Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,712,684	T→C	intergenic (‑32/+66)	mliC ← / ← anmK	C‑type lysozyme inhibitor/anhydro‑N‑acetylmuramic acid kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,712,684	0	T	C	100.0%	110.0 / NA	31	intergenic (‑32/+66)	mliC/anmK	C‑type lysozyme inhibitor/anhydro‑N‑acetylmuramic acid kinase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (18/13);  total (18/13)

GTATTCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAATACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTT  >  NZ_CP009273/1712548‑1712819                                                                                                                                         |                                                                                                                                        gTATTCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAacac                                                                                                                                       >  2:508312/1‑139 (MQ=255)    ttCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGcc                                                                                                                                    <  2:215202/139‑1 (MQ=255)    ttCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGcc                                                                                                                                    <  1:415055/139‑1 (MQ=255)    ttCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGcc                                                                                                                                    <  1:810361/139‑1 (MQ=255)       cAGCGGATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGccctc                                                                                                                                 >  2:606872/1‑139 (MQ=255)                    tGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTcc                                                                                                                      <  2:462860/137‑1 (MQ=255)                    tGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTcc                                                                                                                      >  1:462860/1‑137 (MQ=255)                    tGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTcc                                                                                                                      >  2:686746/1‑137 (MQ=255)                      cATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAgt                                                                                                                  >  2:676985/1‑139 (MQ=255)                                aCCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACgg                                                                                                           >  1:147501/1‑136 (MQ=255)                                     cTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGAcgcg                                                                                                   >  2:658261/1‑139 (MQ=255)                                     cTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGAcgcg                                                                                                   >  2:780006/1‑139 (MQ=255)                                         ttAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACg                                                                                                                                      <  1:59709/100‑1 (MQ=255)                                         ttAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACg                                                                                                                                      >  2:59709/1‑100 (MQ=255)                                                            agagaAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAActct                                                                            <  1:437922/139‑1 (MQ=255)                                                                        gCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGt                                                                >  1:592748/1‑139 (MQ=255)                                                                        gCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGt                                                                >  2:371011/1‑139 (MQ=255)                                                                          aaaaTGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTa                                                              <  2:147501/139‑1 (MQ=255)                                                                                         aGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGcc                                               >  2:638274/1‑139 (MQ=255)                                                                                                 cATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTa                                        <  1:486664/138‑1 (MQ=255)                                                                                                  aTAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTAcc                                      <  1:508312/139‑1 (MQ=255)                                                                                                     gTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGtc                                   >  2:330862/1‑139 (MQ=255)                                                                                                                aaGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTgc                        >  2:350537/1‑139 (MQ=255)                                                                                                                aaGACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTgc                        >  2:802029/1‑139 (MQ=255)                                                                                                                  gACTTTCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTgcgc                      <  1:87105/139‑1 (MQ=255)                                                                                                                       tCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATa                                                  >  1:10562/1‑106 (MQ=255)                                                                                                                       tCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATa                                                  <  2:10562/106‑1 (MQ=255)                                                                                                                       tCCTGGTCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGt                  >  2:781512/1‑138 (MQ=255)                                                                                                                             tCTGGAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACgg             >  1:686398/1‑137 (MQ=255)                                                                                                                                 gAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAgg         <  1:676985/137‑1 (MQ=255)                                                                                                                                 gAGGGCAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAgg         >  1:398044/1‑137 (MQ=255)                                                                                                                                      cAACACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGAttt  <  1:606872/139‑1 (MQ=255)                                                                                                                                         |                                                                                                                                        GTATTCCAGCGTATCGGTTTGCATGCGCTCAACCAGCTGATTAAAGGCGCTACAGCCGGAGAGAAGGACCGGCAAAATGATAATTAACAGTTTTTTCATAGTCATATCCCGAAGACTTTCCTGGTCTGGAGGGCAATACGCCCTCCCTAACGTTCCAAGTGTAACGGCAGACGCGGTAAGAAAAATTCAGTTAACTCTGATATCACGGGTTAGCGGGGAAAATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTT  >  NZ_CP009273/1712548‑1712819

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑