Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,982,555	T→C	F232S (TTC→TCC)	yqeI →	transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,982,555	0	T	C	100.0%	198.5 / NA	57	F232S (TTC→TCC)	yqeI	transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (22/35);  total (22/35)

ATTGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTTCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAACCC  >  NZ_CP009273/2982470‑2982641                                                                                       |                                                                                       aTTGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCct                                                                                    >  2:294396/1‑90 (MQ=255)    gATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCtt                                                                                 >  2:490079/1‑90 (MQ=255)      tGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGc                                                                               >  1:853577/1‑90 (MQ=255)         gTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCaaa                                                                            >  1:1239511/1‑90 (MQ=255)         gTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCaaa                                                                            >  1:9198/1‑90 (MQ=255)         gTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCaaa                                                                            >  1:260515/1‑90 (MQ=255)         gTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCaaa                                                                            >  1:488399/1‑90 (MQ=255)           tGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAAt                                                                          >  2:938749/1‑90 (MQ=255)                 agTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAc                                                                    <  1:666990/90‑1 (MQ=255)                 agTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAc                                                                    <  1:616999/90‑1 (MQ=255)                  gTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAcc                                                                   >  2:919114/1‑90 (MQ=255)                  gTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAcc                                                                   >  2:187777/1‑90 (MQ=255)                   ttCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCg                                                                  >  1:492105/1‑90 (MQ=255)                       aTAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGga                                                              <  1:187777/90‑1 (MQ=255)                         aaaTATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatg                                                            <  1:462577/90‑1 (MQ=255)                          aaTATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatg                                                            <  1:923451/90‑1 (MQ=255)                           atatAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          <  2:364767/90‑1 (MQ=255)                           atatAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          <  2:1239511/90‑1 (MQ=255)                           atatAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          <  2:314095/90‑1 (MQ=255)                           atatAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          <  2:870899/90‑1 (MQ=255)                           atatAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCGCTTGCAAAATCCTCACCGGGgatgat                                                          <  1:1077082/90‑1 (MQ=255)                            tataAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGAtt                                                         >  2:278810/1‑90 (MQ=255)                                   cacGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGGGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATgg                                                  >  1:602620/1‑90 (MQ=255)                                     cGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCa                                                <  2:710755/90‑1 (MQ=255)                                       gATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATg                                              <  2:602620/90‑1 (MQ=255)                                       gATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATg                                              <  1:822118/90‑1 (MQ=255)                                              gATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaaa                                       <  2:314249/90‑1 (MQ=255)                                               aTTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaaaa                                      >  2:254305/1‑90 (MQ=255)                                               aTTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaaaa                                      >  2:70465/1‑90 (MQ=255)                                                        ttAACTGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAAcc                             <  2:260515/90‑1 (MQ=255)                                                             tGT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACAt                        >  1:922032/1‑90 (MQ=255)                                                              gT‑AAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATg                       >  1:688662/1‑90 (MQ=255)                                                                 aaaaaaCATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAcc                                                                   >  1:366543/1‑44 (MQ=255)                                                                 aaaaaaCATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAcc                                                                   <  2:366543/44‑1 (MQ=255)                                                                  aaaaaCATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAg                    <  1:919114/90‑1 (MQ=255)                                                                       cATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGGGGCa               >  2:588302/1‑90 (MQ=255)                                                                        aTCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCaa              <  1:490079/90‑1 (MQ=255)                                                                         tCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCaaa             >  1:219237/1‑90 (MQ=255)                                                                         tCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCaaa             >  2:775347/1‑90 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  1:1079193/90‑1 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  2:93836/90‑1 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  2:922032/90‑1 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  1:294396/90‑1 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  1:615423/90‑1 (MQ=255)                                                                          ccGTGGTTATACTCCCCTCTTGCAAAACCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc            <  1:27719/90‑1 (MQ=255)                                                                            gTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          >  2:611459/1‑42 (MQ=255)                                                                            gTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatgat                                                          <  1:611459/42‑1 (MQ=255)                                                                                  ataCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAc    <  2:688662/90‑1 (MQ=255)                                                                                  ataCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAc    <  1:70465/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  2:576569/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:385893/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:466812/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  2:910524/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:205586/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:913258/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:930708/90‑1 (MQ=255)                                                                                    aCTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAAccc  <  1:938749/90‑1 (MQ=255)                                                                                       |                                                                                       ATTGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGT‑AAAAAACATCCGTGGTTATACTTCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTGTTTAACCC  >  NZ_CP009273/2982470‑2982641

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑