Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,340,390	G→A	A50T (GCT→ACT)	lapA →	lipopolysaccharide assembly protein A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,340,390	0	G	A	100.0%	63.1 / NA	23	A50T (GCT→ACT)	lapA	lipopolysaccharide assembly protein A
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/14);  total (9/14)

GCCATTTCGCAGACGGCGCGAAAATGGTACTTTAAAGGGCTATTGCGGTAAGTTGACCATAATTTATTCGCTCTAACCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGACTGACGTGGCTGTAGTGCCGCACTCGTCAGCGGCGAAGGAATAACTTTCTATGCTGGAGTTGTTGTTTCTGCTTTTGCCTGTAGCCGCTGCCTATGGCTGG  >  NC_000913/1340148‑1340608                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                           gCCATTTCGCAGACGGCGCGAAAATGGTACTTTAAAGGGCTATTGCGGTAAGTTGACCATAATTTATTCGCTCTAACCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCgggg                                                                                                                                                                                                                    <  1:81206/251‑1 (MQ=255)   cATTTCGCAGACGGCGCGAAAATGGTACTTTAAAGGGCTATTGCGGTAAGTTGACAATACTTTATTCGCTCTAACAACATAACGGGAAGTAATGTGAAATCTTTAATCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGATCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACCTTGCTGGCGATATTGTTTACTGCGGGGtt                                                                                                                                                                                                                  >  1:276352/1‑251 (MQ=255)                          ggttcTTTTAAGGGCTATTGCCGTAAGTTGCCCATAATTTTTTCTGTCTCACCATATAACGTGCAGTAATGTGATAGATTTTCGCTTTTTCTCACTGGTGTTAGCGATTTCCGGTATTTCGTTCACCTTGGGTACGCAGAACCATCCACTTGGGGCGTTTAATTATATGCTAGCGCTATGGGAGTCCCGTATCGGCAGAGTGGTGGGGCTTTTGTTTATTGCGGGGTTTGCTATCGGTTGGTTGATTtgtg                                                                                                                                                                                           <  1:456991/247‑1 (MQ=255)                                               ggTAAGTTGACCATAATTTATTCGCTCTAACCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTgg                                                                                                                                                                                >  1:134610/1‑241 (MQ=255)                                                                  aTTCGCTCTAACCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTGAATTATCTGTTAGCGCAAGTGGAGTACCGTATTGCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTtgtg                                                                                                                                                                                           <  1:295630/211‑1 (MQ=255)                                                                                                gtgAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAAcc                                                                                                                      >  1:120531/1‑250 (MQ=255)                                                                                                                               tAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTCTCTGTTAGCGCAAGGGGAGTACCGTCTTTCCACATTGCTGGCGATATTGTTTAATGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGCGTTCGTGTTTCCCTGgcgcgc                                                                                                                                                     >  1:208323/1‑188 (MQ=255)                                                                                                                                      cTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTGAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCTGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGgcgcgc                                                                                                                                                     <  1:376338/181‑1 (MQ=255)                                                                                                                                      cTTCGNNCTNNNGGNNACGTTGGGTGCGCAGAACGATCANCAGGTGACGTTTAATTATCTGTTAGCGCANGNGNAGTANNGTANTTCCACATTGNTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGNCNTGTTTTGGCTGCGAGTTCGTGTTTCCCTGgcncgc                                                                                                                                                     >  2:376338/1‑181 (MQ=255)                                                                                                                                        tCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGc                                                                                                                                                                                                               <  1:288628/121‑1 (MQ=255)                                                                                                                                        tCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGGTTGCTATCGGTTGGTTGATTTGTGGTCTGTTCTGGCTGCGATTTCGTGTTTCCCTGGCGCGCGCTTAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGACTGACGTGGCTGTAGTGCCGCan                                                                                <  1:103442/248‑2 (MQ=255)                                                                                                                                           tGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTgn                                                                                                                                                                                                               <  1:132997/118‑2 (MQ=255)                                                                                                                                           tGATTTCGGGCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTATCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTtgtg                                                                                                                                                                                           <  1:342331/138‑1 (MQ=255)                                                                                                                                                  ggTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCACGGGGAGTACCGCATTTCCCCATTGCTGGAGATATTGTTTACTGCGGGGTTTGCTATAGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGa                                                                                                                                                                          >  1:252581/1‑148 (MQ=255)                                                                                                                                                   gtcgcGTTGGGTGCGCAGAACGATCAACAGGGGACGTTTAATTAGCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATGGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGATGTCGTGTTTCTCTGGCGCGCGCGGAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCTCCCGCGACTGACGTGGCTGTAGTGCCGCAc                                                                                <  1:473251/233‑1 (MQ=255)                                                                                                                                                      aCGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGgcgcgcgc                                                                                                                                                   <  1:86010/167‑1 (MQ=255)                                                                                                                                                             gTGCGCAGAACGATCAACAGGTGANGTTTAATTATNTGTNNGCGCNANGNGAGTACCGTATTTCCACATTGCTGGCGATNTTGTTTACTGCGGGGTTTGCTATNNGTNNNTTNNTTtgt                                                                                                                                                                                            <  2:369297/119‑1 (MQ=255)                                                                                                                                                             gTGCGCAGAACGATCAACAGGAGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTtgt                                                                                                                                                                                            >  1:369297/1‑119 (MQ=255)                                                                                                                                                                                                     aGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGAc                                                                                                      >  1:11941/1‑165 (MQ=255)                                                                                                                                                                                                                 gTACCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCg                                                                                                                                                                           >  1:221936/1‑84 (MQ=255)                                                                                                                                                                                                                   aCCGTATTTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGACTGACGTGGCTGTAGTGCCGCACTCGTCAGCGGCGAAGGAATAACTTTCTATGCTGGAGTTGTTGTTTCTGCTTTTGCCTGTAGCCGCTGCCTATGGCTgg  <  1:79521/251‑1 (MQ=255)                                                                                                                                                                                                                   aCCGTATGTCCACATTGCTGGCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAGCTGTCACCCGCTACTGACGTGGCTGTAGTGCCGCACTCGTCAGCGGCGAAGGAATAACTTTCTATGCTGGAGTTGTTGTTTCTGCTTTTGCCTGTAGCCGCTGCCTATGGCTgg  <  1:79504/251‑1 (MQ=255)                                                                                                                                                                                                                                      ggCGATATTGTTTACTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTTGCTGCGAGTTCGTGTGTCCCTGTCGCGCGCTGAACTTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGACTGACGTGGc                                                                                             <  1:407921/141‑1 (MQ=255)                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                           GCCATTTCGCAGACGGCGCGAAAATGGTACTTTAAAGGGCTATTGCGGTAAGTTGACCATAATTTATTCGCTCTAACCACATAACGGGAAGTAATGTGAAATATTTACTCATTTTCTTACTGGTGTTAGCGATCTTCGTGATTTCGGTCACGTTGGGTGCGCAGAACGATCAACAGGTGACGTTTAATTATCTGTTAGCGCAAGGGGAGTACCGTATTTCCACATTGCTGGCGGTATTGTTTGCTGCGGGGTTTGCTATCGGTTGGTTGATTTGTGGCCTGTTCTGGCTGCGAGTTCGTGTTTCCCTGGCGCGCGCTGAACGTAAAATAAAGCGACTGGAAAACCAGCTTTCACCCGCGACTGACGTGGCTGTAGTGCCGCACTCGTCAGCGGCGAAGGAATAACTTTCTATGCTGGAGTTGTTGTTTCTGCTTTTGCCTGTAGCCGCTGCCTATGGCTGG  >  NC_000913/1340148‑1340608

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑