Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,611,779	G→A	S128S (TCG→TCA)	osmY →	periplasmic chaperone OsmY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,611,779	0	G	A	100.0%	191.2 / NA	55	S128S (TCG→TCA)	osmY	periplasmic chaperone OsmY
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (32/23);  total (32/23)

GATCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCGGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTACCGTCGATT  >  NC_000913/4611642‑4611915                                                                                                                                          |                                                                                                                                         gATCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGt                                                                                                                                        >  2:670515/1‑140 (MQ=255) gATCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGt                                                                                                                                        >  2:527987/1‑140 (MQ=255) gATCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGt                                                                                                                                        >  1:641336/1‑140 (MQ=255)  aTCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTg                                                                                                                                       >  2:711476/1‑140 (MQ=255)   tCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGa                                                                                                                                      >  2:141467/1‑140 (MQ=255)            cGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTAcg                                                                                                                             <  2:1151377/140‑1 (MQ=255)             gTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTAcgc                                                                                                                            >  1:274525/1‑140 (MQ=255)             gTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTAcgc                                                                                                                            <  1:670515/140‑1 (MQ=255)              tGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTAcgcg                                                                                                                           >  2:62282/1‑140 (MQ=255)               gACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCgg                                                                                                                          <  2:112131/140‑1 (MQ=255)                   cTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGa                                                                                                                      <  1:379832/140‑1 (MQ=255)                         ggTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGc                                                                                                                <  1:527987/140‑1 (MQ=255)                          gTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGcc                                                                                                               <  1:1103496/140‑1 (MQ=255)                           tttCGTTGAAAGTCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGcca                                                                                                              >  1:508218/1‑140 (MQ=255)                              cGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGccacca                                                                                                           <  2:274525/140‑1 (MQ=255)                                    aaGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTg                                                                                                     <  2:1094727/140‑1 (MQ=255)                                     aGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGa                                                                                                    >  1:466212/1‑140 (MQ=255)                                             ccaggccGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAg                                                                                            >  2:723410/1‑140 (MQ=255)                                                 gccGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCaa                                                                                        >  1:474427/1‑140 (MQ=255)                                                      agagGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAActgc                                                                                   >  2:389445/1‑140 (MQ=255)                                                            aGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCgg                                                                             >  1:13596/1‑140 (MQ=255)                                                             gTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGa                                                                            <  2:693275/140‑1 (MQ=255)                                                                  aGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGata                                                                       <  2:466212/140‑1 (MQ=255)                                                                    tGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGGGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATc                                                                     >  1:242578/1‑140 (MQ=255)                                                                     ggCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCg                                                                    <  2:1150106/140‑1 (MQ=255)                                                                     ggCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCg                                                                    >  1:1150106/1‑140 (MQ=255)                                                                      gCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGt                                                                   >  1:308437/1‑140 (MQ=255)                                                                       cGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTc                                                                  <  1:389445/140‑1 (MQ=255)                                                                        gAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAActgctg                                                                                 <  2:107113/124‑1 (MQ=255)                                                                        gAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAActgctg                                                                                 >  1:107113/1‑124 (MQ=255)                                                                                       ggTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGa                                                  <  2:308437/140‑1 (MQ=255)                                                                                        gTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTccc                                                                <  1:660673/125‑1 (MQ=255)                                                                                        gTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTccc                                                                >  2:660673/1‑125 (MQ=255)                                                                                        gTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGaa                                                 >  2:517143/1‑140 (MQ=255)                                                                                        gTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGaa                                                 >  1:1115435/1‑140 (MQ=255)                                                                                        gTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGaa                                                 >  1:23056/1‑140 (MQ=255)                                                                                          gACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAg                                               >  2:690843/1‑140 (MQ=255)                                                                                           aCCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGt                                              >  2:260131/1‑140 (MQ=255)                                                                                                tGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGATGATATCGTCCCTTCCCGTCATGTGAAAGTTGaaa                                         >  1:492856/1‑140 (MQ=255)                                                                                                  tCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAacc                                       >  2:1129272/1‑140 (MQ=255)                                                                                                       gACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGa                                  <  2:44831/140‑1 (MQ=255)                                                                                                          aaaCTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACgg                               >  2:219736/1‑140 (MQ=255)                                                                                                            aCTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCg                             <  2:13596/140‑1 (MQ=255)                                                                                                            aCTGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCg                             <  1:690843/140‑1 (MQ=255)                                                                                                              tGCACGTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTg                           >  1:212967/1‑140 (MQ=255)                                                                                                                   gTTCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCA‑CAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAg                     <  2:1131511/140‑1 (MQ=255)                                                                                                                    ttCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAg                     <  2:23056/140‑1 (MQ=255)                                                                                                                    ttCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAg                     <  2:1115435/140‑1 (MQ=255)                                                                                                                    ttCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAg                     <  1:1129272/140‑1 (MQ=255)                                                                                                                    ttCGCGACGCTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAg                     <  1:62282/140‑1 (MQ=255)                                                                                                                             cTAAAGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGt            >  1:790564/1‑140 (MQ=255)                                                                                                                               aaaGAAGGCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTAc          >  2:263562/1‑140 (MQ=255)                                                                                                                                     ggCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTACCGTCGa    >  1:942909/1‑140 (MQ=255)                                                                                                                                      gCTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTACCGTCGAt   >  1:98343/1‑140 (MQ=255)                                                                                                                                       cTCAGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTACCGTCGAtt  >  2:1098063/1‑140 (MQ=255)                                                                                                                                          |                                                                                                                                         GATCAAAAAGTCGTGACCCTGAGCGGTTTCGTTGAAAGCCAGGCCCAGGCCGAAGAGGCAGTGAAAGTGGCGAAAGGCGTTGAAGGGGTGACCTCTGTCAGCGACAAACTGCACGTTCGCGACGCTAAAGAAGGCTCGGTGAAGGGCTACGCGGGTGACACCGCCACCACCAGTGAAATCAAAGCCAAACTGCTGGCGGACGATATCGTCCCTTCCCGTCATGTGAAAGTTGAAACCACCGACGGCGTGGTTCAGCTCTCCGGTACCGTCGATT  >  NC_000913/4611642‑4611915

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑