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%	73.2 / NA	18	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 (10/8);  total (10/8)

AGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGATCAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCT  >  NZ_CP009273/196780‑197022                                                                                                                       |                                                                                                                             aGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGcc                                                                                                          <  2:63595/139‑1 (MQ=255) aGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGc                                                                                                           >  1:63595/1‑138 (MQ=255)      ttCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                     <  1:439729/139‑1 (MQ=255)                 cGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCa                                                                                           <  1:221431/138‑1 (MQ=255)                 cGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCa                                                                                           <  2:331850/138‑1 (MQ=255)                                       ttCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATgg                                                                     >  1:200060/1‑138 (MQ=255)                                                     cGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATtgt                                                      >  1:137804/1‑139 (MQ=255)                                                                        ttCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGt                                                                    >  1:327689/1‑106 (MQ=255)                                                                        ttCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGt                                                                    <  2:327689/106‑1 (MQ=255)                                                                                  aGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCg                         >  2:332769/1‑139 (MQ=255)                                                                                     aaTGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGtt                      <  2:83773/139‑1 (MQ=255)                                                                                       tGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                     <  1:18023/58‑1 (MQ=255)                                                                                       tGTAGTGGTAGTGTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCa                                                                                                     >  2:18023/1‑58 (MQ=255)                                                                                            tggtagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTaa                                                                  >  2:32625/1‑88 (MQ=255)                                                                                            tggtagtgTAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTaa                                                                  <  1:32625/88‑1 (MQ=255)                                                                                                    tAGCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACtt       >  1:394654/1‑139 (MQ=255)                                                                                                      gCGATGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCt     >  2:133272/1‑139 (MQ=255)                                                                                                         aTGACTTTAGGCGAACAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCt  >  2:248197/1‑139 (MQ=255)                                                                                                                       |                                                                                                                             AGCCGTTCAAAAAGTACGATGGAGACAAGGCAGAACAGTTCCAGTTTAACATCGGTAAAACCTGGTAAGTGTTCTCCACAAAGGAATGTAGTGGTAGTGTAGCGATGACTTTAGGCGATCAATATAAGATCGCCGGGCCACGCAAAGAACTGCACCCTCCGGTGCAAATGGGATGGTAAGGAGTTTATTGTGAAAAAGTGGTTATTAGCTGCAGGTCTCGGTTTAGCACTGGCAACTTCTGCT  >  NZ_CP009273/196780‑197022

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑