Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,632,461	T→G	L487R (CTT→CGT)	pitA →	inorganic phosphate transporter PitA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,632,461	0	T	G	100.0%	257.0 / NA	65	L487R (CTT→CGT)	pitA	inorganic phosphate transporter PitA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (36/29);  total (36/29)

GGTAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTG  >  NZ_CP009273/3632378‑3632546                                                                                    |                                                                                      ggtAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcgg                                                                                 >  2:181809/1‑90 (MQ=255)   tAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcggcg                                                                               <  2:1032385/90‑1 (MQ=255)   tAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcggcg                                                                               <  2:319545/90‑1 (MQ=255)     gATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCggg                                                                             >  2:1106768/1‑90 (MQ=255)      aTGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            >  1:392610/1‑90 (MQ=255)      aTGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            <  1:52570/90‑1 (MQ=255)      aTGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            <  2:245021/90‑1 (MQ=255)      aTGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            <  2:261310/90‑1 (MQ=255)        ggtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTg                                                                          >  2:1033881/1‑90 (MQ=255)         gtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGt                                                                         >  1:160475/1‑90 (MQ=255)         gtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGt                                                                         >  1:764440/1‑90 (MQ=255)         gtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGt                                                                         >  2:739779/1‑90 (MQ=255)         gtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGt                                                                         <  2:1128785/90‑1 (MQ=255)         gtggCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGt                                                                         >  1:455469/1‑90 (MQ=255)           ggcggcTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTAc                                                                       <  1:14795/90‑1 (MQ=255)              ggcTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTgg                                                                    >  1:470487/1‑90 (MQ=255)               gcTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGc                                                                   >  1:413662/1‑90 (MQ=255)                cTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGct                                                                  <  2:139635/90‑1 (MQ=255)                   aCAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            <  1:154365/77‑1 (MQ=255)                   aCAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            >  2:154365/1‑77 (MQ=255)                          aaaaCCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAg                                                        >  2:1043607/1‑90 (MQ=255)                          aaaaCCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGAACTGCGTTCCGGGGGGCTGTACTGGCTCTCCTTGCAg                                                        >  1:344667/1‑90 (MQ=255)                              ccGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTcc                                                    <  2:166193/90‑1 (MQ=255)                              ccGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTcc                                                    >  2:745632/1‑90 (MQ=255)                                gTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            >  1:588089/1‑64 (MQ=255)                                gTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGc                                                                            <  2:588089/64‑1 (MQ=255)                                  gACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTa                                                >  2:887570/1‑90 (MQ=255)                                  gACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTa                                                >  1:2846/1‑90 (MQ=255)                                       gCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGt                                           >  1:31188/1‑90 (MQ=255)                                         aTTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTAc                                         <  2:31188/90‑1 (MQ=255)                                          ttCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcggcgg                                                                              <  1:462140/52‑1 (MQ=255)                                          ttCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcggcgg                                                                              >  2:462140/1‑52 (MQ=255)                                          ttCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACg                                        <  2:455469/90‑1 (MQ=255)                                            cTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCa                                      <  2:893840/90‑1 (MQ=255)                                              gATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCAcc                                    >  2:661470/1‑90 (MQ=255)                                                 ggCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTAc                                         <  1:75805/82‑1 (MQ=255)                                                 ggCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTAc                                         >  2:75805/1‑82 (MQ=255)                                                 ggCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCaaa                                 >  1:835985/1‑90 (MQ=255)                                                 ggCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCaaa                                 >  1:199379/1‑90 (MQ=255)                                                      gggTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcgg                                                                                 <  1:108310/37‑1 (MQ=38)                                                      gggTGTTTACCCTTCCGGCTGCGGTACTGCGTTCcgg                                                                                 >  2:108310/1‑37 (MQ=38)                                                      gggTGTTTACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAg                            >  1:295532/1‑90 (MQ=255)                                                           tttACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGt                       >  2:1104037/1‑90 (MQ=255)                                                            ttACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTc                      >  1:52191/1‑90 (MQ=255)                                                            ttACCCTTCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTc                      <  1:1104037/90‑1 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGtt                                                      <  1:603065/52‑1 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGtt                                                      >  2:603065/1‑52 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTgg                >  1:463025/1‑90 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTgg                >  1:1147941/1‑90 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTgg                >  2:20853/1‑90 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTgg                >  1:396733/1‑90 (MQ=255)                                                                  ttCCGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTgg                >  2:654415/1‑90 (MQ=255)                                                                    ccGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGcc              <  2:672641/90‑1 (MQ=255)                                                                     cGGCTGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGccc             <  1:1033881/90‑1 (MQ=255)                                                                         tGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGcc              <  1:814368/85‑1 (MQ=255)                                                                         tGCGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGcc              >  2:814368/1‑85 (MQ=255)                                                                           cGGTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCa       >  2:782100/1‑90 (MQ=255)                                                                            ggTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAg      <  1:58552/90‑1 (MQ=255)                                                                            ggTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAg      <  1:32864/90‑1 (MQ=255)                                                                            ggTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAg      <  1:134061/90‑1 (MQ=255)                                                                            ggTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAg      <  1:1154772/90‑1 (MQ=255)                                                                            ggTACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAg      <  1:1010537/90‑1 (MQ=255)                                                                              tACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGAt    <  1:887570/90‑1 (MQ=255)                                                                              tACTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGAt    <  1:1106768/90‑1 (MQ=255)                                                                                cTGCGTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATtg  >  1:464475/1‑90 (MQ=255)                                                                                    |                                                                                      GGTAGATGGTGGCGGCTTACAGCGTAAAACCGTGACCAGCATTCTGATGGCCTGGGTGTTTACCCTTCCGGCTGCGGTACTGCTTTCCGGCGGGCTGTACTGGCTCTCCTTGCAGTTCCTGTAATCGTACGCACCAAAACGAGCGGGTCAGCTGGCCCGCTTCAGATTG  >  NZ_CP009273/3632378‑3632546

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑