Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,632,096	Δ1 bp	coding (1095/1500 nt)	pitA →	inorganic phosphate transporter PitA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,632,096	0	G	.	100.0%	197.5 / NA	44	coding (1095/1500 nt)	pitA	inorganic phosphate transporter PitA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (21/23);  total (21/23)

TGTTGACCACCGATGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCAGCGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACGATGATTGGCTGGCGCCGTGTGGCAACGACTA  >  NZ_CP009273/3631963‑3632226                                                                                                                                      |                                                                                                                                   tGTTGACCACCGATGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTg                                                                                                                              >  1:259547/1‑139 (MQ=255)       ccaccGATGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTg                                                                                                                           >  1:508493/1‑136 (MQ=255)             aTGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACt                                                                                                                   >  2:97665/1‑138 (MQ=255)             aTGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACt                                                                                                                   >  2:203694/1‑138 (MQ=255)                      gCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGAc                                                                                                         <  2:361228/139‑1 (MQ=255)                      gCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGAc                                                                                                         <  1:379316/139‑1 (MQ=255)                                 cTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCAc                                                                                              >  2:511847/1‑139 (MQ=255)                                  tGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCAc                                                                                              >  2:292883/1‑138 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           <  1:144128/139‑1 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           <  1:203694/139‑1 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           <  2:254474/139‑1 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           <  1:97665/139‑1 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           <  1:511893/139‑1 (MQ=255)                                    tCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCAt                                                                                           >  1:49237/1‑139 (MQ=255)                                      gCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATc                                                                                          <  2:97889/138‑1 (MQ=255)                                              aaCGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTTAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCa                                                                                 <  2:173062/139‑1 (MQ=255)                                              aaCGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCa                                                                                 <  1:396068/139‑1 (MQ=255)                                              aaCGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCa                                                                                 <  2:407798/139‑1 (MQ=255)                                               aCGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCAc                                                                                <  2:415662/139‑1 (MQ=255)                                                 gTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCg                                                                              <  1:586847/139‑1 (MQ=255)                                                  tAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCgg                                                                             <  1:237703/139‑1 (MQ=255)                                                     ccAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGgtgt                                                                          >  1:296863/1‑139 (MQ=255)                                                        gATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGa                                                                       >  2:381661/1‑139 (MQ=255)                                                          tGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGat                                                                      >  1:159228/1‑138 (MQ=255)                                                          tGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGat                                                                      >  2:451616/1‑138 (MQ=255)                                                                         tgtgCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTcgcg                                                      >  1:579707/1‑139 (MQ=255)                                                                           tgCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGaaa                                                                                                                     <  1:131848/74‑1 (MQ=255)                                                                           tgCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGaaa                                                                                                                     >  2:131848/1‑74 (MQ=255)                                                                           tgCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCt                                                    >  1:396047/1‑139 (MQ=255)                                                                           tgCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCt                                                    >  1:267609/1‑139 (MQ=255)                                                                                ttCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGATCGCGCTggggg                                               >  1:653237/1‑136 (MQ=255)                                                                                      cacTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTa                                         <  1:292883/139‑1 (MQ=255)                                                                                       acTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTAt                                        <  2:49237/139‑1 (MQ=255)                                                                                          aTCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCgg                                     >  1:553397/1‑139 (MQ=255)                                                                                                 aaGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACA‑GCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACgatga                             <  2:259547/139‑1 (MQ=255)                                                                                                  aGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACgatga                             <  1:649590/139‑1 (MQ=255)                                                                                                       tgAAGATGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTa                                                                                     <  2:586750/78‑1 (MQ=255)                                                                                                       tgAAGATGCCTGGCGTGAGTGCTGACGATCA‑CACCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTa                                                                                     >  1:586750/1‑78 (MQ=255)                                                                                                            aTGCCTGGCGTGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACGATGATTGGCTGgcg                   <  2:296863/139‑1 (MQ=255)                                                                                                                      tGAGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACGATGATTGGCTGGCGCCGTGTGGCa         <  1:63113/139‑1 (MQ=255)                                                                                                                        aGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTcgcg                                                      <  2:152936/92‑1 (MQ=255)                                                                                                                        aGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTcgcg                                                      >  1:152936/1‑92 (MQ=255)                                                                                                                        aGTGCTGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACGATGATTGGCTGGCGCCGTGTGGCAAc       >  1:238992/1‑139 (MQ=255)                                                                                                                             tGACGATCA‑CGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCTTCATGGCGGACGTGCTGGCGTTTGGTATCGGGAAGATGGTTGGATGGGGCCGTGTGGAAACGTCtc  >  2:11919/1‑138 (MQ=255)                                                                                                                                      |                                                                                                                                   TGTTGACCACCGATGTGGAAAGCTACGACAAGCTGTCGCTTGATCAACGTAGCCAGATGCGCCGCATTATGCTGTGCGTTTCTGACACTATCGACAAAGTGGTGAAGATGCCTGGCGTGAGTGCTGACGATCAGCGCCTGTTGAAGAAACTGAAGTCCGACATGCTTAGCACCATCGAGTATGCACCGGTGTGGATCATCATGGCGGTCGCGCTGGCGTTAGGTATCGGTACGATGATTGGCTGGCGCCGTGTGGCAACGACTA  >  NZ_CP009273/3631963‑3632226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑