Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,076,727	(T)5→4	intergenic (+458/‑85)	putP → / → BW25113_RS05295	sodium/proline symporter PutP/FTR1 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,076,723	0	T	.	100.0%	77.1 / NA	19	intergenic (+454/‑89)	putP/BW25113_RS05295	sodium/proline symporter PutP/FTR1 family protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (13/6);  total (13/6)

CTGGAATAATCGTTTATATCCCTTGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTGTTTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGAAAAACGTTTAAGGGTG  >  NZ_CP009273/1076643‑1076805                                                                                 |                                                                                   cTGGAATAATCGTTTATATCCCTTGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGc                                                                          >  1:616630/1‑90 (MQ=255)  tGGAATAATCGTTTATATCCCTTGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGcc                                                                         <  2:665150/90‑1 (MQ=255)              ttATATCCCTTGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATc                                                             >  1:8422/1‑90 (MQ=255)                       ttGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACt                                                    >  1:237600/1‑90 (MQ=255)                       ttGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACt                                                    >  1:273580/1‑90 (MQ=255)                              tACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATAGCTATCACTGCGAttt                                             >  1:256799/1‑90 (MQ=255)                               aCCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTa                                            <  2:388765/90‑1 (MQ=255)                               aCCTCTCTTTGTTTACATTCCAACATCAGTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTa                                            >  1:81826/1‑90 (MQ=255)                                    tctTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACtttt                                       >  2:398822/1‑90 (MQ=255)                                            tACATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCAt                               <  1:112541/90‑1 (MQ=255)                                              cATTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAg                             >  1:586227/1‑90 (MQ=255)                                               aTTCCAACATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGa                            >  2:562554/1‑90 (MQ=255)                                                     aCATCATTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACt                      <  2:8422/90‑1 (MQ=255)                                                          atTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGaa                 >  1:375569/1‑90 (MQ=255)                                                          atTTTATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGaa                 >  2:85810/1‑90 (MQ=255)                                                             ttATAAACATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGaaaaa              <  1:583467/90‑1 (MQ=255)                                                                   aCATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGAAAAACGTTTa        >  2:288007/1‑90 (MQ=255)                                                                   aCATTCCGCTTGTG‑TTTTCTTTGCCGTAATGATAATAGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGAAAAACGTTTa        <  2:256799/90‑1 (MQ=255)                                                                         cGCTTGTG‑TTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGAAAAACGTTTAAgggtg  >  1:565477/1‑90 (MQ=255)                                                                                 |                                                                                   CTGGAATAATCGTTTATATCCCTTGGCATTACCTCTCTTTGTTTACATTCCAACATCATTTTATAAACATTCCGCTTGTGTTTTTCTTTGCCGTAATGATAATCGCTATCACTGCGATTTACTTTTCTTTGCATAGATTGACTCAGAAAAACGTTTAAGGGTG  >  NZ_CP009273/1076643‑1076805

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑