Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	2,813,426	A→G	Y649H (TAT→CAT)	alaS ←	alanine‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	2,813,426	0	A	G	100.0%	146.2 / NA	38	Y649H (TAT→CAT)	alaS	alanine‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (22/16);  total (22/16)

AGAGATGATGCGGAACAGACCAATATCACCAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATACTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAATCTCTTCTGGTTT  >  NZ_CP009273/2813319‑2813558                                                                                                            |                                                                                                                                     agagATGATGCGGAACAGACCAATATCACCAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACctttc                                                                                                       >  2:89043/1‑139 (MQ=255)               aCAGACCAATATCACCAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTc                                                                                         <  2:495092/139‑1 (MQ=255)                        tatCACCAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                >  1:198542/1‑139 (MQ=255)                             ccAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                <  2:275291/134‑1 (MQ=255)                             ccAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                >  1:275291/1‑134 (MQ=255)                               aGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTg                                                                         >  1:385918/1‑139 (MQ=255)                               aGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCAAGATGTTg                                                                         >  2:205080/1‑139 (MQ=255)                                 tGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                <  2:525008/130‑1 (MQ=255)                                 tGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                >  1:525008/1‑130 (MQ=255)                                 tGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGt                                                                       >  1:345830/1‑139 (MQ=255)                                  gCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                >  2:430741/1‑129 (MQ=255)                                  gCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCat                                                                                <  1:430741/129‑1 (MQ=255)                                   cGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGttt                                                                     >  1:39418/1‑139 (MQ=255)                                      cTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGa                                                                  >  1:538562/1‑139 (MQ=255)                                                   cGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGcg                                                     <  1:213932/139‑1 (MQ=255)                                                   cGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGc                                                      >  1:158834/1‑138 (MQ=255)                                                      cacacaACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGcgacg                                                  <  1:299190/139‑1 (MQ=255)                                                        cacaACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGaa                                                >  1:10491/1‑139 (MQ=255)                                                         acaACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAAt                                               <  2:385918/139‑1 (MQ=255)                                                             cTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCtgt                                           <  1:480596/139‑1 (MQ=255)                                                                     agaAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAc                                   >  2:36466/1‑139 (MQ=255)                                                                      gaAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  <  1:89043/139‑1 (MQ=255)                                                                      gaAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  <  1:93753/139‑1 (MQ=255)                                                                         aTCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAgg                               <  2:549920/139‑1 (MQ=255)                                                                          tCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  >  1:340951/1‑135 (MQ=255)                                                                          tCGCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  <  2:340951/135‑1 (MQ=255)                                                                            gCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCt                            >  1:113772/1‑139 (MQ=255)                                                                            gCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCt                            >  1:205866/1‑139 (MQ=255)                                                                            gCCCATGCTCAGCACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCt                            >  1:349992/1‑139 (MQ=255)                                                                                        cACGCGTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAAATGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGa                <  1:36466/139‑1 (MQ=255)                                                                                          cgcgTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAAt              <  2:60083/139‑1 (MQ=255)                                                                                             gTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  >  1:259712/1‑116 (MQ=255)                                                                                             gTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCAcc                                  <  2:259712/116‑1 (MQ=255)                                                                                             gTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAAtctc           >  2:382338/1‑139 (MQ=255)                                                                                             gTACGCGCTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAAtctc           >  2:265537/1‑139 (MQ=255)                                                                                                    cTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGcgacg                                                  <  2:460108/93‑1 (MQ=255)                                                                                                    cTCATCATGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGcgacg                                                  >  1:460108/1‑93 (MQ=255)                                                                                                       atcatGCTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAATCTCTTCTGGttt  >  2:523593/1‑138 (MQ=255)                                                                                                            |                                                                                                                                     AGAGATGATGCGGAACAGACCAATATCACCAGTGCGGCTGGCGTGAGTACCGCCACACAACTCGGTAGAGAAATCGCCCATGCTCAGCACGCGTACGCGCTCATCATACTTCTCGCCGAACAGCGCCATCGCACCTTTCGCTTTCGCCGCTTCGAGATCCATGATGTTGGTTTCGATCGGCAAATTGCGACGAATCTGTGTGTTCACCAGGTCTTCGACCGCACGAATCTCTTCTGGTTT  >  NZ_CP009273/2813319‑2813558

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑