Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,503,720	T→C	intergenic (+1/‑45)	hicA → / → hicB	type II toxin‑antitoxin system mRNA interferase toxin HicA/type II toxin‑antitoxin system antitoxin HicB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,503,720	0	T	C	100.0%	127.4 / NA	36	intergenic (+1/‑45)	hicA/hicB	type II toxin‑antitoxin system mRNA interferase toxin HicA/type II toxin‑antitoxin system antitoxin HicB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (15/21);  total (15/21)

GTCGATGTAGCGAATGGCAGCAACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAATCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGA  >  NZ_CP009273/1503585‑1503843                                                                                                                                        |                                                                                                                            gTCGATGTAGCGAATGGCAGCAACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGc                                                                                                                          <  2:333919/139‑1 (MQ=255)          gCGAATGGCAGCAACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTaaaa                                                                                                                 <  2:43413/139‑1 (MQ=255)          gCGAATGGCAGCAACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTaaa                                                                                                                  >  1:25603/1‑138 (MQ=255)                    gcaACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGa                                                                                                       <  2:25603/139‑1 (MQ=255)                     caACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGAc                                                                                                      <  2:36539/139‑1 (MQ=255)                              gAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCgaga                                                                                              <  1:525869/138‑1 (MQ=255)                                            aTGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTAt                                                                               <  1:286930/139‑1 (MQ=255)                                                         tgtCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  <  1:488663/139‑1 (MQ=255)                                                         tgtCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  <  1:549609/139‑1 (MQ=255)                                                              tGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGATTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCActct                                                             <  1:389895/139‑1 (MQ=255)                                                              tGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCActct                                                             >  2:572647/1‑139 (MQ=255)                                                              tGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCActct                                                             >  2:563898/1‑139 (MQ=255)                                                                   cgTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTacac                                                        >  1:191161/1‑139 (MQ=255)                                                                     tCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACAccc                                                      >  1:311765/1‑139 (MQ=255)                                                                                aTGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAgg                                           <  1:124790/139‑1 (MQ=255)                                                                                   agaTTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCgg                                        >  1:38528/1‑139 (MQ=255)                                                                                             aCCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  >  1:189510/1‑103 (MQ=255)                                                                                             aCCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  <  2:189510/103‑1 (MQ=255)                                                                                               cATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGt                                                                   >  1:553446/1‑100 (MQ=255)                                                                                               cATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGt                                                                   <  2:553446/100‑1 (MQ=255)                                                                                                    cGTAAAGCAATCCAGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACGCCCGCGCCGGAAGGCGGTTATATGGTTTCtttt                        <  2:22030/138‑1 (MQ=255)                                                                                                      tAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  <  2:28591/94‑1 (MQ=255)                                                                                                      tAAAGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  >  1:28591/1‑94 (MQ=255)                                                                                                        aaGCAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGa                   <  1:512682/139‑1 (MQ=255)                                                                                                        aaGCAATCCTGAAACAACGCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGa                   <  2:200872/139‑1 (MQ=255)                                                                                                           cAATCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGatat                >  2:523398/1‑139 (MQ=255)                                                                                                              tCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGa                   >  1:550431/1‑133 (MQ=255)                                                                                                              tCCTGAAACAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGa                   <  2:550431/133‑1 (MQ=255)                                                                                                                   aaaCAACTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGa          <  1:101535/137‑1 (MQ=255)                                                                                                                      caacTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGt     <  1:572647/139‑1 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  >  2:562629/1‑75 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTc                                                                  <  1:562629/75‑1 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGtt                              >  2:498939/1‑111 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGtt                              <  1:498939/111‑1 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGa  >  2:228373/1‑139 (MQ=255)                                                                                                                         cTCGGTTTGAGTTAACCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGa  >  2:566329/1‑139 (MQ=255)                                                                                                                                        |                                                                                                                            GTCGATGTAGCGAATGGCAGCAACCATTTGAAACTCAGGTTTCATGGGAGGCGCAGTGTCATGCCGCGTCACCCCTGCGATGAGATTAAAGAACCATTGCGTAAAGCAATCCTGAAACAACTCGGTTTGAGTTAATCGCCAATTAAAAAGGTTAATGACATGCGAGAGACAGTCGAAATTATGCGTTATCCCGTCACTCTTACACCCGCGCCGGAAGGCGGTTATATGGTTTCTTTTGTGGATATCCCTGAAGCGTTGA  >  NZ_CP009273/1503585‑1503843

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: ‑