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%	47.6 / NA	17	F232S (TTC→TCC)	yqeI	transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (5/12);  total (5/12)

TGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTTCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTG  >  NZ_CP009273/2982472‑2982633                                                                                    |                                                                               tGATGGGTTGAAAGGGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCctct                                                                          <  2:61238/90‑1 (MQ=255) tGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCctct                                                                          <  1:448751/90‑1 (MQ=255)               agTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAc                                                            <  2:87278/90‑1 (MQ=255)                gTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCAcc                                                           >  2:204067/1‑90 (MQ=255)                       aaaTATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGgatg                                                    <  2:68937/90‑1 (MQ=255)                                   cGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCa                                        <  2:260067/90‑1 (MQ=255)                                   cGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCa                                        >  2:355955/1‑90 (MQ=255)                                           ggATTCGGGGATTAGCTGTAAAAAACATCCGTGGTTATACGCCCCTCTTGCAAAACCCTTACCGGGGATGATTGTTATGGCATGCAATaa                                <  2:240838/90‑1 (MQ=255)                                           ggATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaa                                >  2:54774/1‑90 (MQ=255)                                            gATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaaa                               <  2:382808/90‑1 (MQ=255)                                            gATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATaaa                               <  2:404657/90‑1 (MQ=255)                                                                     aTCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCaa      <  1:204067/90‑1 (MQ=255)                                                                      tCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCgg                                                         >  1:335505/1‑38 (MQ=255)                                                                      tCCGTGGTTATACTCCCCTCTTGCAAAATCCTCACCgg                                                         <  2:335505/38‑1 (MQ=38)                                                                       ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATGAAAACTATAACCAACATGAAGTGGCAAAc    <  1:436177/90‑1 (MQ=255)                                                                       ccGTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAAc    <  2:400871/90‑1 (MQ=255)                                                                         gTGGTTATACTCCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTg  >  2:97237/1‑90 (MQ=255)                                                                                    |                                                                               TGATGGGTTGAAAGAGTTCGATAAATATAAAACACGGATACTGGATTCGGGGATTAACTGTAAAAAACATCCGTGGTTATACTTCCCTCTTGCAAAATCCTCACCGGGGATGATTGTTATGGCATGCAATAAAAACTATAACCAACATGAAGTGGCAAACTG  >  NZ_CP009273/2982472‑2982633

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑