Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,389,895	G→A	*322* (TAG→TAA)  P235L (CCT→CTT)	ycjG → mpaA ←	L‑Ala‑D/L‑Glu epimerase murein peptide amidase A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,389,895	0	G	A	100.0%	137.0 / NA	43	*322* (TAG→TAA)  P235L (CCT→CTT)	ycjG mpaA	L‑Ala‑D/L‑Glu epimerase murein peptide amidase A
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (22/21);  total (22/21)

CTCGTGCCATTAGCGCCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAGGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACTGCCGAAAGAGCCAGGCG  >  NC_000913/1389768‑1390027                                                                                                                                |                                                                                                                                     ctcGTGCCATTAGCGCCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAgcgc                                                                                                                           >  1:1051160/1‑139 (MQ=255)  tcGTGCCATTAGCGCCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCgca                                                                                                                          <  2:1051160/139‑1 (MQ=255)         aTTAGCGCCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGtt                                                                                                                   >  1:1242199/1‑139 (MQ=255)             gcgcCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGcc                                                                                                               <  2:306606/139‑1 (MQ=255)                ccgcTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGGTGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATc                                                                                                            >  1:16265/1‑139 (MQ=255)                   cTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCa                                                                                                         >  1:1222325/1‑139 (MQ=255)                   cTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCa                                                                                                         <  1:643172/139‑1 (MQ=255)                             ggTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATAtt                                                                                               >  1:870909/1‑139 (MQ=255)                              gTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGcc                                                                                                                                <  2:975865/105‑1 (MQ=255)                              gTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGcc                                                                                                                                >  1:975865/1‑105 (MQ=255)                                            tttCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTtcgt                                                                                >  1:1388428/1‑139 (MQ=255)                                              tCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTtcgtcg                                                                              <  2:1388428/139‑1 (MQ=255)                                                               ccgaccTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGTGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGaaa                                                             >  1:1602260/1‑139 (MQ=255)                                                               ccgaccTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGaaa                                                             >  1:1346931/1‑139 (MQ=255)                                                                cgaccTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAAc                                                            >  1:1408032/1‑139 (MQ=255)                                                                   ccTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAActct                                                         >  1:697917/1‑139 (MQ=255)                                                                    ctggctggCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTg                                                        <  2:743250/139‑1 (MQ=255)                                                                       gctggcGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGTGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCgg                                                     <  2:1602260/139‑1 (MQ=255)                                                                       gctggcGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGCAAACTCTGCgg                                                     <  2:1222325/139‑1 (MQ=255)                                                                            cGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGatg                                                <  2:1346931/139‑1 (MQ=255)                                                                                  aTGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGatgcaatgc                                          <  1:1567854/139‑1 (MQ=255)                                                                                       gAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGtt                                     >  2:1671767/1‑139 (MQ=255)                                                                                            ggCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAg                                                                                                                              >  1:591058/1‑45 (MQ=255)                                                                                            ggCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAg                                                                                                                              <  2:591058/45‑1 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGc                                                                                                                <  1:411447/58‑1 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGc                                                                                                                >  2:411447/1‑58 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCa                                                                                                         <  1:611104/65‑1 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCa                                                                                                         >  2:611104/1‑65 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGtt                                     <  1:54810/133‑1 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGtt                                     >  2:54810/1‑133 (MQ=255)                                                                                             gcgcTTCAGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATc                               >  1:560920/1‑139 (MQ=255)                                                                                                    aGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGcc                                                                                                               <  1:1239770/52‑1 (MQ=255)                                                                                                    aGTTCACGACGGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGcc                                                                                                               >  2:1239770/1‑52 (MQ=255)                                                                                                         acgacgGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACt                   <  1:1017939/139‑1 (MQ=255)                                                                                                           gacgGGCGAATTGCATCTTTAAGATGCTAGCGCAGCAAGTTTGc                                                                                                                <  1:1194652/44‑1 (MQ=255)                                                                                                           gacgGGCGAATTGCATCTTTAAGATGCTAGCGCAGCAAGTTTGc                                                                                                                >  2:1194652/1‑44 (MQ=255)                                                                                                           gacgGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCgg                                                     >  1:1262947/1‑103 (MQ=255)                                                                                                           gacgGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCgg                                                     <  2:1262947/103‑1 (MQ=255)                                                                                                           gacgGGCGAATTGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACTGc                 >  2:886000/1‑139 (MQ=255)                                                                                                                     ttGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCg                                                                                          >  1:786401/1‑56 (MQ=255)                                                                                                                     ttGCATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCg                                                                                          <  2:786401/56‑1 (MQ=255)                                                                                                                        cATCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACTGCCGAAAGAGCCAgg    <  2:697917/139‑1 (MQ=255)                                                                                                                          tCTTTAAGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACTGCCGAAAGAGCCAGGCg  <  2:1350366/139‑1 (MQ=255)                                                                                                                                |                                                                                                                                     CTCGTGCCATTAGCGCCGCTTTACCGCTGGTGCCGCAGGTCAGTTTCGCCGATCTTGACGGACCGACCTGGCTGGCGGTAGATGTGGAACCGGCGCTTCAGTTCACGACGGGCGAATTGCATCTTTAGGATGCCAGCGCAGCAAGTTTGCCATCGCAAAGAGATATTTTTCGCTGGCTTCGTCGGAGGAGATGGGCGGAAACTCTGCGGTGATGCAATGCAAGTTCAGATCTGCACACCAACTGCCGAAAGAGCCAGGCG  >  NC_000913/1389768‑1390027

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑