACAATAATACATAATAATATGATGATAATATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCtt                                                                                                     <  1:126164/133‑1 (MQ=255)
                              aTTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGa                                                                                                   >  1:182623/1‑141 (MQ=255)
                               tttGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGaa                                                                                                  <  1:90152/141‑1 (MQ=255)
                                  gCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAAt                                                                                               >  2:221780/1‑141 (MQ=255)
                                  gCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAAt                                                                                               >  2:419242/1‑141 (MQ=255)
                                    gTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAg                                                                                             >  2:442093/1‑141 (MQ=255)
                                                 cATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaa                                                                                <  1:206870/141‑1 (MQ=255)
                                                  aTTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaa                                                                               <  1:389174/141‑1 (MQ=255)
                                                  aTTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaa                                                                               >  2:386119/1‑141 (MQ=255)
                                                   gcaaaatgattgatTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaaa                                                                              >  1:43869/7‑141 (MQ=255)
                                                    tttGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACaaaaa                                                                             >  2:161481/1‑141 (MQ=255)
                                                    tttGCT‑ATTGATTTGGTAAGCAAGTACCGAACCAACAATAATACACAATAATATGATTATGAGATAAAAAAAAAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAAc                                                                            <  2:200102/141‑1 (MQ=255)
                                                     ttGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAAc                                                                            <  2:370477/141‑1 (MQ=255)
                                                     ttGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAAc                                                                            <  2:442143/141‑1 (MQ=255)
                                                       gCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACtt                                                                          <  2:300792/141‑1 (MQ=255)
                                                       gCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTAAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACtt                                                                          <  2:300802/141‑1 (MQ=255)
                                                          gattgattTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTAt                                                                       <  1:342858/141‑1 (MQ=255)
                                                                        gCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAAt                                                         >  1:40274/1‑141 (MQ=255)
                                                                         cGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATg                                                        >  2:188898/1‑141 (MQ=255)
                                                                          gAGTAAAGAACCAACAATAATACATAATAATATGATGATGAAATATAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGc                                                       <  2:103195/141‑1 (MQ=255)
                                                                                cGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATAAACAGAAATGCAGCTAg                                                 >  1:407055/1‑141 (MQ=255)
                                                                                  aaCCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCa                                               <  1:459472/141‑1 (MQ=255)
                                                                                         aataatACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCtata                                        >  1:125618/1‑141 (MQ=255)
                                                                                         aataatACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCtata                                        >  2:400576/1‑141 (MQ=255)
                                                                                         aataatACACAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCtata                                        >  1:370759/1‑141 (MQ=255)
                                                                                               acacAATAATATGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTaa                                  >  2:449121/1‑141 (MQ=255)
                                                                                                   aataatATGATGATGAGATGTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATg                              <  2:303656/141‑1 (MQ=255)
                                                                                                       atatGATGATGAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCa                          >  1:323120/1‑141 (MQ=255)
                                                                                                         atgatgatgAGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCAtt                        <  1:414775/141‑1 (MQ=255)
                                                                                                          tgatgatgaGATTTAAAAATAAAAAAAATGGTATTACGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTg                       >  1:240647/1‑141 (MQ=255)
                                                                                                            atgatgaGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAATTAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGaa                     <  1:194259/141‑1 (MQ=255)
                                                                                                            atgatgaGATTTAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGaa                     >  1:217535/1‑141 (MQ=255)
                                                                                                             tgatgaGATTTAAAAATAAAAAAAATGGTATCCCGAATATTTGTGTATAAAACATACCTTGAAAATAGACAATAAAAACAAAAACTTTATCGATGACCAGACATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAAc                    <  1:453291/141‑1 (MQ=255)
                                                                                                                     tttAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGtt            <  1:442093/141‑1 (MQ=255)
                                                                                                                      ttAAAAATAAAAAAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTc           <  1:454946/141‑1 (MQ=255)
                                                                                                                       taaaaataaaaaAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCt          <  1:386119/141‑1 (MQ=255)
                                                                                                                           aataaaaaAAATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATg      >  1:276729/1‑141 (MQ=255)
                                                                                                                              aaaaaaaaTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATGTAg   >  1:199512/1‑141 (MQ=255)
                                                                                                                              aaaaaaaaTGGTATACCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATGTAg   <  2:485019/141‑1 (MQ=255)
                                                                                                                               aaaaaaATGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATGTAGt  >  1:497861/1‑141 (MQ=255)
                                                                                                                               aaaaaaATGGTATTCCGAATATTTGTGTAAAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATACTATATACTAAGATGAGCATTGAACTAATTGTTCTAATGTAGt  >  2:345994/1‑141 (MQ=255)
                                                                                                                                     |                                                                                                                                      
CCAACTGTTTCGCCTTCCATTGAACGCTCAATTTGCGTCTTAATCCAATCATTTTGCTGATTGATTTTGTAAGCGAGTACCGAACCAACAATAATACACAATAATATGATGATGAGATTTAAAAATAAAAAAACTGGTATTCCGAATATTTGTGTATAAAACATACCTTGAAAATAGATGATATTTACAAAAACTTTATCGATGAACAGAAATGCAGCTAGCATGCTATATACTAAGATGAGCATTGAACCAATTGTTCTAATGTAGT  >  CP000730/2027672‑2027939

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑