Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,444,183	T→G	Q475P (CAG→CCG)	tynA ←	primary‑amine oxidase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,444,183	0	T	G	100.0%	157.3 / NA	43	Q475P (CAG→CCG)	tynA	primary‑amine oxidase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (19/24);  total (19/24)

TTCGATGCCCGTAGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCTGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACGGGGCATCT  >  NZ_CP009273/1444047‑1444317                                                                                                                                         |                                                                                                                                       ttCGATGCCCGTAGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCggg                                                                                                                                      >  2:298068/1‑139 (MQ=255)     aTGCCCGTAGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCa                                                                                                                                  <  1:51440/139‑1 (MQ=255)             aGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          >  1:114508/1‑139 (MQ=255)             aGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          >  1:90979/1‑139 (MQ=255)              gCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          <  1:96840/138‑1 (MQ=255)                   ggCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTta                                                                                                                    <  2:114508/139‑1 (MQ=255)                   ggCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTta                                                                                                                    >  2:599231/1‑139 (MQ=255)                    gCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTta                                                                                                                    >  1:454042/1‑138 (MQ=255)                                   gTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCAt                                                                                                    <  2:14797/139‑1 (MQ=255)                                    tGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCAt                                                                                                    >  1:575594/1‑138 (MQ=255)                                                     aTCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGa                                                                                  <  2:300069/139‑1 (MQ=255)                                                            cAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          >  2:602154/1‑92 (MQ=255)                                                            cAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          <  1:602154/92‑1 (MQ=255)                                                                aaTGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAggg                                                                       <  2:454042/139‑1 (MQ=255)                                                                   gTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGAtc                                                                    >  2:312716/1‑139 (MQ=255)                                                                            gTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCgg                                                            <  1:371237/138‑1 (MQ=255)                                                                            gTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCgg                                                            <  2:395417/138‑1 (MQ=255)                                                                             ttACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCa                                                          <  2:479273/139‑1 (MQ=255)                                                                                cccACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGc                                                       <  1:262066/139‑1 (MQ=255)                                                                                 ccACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATa                                                                                                   <  1:217092/94‑1 (MQ=255)                                                                                 ccACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATa                                                                                                   >  2:217092/1‑94 (MQ=255)                                                                                            aTCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCgg                                                            >  2:281192/1‑122 (MQ=255)                                                                                            aTCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCgg                                                            <  1:281192/122‑1 (MQ=255)                                                                                              ccAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGc                                          >  1:330783/1‑138 (MQ=255)                                                                                               cAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGa                                        <  2:381664/139‑1 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          >  2:278704/1‑55 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGa                                                                                                                          <  1:278704/55‑1 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATg                                      >  2:231508/1‑139 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATg                                      >  1:116913/1‑139 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATg                                      >  1:120892/1‑139 (MQ=255)                                                                                                 gcgcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATg                                      >  1:581069/1‑139 (MQ=255)                                                                                                   gcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCAt                                                                                                    >  1:12034/1‑75 (MQ=255)                                                                                                   gcACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCAt                                                                                                    <  2:12034/75‑1 (MQ=255)                                                                                                            aCTCCCGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAg                           <  2:90979/139‑1 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      >  2:286114/1‑139 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      <  2:258884/139‑1 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      <  2:356923/139‑1 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      <  2:116913/139‑1 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      <  1:286114/139‑1 (MQ=255)                                                                                                                 cGGCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCa                      <  1:231508/139‑1 (MQ=255)                                                                                                                   gCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCt                                                                                                                            <  2:297902/35‑1 (MQ=255)                                                                                                                   gCGTTCGGTACTGACGTTGGGCGGGCCCATTTCCt                                                                                                                            >  1:297902/1‑35 (MQ=255)                                                                                                                        cGGTACTGACGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGt                >  1:209153/1‑138 (MQ=255)                                                                                                                                aCGTTGGGCGGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACgggg       <  2:120892/139‑1 (MQ=255)                                                                                                                                     gggcgggcCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACgggg       <  2:211715/134‑1 (MQ=255)                                                                                                                                     gggcgggcCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACgggg       >  1:211715/1‑134 (MQ=255)                                                                                                                                     gggcgggcCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACGGGGCATCt  >  2:548259/1‑139 (MQ=255)                                                                                                                                         |                                                                                                                                       TTCGATGCCCGTAGCACCGGCATCGATGCCAATAGTGCCGTTTTCATGGAAGATCCAGTCAAAAATGTAGTCATAGTTACCCACTGTACTGATCCAGCGCACCACTAACTCCCGGCGTTCGGTACTGACGTTGGGCTGGCCCATTTCCTGATGCTTATACTCCGGCCCGGCATAACGTTCAAATACCGCGATAGCGCGAGGGATCTCCATCGGCACGCCAGTGTAGTCGGCGATGGTTTCATTAAGGAGCACTGCGTTAGACGGGGCATCT  >  NZ_CP009273/1444047‑1444317

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑