Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	4,272,855	A→G	L50P (CTC→CCC)	espX5 ←	T3SS effector pentapeptide repeat protein EspX5

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	4,272,855	0	A	G	100.0%	81.2 / NA	23	L50P (CTC→CCC)	espX5	T3SS effector pentapeptide repeat protein EspX5
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (8/15);  total (8/15)

TCCGTTTCTTTCGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGAGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACATATTATTTAAA  >  NZ_CP009273/4272750‑4272989                                                                                                          |                                                                                                                                       tCCGTTTCTTTCGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTatgat                                                                                                       >  2:134852/1‑139 (MQ=255) tCCGTTTCTTTCGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTatgat                                                                                                       <  1:445660/139‑1 (MQ=255)   cGTTTCTTTCGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGt                                                                                                     >  2:495428/1‑139 (MQ=255)           tcGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGt                                                                                              >  1:743274/1‑138 (MQ=255)                         gATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTg                                                                               >  1:320826/1‑139 (MQ=255)                                      cATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTAtg                                                                  >  2:286363/1‑139 (MQ=255)                                      cATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATG‑TGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTAtgt                                                                 >  1:179915/1‑139 (MQ=255)                                       aTAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTAtg                                                                  <  1:290932/138‑1 (MQ=255)                                          aaTTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGAt                                                              <  2:672042/139‑1 (MQ=255)                                          aaTTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGAt                                                              <  2:124074/139‑1 (MQ=255)                                          aaTTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATG‑TGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGAt                                                              <  2:179915/138‑1 (MQ=255)                                                 ttCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGAc                                                          <  1:286363/136‑1 (MQ=255)                                                     ttttCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGAc                                                   <  1:741434/139‑1 (MQ=255)                                                        tCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACag                                                 <  2:320826/138‑1 (MQ=255)                                                        tCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACag                                                 <  1:787176/138‑1 (MQ=255)                                                        tCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACag                                                 <  2:335561/138‑1 (MQ=255)                                                                       tCACTTTTTCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAAt                                 <  2:743274/139‑1 (MQ=255)                                                                              ttCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGa                                                    <  2:462441/113‑1 (MQ=255)                                                                              ttCATGATCATCCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGa                                                    >  1:462441/1‑113 (MQ=255)                                                                                        tcCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTAtgtg                                                                <  1:592283/91‑1 (MQ=255)                                                                                        tcCATTTTGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTAtgtg                                                                >  2:592283/1‑91 (MQ=255)                                                                                              ttGAAAAGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACata           <  1:553607/138‑1 (MQ=255)                                                                                                  aaaGAGAGGGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACATattatt      <  1:134852/139‑1 (MQ=255)                                                                                                    agagagggGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACATATTATTTa    <  1:759788/139‑1 (MQ=255)                                                                                                      agagggGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACATATTATTTaaa  <  1:371342/139‑1 (MQ=255)                                                                                                          |                                                                                                                                       TCCGTTTCTTTCGTGATTTTTCCTGATGGTAAACTATCATAAATTCTTTTCATTTTCTGAATCAAGCCTATCACTTTTTCATGATCATCCATTTTGAAAAGAGAGAGGGCTTTATTGTCAATTAACGTGTTTTTATGATGTTTGCTGTAATTATCTGATTTTGTTTTCTTTGTATGTGATGGACTTGTGACAGAGTGGTTATCGTTAATCAGGCAAAGAGGGAAAAACATATTATTTAAA  >  NZ_CP009273/4272750‑4272989

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑