Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,347,069	G→A	*164* (TAG→TAA)	ptsN →	sugar‑specific enzyme IIA component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,347,069	0	G	A	100.0%	124.7 / NA	40	*164* (TAG→TAA)	ptsN	sugar‑specific enzyme IIA component of PTS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (21/19);  total (21/19)

ACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTG  >  NC_000913/3346936‑3347197                                                                                                                                      |                                                                                                                                 aCCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAattatt                                                                                                                             >  1:793477/1‑139 (MQ=255)   cTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCg                                                                                                                           >  1:878828/1‑139 (MQ=255)      cATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTa                                                                                                                        <  1:533411/139‑1 (MQ=255)             tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtctc                                                                                                                 >  1:276296/1‑139 (MQ=255)             tGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtctc                                                                                                                 >  2:568661/1‑139 (MQ=255)                  cTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTa                                                                                                            >  2:924231/1‑139 (MQ=255)                   tggtggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAg                                                                                                           <  2:793477/139‑1 (MQ=255)                       ggCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATA‑CGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGtt                                                                                                      >  1:660154/1‑139 (MQ=255)                                tCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTgaggag                                                                                              <  1:326193/139‑1 (MQ=255)                                     cGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                         <  2:175745/139‑1 (MQ=255)                                          aaaaCCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    <  2:878828/139‑1 (MQ=255)                                                  cTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAg                                                                                                           >  1:921453/1‑108 (MQ=255)                                                  cTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAg                                                                                                           <  2:921453/108‑1 (MQ=255)                                                              aCGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGc                                                                <  2:815439/139‑1 (MQ=255)                                                                      cccAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                           >  1:315438/1‑104 (MQ=255)                                                                      cccAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                           <  2:315438/104‑1 (MQ=255)                                                                      cccAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGATGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACgttc                                                        >  1:555695/1‑139 (MQ=255)                                                                         agagCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                         >  1:665526/1‑103 (MQ=255)                                                                         agagCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                         <  2:665526/103‑1 (MQ=255)                                                                                tGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTtcaggttcaggt                                              >  1:636281/1‑139 (MQ=255)                                                                                          tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtc                                                                                                                   >  1:574800/1‑60 (MQ=255)                                                                                          tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGtc                                                                                                                   <  2:574800/60‑1 (MQ=255)                                                                                          tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                         >  1:519851/1‑86 (MQ=255)                                                                                          tATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACa                                                                                         <  2:519851/86‑1 (MQ=255)                                                                                                    ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                           >  1:134988/1‑74 (MQ=255)                                                                                                    ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGaaa                                                                                           <  2:134988/74‑1 (MQ=255)                                                                                                    ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    <  1:38101/81‑1 (MQ=255)                                                                                                    ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    >  2:38101/1‑81 (MQ=255)                                                                                                    ttACGGATACCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCtgcgtgc                          >  1:714656/1‑139 (MQ=255)                                                                                                            aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGGTGATCGTCAGCGGACgtt                                                         >  1:214170/1‑100 (MQ=255)                                                                                                            aCCGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACgtt                                                         <  2:214170/100‑1 (MQ=255)                                                                                                             ccGAAGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGa                 >  1:7335/1‑139 (MQ=255)                                                                                                                aaGGTACTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGatat              >  1:880995/1‑139 (MQ=255)                                                                                                                      cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    <  2:158580/63‑1 (MQ=255)                                                                                                                      cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    >  1:923850/1‑63 (MQ=255)                                                                                                                      cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    <  2:923850/63‑1 (MQ=255)                                                                                                                      cTCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACa                                                                                    >  1:158580/1‑63 (MQ=255)                                                                                                                       tCCGGATGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGtttt       <  2:7335/139‑1 (MQ=255)                                                                                                                            aTGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTg  <  2:714656/139‑1 (MQ=255)                                                                                                                             tGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCgg                                                              >  2:773077/1‑78 (MQ=255)                                                                                                                             tGAAGCGTAATTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCgg                                                              <  1:773077/78‑1 (MQ=255)                                                                                                                                      |                                                                                                                                 ACCTGCATACTCTGTCGCTGGTGGCGAAACGTCTGGCGGACAAAACCATCTGCCGCCGTTTACGCGCAGCCCAGAGCGATGAAGAGCTGTATCAAATCATTACGGATACCGAAGGTACTCCGGATGAAGCGTAGTTATTCGGTAATGTCTCTTTTAGACGTTGTGAGGAGAAACAGTACATGGTACTGATGATCGTCAGCGGACGTTCAGGTTCAGGTAAATCTGTCGCCCTGCGTGCGCTGGAAGATATGGGTTTTTACTG  >  NC_000913/3346936‑3347197

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑