Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,232,610	T→C	I224I (ATT→ATC)	alx →	TerC family membrane protein Alx

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,232,610	0	T	C	100.0%	196.8 / NA	55	I224I (ATT→ATC)	alx	TerC family membrane protein Alx
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (26/29);  total (26/29)

CATTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATTCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTCCTGCTGGCGGGCGTAGCAGAGCGTTTCTCG  >  NZ_CP009273/3232476‑3232727                                                                                                                                       |                                                                                                                      cATTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCgg                                                                                                                   >  1:242142/1‑139 (MQ=255) cATTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCgg                                                                                                                   >  1:840716/1‑139 (MQ=255)  aTTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCgg                                                                                                                   <  1:84984/138‑1 (MQ=255)  aTTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCgg                                                                                                                   <  1:485798/138‑1 (MQ=255)       cgcATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCt                                                                                                             <  2:359654/139‑1 (MQ=255)            gACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGcc                                                                                                        >  1:292459/1‑139 (MQ=255)              ccGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGt                                                                                                      <  2:614783/139‑1 (MQ=255)              ccGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGt                                                                                                      <  2:526109/139‑1 (MQ=255)              ccGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGt                                                                                                      <  1:616990/139‑1 (MQ=255)                   acCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCa                                                                                                 <  1:575965/139‑1 (MQ=255)                       tCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGa                                                                                             >  1:136115/1‑139 (MQ=255)                       tCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGa                                                                                             >  1:715295/1‑139 (MQ=255)                        cGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAc                                                                                            >  2:764833/1‑139 (MQ=255)                        cGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAc                                                                                            >  2:660798/1‑139 (MQ=255)                          aCAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAccc                                                                                          <  1:764833/139‑1 (MQ=255)                          aCAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAccc                                                                                          <  1:539628/139‑1 (MQ=255)                               gAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCa                                                                                     <  2:292459/139‑1 (MQ=255)                               gAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCa                                                                                     <  1:124988/139‑1 (MQ=255)                                   aTTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATtgt                                                                                 >  1:420884/1‑139 (MQ=255)                                       cTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCt                                                                              <  1:69369/138‑1 (MQ=255)                                       cTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCt                                                                              <  1:374722/138‑1 (MQ=255)                                       cTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCATTCATTGTGCt                                                                              <  2:844737/138‑1 (MQ=255)                                            tgCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCt                                                                         <  2:682766/138‑1 (MQ=255)                                                 aaGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCa                                                                                     >  1:743129/1‑121 (MQ=255)                                                 aaGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCa                                                                                     <  2:743129/121‑1 (MQ=255)                                                  aGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCt                                                                  >  2:832170/1‑139 (MQ=255)                                                      tGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGttt                                                              >  2:84289/1‑139 (MQ=255)                                                        gATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGc                                                            <  2:635666/139‑1 (MQ=255)                                                        gATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGc                                                            <  2:390274/139‑1 (MQ=255)                                                           tGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCg                                                                                                       >  1:613316/1‑93 (MQ=255)                                                           tGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCg                                                                                                       <  2:613316/93‑1 (MQ=255)                                                           tGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCa                                                                       <  1:24626/125‑1 (MQ=255)                                                           tGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCa                                                                       >  2:24626/1‑125 (MQ=255)                                                                     cacaCCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCt                                                                                                             >  1:289438/1‑77 (MQ=255)                                                                     cacaCCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCt                                                                                                             <  2:289438/77‑1 (MQ=255)                                                                      acacCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCtgc                                              <  1:607364/139‑1 (MQ=255)                                                                       cacCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCtgcg                                             >  1:544169/1‑139 (MQ=255)                                                                       cacCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCtgcg                                             >  1:457555/1‑139 (MQ=255)                                                                        acCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCt                                                                              >  2:84687/1‑105 (MQ=255)                                                                        acCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCt                                                                              <  1:84687/105‑1 (MQ=255)                                                                        acCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGCCCtgcgg                                            >  1:336500/1‑138 (MQ=255)                                                                          cGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCtgcgtgc                                          <  2:127701/139‑1 (MQ=255)                                                                            cTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGa                                        >  1:236125/1‑139 (MQ=255)                                                                            cTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGa                                        >  1:223017/1‑139 (MQ=255)                                                                             tGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGAt                                       >  2:201469/1‑139 (MQ=255)                                                                                    ggTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCg                                                                                                                    >  2:75538/1‑55 (MQ=255)                                                                                    ggTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCg                                                                                                                    <  1:75538/55‑1 (MQ=255)                                                                                    ggTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTc                                >  2:104126/1‑139 (MQ=255)                                                                                    ggTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTc                                >  2:583619/1‑139 (MQ=255)                                                                                           aTTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAccc                                                                                          <  2:308533/74‑1 (MQ=255)                                                                                           aTTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGAccc                                                                                          >  1:308533/1‑74 (MQ=255)                                                                                           aTTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGc                                                            <  1:342966/104‑1 (MQ=255)                                                                                           aTTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGc                                                            >  2:342966/1‑104 (MQ=255)                                                                                                      aTTGAGCGACGTGATTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTCCTGCTGGCGGGCGTAGCa              <  1:762596/139‑1 (MQ=255)                                                                                                                   aTTTTCGCCGTGGATAGCATCCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTCCTGCTGGCGGGCGTAGCAGAGCGTTTCTCg  <  1:550613/138‑1 (MQ=255)                                                                                                                                       |                                                                                                                      CATTTGCGCATGACCGACACCATCGACAACGAGCATTTCTTTGTGCGTAAGAATGGATTGCTGTACGCCACACCGCTGATGCTGGTACTGATTCTGGTGGAATTGAGCGACGTGATTTTCGCCGTGGATAGCATTCCGGCTATCTTCGCCGTGACCACTGACCCGTTCATTGTGCTGACCTCAAACCTGTTTGCGATCCTCGGCCTGCGTGCGATGTATTTCCTGCTGGCGGGCGTAGCAGAGCGTTTCTCG  >  NZ_CP009273/3232476‑3232727

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑