Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	196,898	T→A	intergenic (+51/‑71)	bamA → / → skp	outer membrane protein assembly factor BamA/molecular chaperone Skp

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	196,898	0	T	A	100.0%	86.6 / NA	23	intergenic (+51/‑71)	bamA/skp	outer membrane protein assembly factor BamA/molecular chaperone Skp
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (12/11);  total (12/11)

CCAGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGATCAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCTCAG  >  NZ_CP009273/196778‑197025                                                                                                                         |                                                                                                                                ccAGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCggg                                                                                                               <  1:253854/139‑1 (MQ=255)   aGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGcc                                                                                                             <  1:81859/139‑1 (MQ=255)   aGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGc                                                                                                              >  2:155526/1‑138 (MQ=255)        ttCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                        <  1:7042/139‑1 (MQ=255)                                gCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCaaa                                                                                >  2:490369/1‑139 (MQ=255)                                gCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCaaa                                                                                <  1:490369/139‑1 (MQ=255)                                    aaCAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATgg                                                                             >  1:20440/1‑138 (MQ=255)                                     aCAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGa                                                                           <  2:547984/139‑1 (MQ=255)                                     aCAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGa                                                                           <  1:308022/139‑1 (MQ=255)                                         ttCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATgg                                                                        >  2:513350/1‑138 (MQ=255)                                         ttCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATgg                                                                        >  1:108087/1‑138 (MQ=255)                                                                   gTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGt                                              >  1:577185/1‑138 (MQ=255)                                                                            ctcCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTg                                     >  1:27917/1‑138 (MQ=255)                                                                                  aaaGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGtct                              <  1:441012/139‑1 (MQ=255)                                                                                  aaaGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGtct                              <  2:123081/139‑1 (MQ=255)                                                                                  aaaGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGtct                              <  2:487800/139‑1 (MQ=255)                                                                                              tggtagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACt                  >  2:508511/1‑139 (MQ=255)                                                                                                gtagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTgg                >  1:82552/1‑139 (MQ=255)                                                                                                gtagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTgg                >  2:361377/1‑139 (MQ=255)                                                                                                 tagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGc               <  1:155526/139‑1 (MQ=255)                                                                                                          gATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                        >  1:42468/1‑41 (MQ=255)                                                                                                          gATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                        <  2:42468/41‑1 (MQ=255)                                                                                                              aCTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAACAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCTCAg  >  1:280695/1‑139 (MQ=255)                                                                                                                         |                                                                                                                                CCAGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGATCAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCTCAG  >  NZ_CP009273/196778‑197025

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑