Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,964,697	G→A	L118L (CTC→CTT)	flhA ←	putative flagellar export pore protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,964,697	0	G	A	100.0%	178.4 / NA	55	L118L (CTC→CTT)	flhA	putative flagellar export pore protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/24);  total (31/24)

ATACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACGAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAGAA  >  NC_000913/1964572‑1964821                                                                                                                               |                                                                                                                             aTACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAGAAATGAAAAACACCACGATACCGAAAGGGAAATTGCCACAAAAAAGGAAGTGACCg                                                                                                                  >  2:1419172/1‑139 (MQ=255)        cGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTc                                                                                                          >  2:1116552/1‑139 (MQ=255)            aaCAAAGCGCCCAACCACTTCTGCGATACCCCCGGCACCCTTGGTAAATACCCAAAAGGTGATGATCACGAGAAATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGac                                                                                                       <  1:1419172/139‑1 (MQ=255)                                  gCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGaa                                                                                                                <  1:1227661/107‑1 (MQ=255)                                  gCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGaa                                                                                                                >  2:1227661/1‑107 (MQ=255)                                  gCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgc                                                                                >  2:265104/1‑139 (MQ=255)                                  gCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcgc                                                                                <  1:1562309/139‑1 (MQ=255)                                        cGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTAt                                                                          >  2:125548/1‑139 (MQ=255)                                        cGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACAACCTTCCCTGCCGCCGCCGCGCCGGTAt                                                                          >  2:77293/1‑139 (MQ=255)                                          cccGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGc                                                                        >  1:183459/1‑139 (MQ=255)                                             ggCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCt                                                                     <  1:1116552/139‑1 (MQ=255)                                                         aaTGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCt                                                                     <  2:854521/127‑1 (MQ=255)                                                         aaTGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCt                                                                     >  1:854521/1‑127 (MQ=255)                                                         aaTGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATg                                                         >  1:403975/1‑139 (MQ=255)                                                            gACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcg                                                                                 <  2:1290517/112‑1 (MQ=255)                                                            gACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCcgccgcg                                                                                 >  1:1290517/1‑112 (MQ=255)                                                            gACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATa                                                      <  2:870418/139‑1 (MQ=255)                                                             aCCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATAc                                                     >  1:21350/1‑139 (MQ=255)                                                                     gTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGaa                                             <  1:265104/139‑1 (MQ=255)                                                                         atgatCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCa                                         >  1:576746/1‑139 (MQ=255)                                                                         atgatCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCa                                         >  1:842112/1‑139 (MQ=255)                                                                         atgatCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCa                                         <  2:183459/139‑1 (MQ=255)                                                                         atgatCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCa                                         >  2:144858/1‑139 (MQ=255)                                                                            atCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACg                                                                                                              >  1:447888/1‑67 (MQ=255)                                                                            atCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACg                                                                                                              <  2:447888/67‑1 (MQ=255)                                                                             tCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGtt                                     >  2:565147/1‑139 (MQ=255)                                                                                cGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGa                                                                                                                          >  2:315819/1‑51 (MQ=255)                                                                                cGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGa                                                                                                                          <  1:315819/51‑1 (MQ=255)                                                                                cGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTc                                                                   <  2:353452/106‑1 (MQ=255)                                                                                cGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTc                                                                   >  1:353452/1‑106 (MQ=255)                                                                                  ag‑aATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTg                                <  1:125548/139‑1 (MQ=255)                                                                                       tGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCAt                                                                >  1:460412/1‑103 (MQ=255)                                                                                       tGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCAt                                                                <  2:460412/103‑1 (MQ=255)                                                                                       tGACAAACACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAg                            >  2:1424800/1‑139 (MQ=255)                                                                                            aaCACCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCa                       >  1:1112833/1‑139 (MQ=255)                                                                                             acacCACGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCaa                      <  2:1112833/139‑1 (MQ=255)                                                                                               accacGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACa                    >  1:813610/1‑139 (MQ=255)                                                                                                ccacGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAg                   >  2:866766/1‑139 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATa                                                      <  1:486442/102‑1 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATa                                                      >  2:486442/1‑102 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTg                                               >  1:658931/1‑109 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTg                                               <  2:658931/109‑1 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCg                 <  1:144858/139‑1 (MQ=255)                                                                                                  acGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCg                 <  2:576746/139‑1 (MQ=255)                                                                                                   cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTgccgccgc                                                                                     <  2:388792/70‑1 (MQ=255)                                                                                                   cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTgccgccgc                                                                                     >  1:388792/1‑70 (MQ=255)                                                                                                   cGATACCGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGt                >  1:252020/1‑139 (MQ=255)                                                                                                         cGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTaaa          >  2:1496919/1‑139 (MQ=255)                                                                                                         cGATAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAACGTGGTaaa          <  2:691214/139‑1 (MQ=255)                                                                                                           aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCa                                                                 <  1:1120178/82‑1 (MQ=255)                                                                                                           aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCa                                                                 >  2:1120178/1‑82 (MQ=255)                                                                                                           aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAaaca        >  2:1356767/1‑139 (MQ=255)                                                                                                           aTAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAaaca        >  1:257084/1‑139 (MQ=255)                                                                                                            tAGCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAaacaa       <  2:842112/139‑1 (MQ=255)                                                                                                              gCGAAATTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAacaaca     >  1:894931/1‑139 (MQ=255)                                                                                                                 aaaTTGCCACCAACAAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTTAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAGaa  <  2:21350/139‑1 (MQ=255)                                                                                                                               |                                                                                                                             ATACCATCGAGAACAAAGCGCGCACCCACTTCTGCGATACGCCCGGCACCTTTGGTAATGACCATAAAGTTGATGATCACGAG‑AATGACAAACACCACGATACCGATAGCGAAATTGCCACCAACGAGGAAGTGACCGAACGCTTCGACCACCTTCCCTGCCGCCGCCGCGCCGGTATGCCCTTCCATTAAAATGATACGGGTTGAAGCCACGTTAAGTGCCAGACGCAACAGCGTGGTAAACAACAGAA  >  NC_000913/1964572‑1964821

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑