Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,807,528	G→A	A133T (GCA→ACA)	proX →	glycine betaine ABC transporter periplasmic binding protein ProX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,807,528	0	G	A	100.0%	208.0 / NA	59	A133T (GCA→ACA)	proX	glycine betaine ABC transporter periplasmic binding protein ProX
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/30);  total (29/30)

CATGTACGAAGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCGCACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACTGAC  >  NC_000913/2807407‑2807661                                                                                                                          |                                                                                                                                      caTGTACGAAGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGa                                                                                                                     >  2:89526/1‑140 (MQ=255)  aTGTACGAAGCTGCCGGTGGCGATAAGGAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGaa                                                                                                                    <  1:912194/140‑1 (MQ=255)  aTGTACGAAGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGaa                                                                                                                    <  1:352157/140‑1 (MQ=255)   tGTACGAAGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAg                                                                                                                   >  2:68468/1‑140 (MQ=255)          aGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCa                                                                                                            <  1:1056547/140‑1 (MQ=255)            cTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCaaa                                                                                                          >  1:1122311/1‑140 (MQ=255)            cTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCaaa                                                                                                          <  1:1002186/140‑1 (MQ=255)            cTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCa                                                                                                            >  1:1102827/1‑138 (MQ=255)            cTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCa                                                                                                            <  2:1102827/138‑1 (MQ=255)               ccGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTg                                                                                                       >  2:199628/1‑140 (MQ=255)                           aGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAAc                                                                                           <  1:68468/140‑1 (MQ=255)                                                  tttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAc                                                                    <  1:235734/140‑1 (MQ=255)                                                  tttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAc                                                                    <  2:273483/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGGCGGAAAAGCGGATTTAAcc                                                                   <  1:1013361/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAcc                                                                   <  1:841454/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAcc                                                                   <  1:841511/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAcc                                                                   <  1:46169/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAAcc                                                                   <  1:199628/140‑1 (MQ=255)                                                   ttGTTAACGGCGCGGCACAGGGTTACCGGAGCGATAAGAAAACCGCCGACCAGTTCAAAATCACCAACATCACACAACTGAAGGATCCGAAGATCGCCAAACTGTTCGATGCGAACGGCGCCGGAAATGCGGATGTAGcc                                                                   <  2:311817/140‑1 (MQ=255)                                                       tAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGtt                                                               >  2:621659/1‑140 (MQ=255)                                                       tAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGtt                                                               >  2:879091/1‑140 (MQ=255)                                                        aaCGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTg                                                              >  2:540715/1‑140 (MQ=255)                                                          cGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACTGGTTGTa                                                            >  2:441132/1‑140 (MQ=255)                                                          cGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTa                                                            >  2:521594/1‑140 (MQ=255)                                                          cGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTa                                                            >  1:930991/1‑140 (MQ=255)                                                          cGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTa                                                            >  1:689143/1‑140 (MQ=255)                                                            gcgcGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAc                                                          >  2:1028225/1‑140 (MQ=255)                                                             cgcgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAcc                                                         >  1:102905/1‑140 (MQ=255)                                                             cgcgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAcc                                                         >  1:1120112/1‑140 (MQ=255)                                                             cgcgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAcc                                                         >  1:15179/1‑140 (MQ=255)                                                             cgcgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAcc                                                         <  1:1028225/140‑1 (MQ=255)                                                             cgcgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAAcc                                                         >  2:1041414/1‑140 (MQ=255)                                                               cgGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCct                                                       >  1:639642/1‑140 (MQ=255)                                                                  cacaGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCctggc                                                    <  2:235258/140‑1 (MQ=255)                                                                  cacaGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCctggc                                                    <  1:879091/140‑1 (MQ=255)                                                                          tACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTg                                            <  1:540715/140‑1 (MQ=255)                                                                            ccTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCg                                          <  2:102905/140‑1 (MQ=255)                                                                            ccTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCg                                          <  2:15179/140‑1 (MQ=255)                                                                            ccTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCg                                          >  2:193484/1‑140 (MQ=255)                                                                            ccTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCg                                          >  1:141633/1‑140 (MQ=255)                                                                                 tCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCctggctgg                                                 <  2:173480/128‑1 (MQ=255)                                                                                 tCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCctggctgg                                                 >  1:173480/1‑128 (MQ=255)                                                                                 tCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGt                                     >  1:886390/1‑140 (MQ=255)                                                                                 tCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGt                                     >  2:354374/1‑140 (MQ=255)                                                                                            aCCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAacca                          <  1:521594/140‑1 (MQ=255)                                                                                            aCCGCCGACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGAAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAacca                          >  1:68759/1‑140 (MQ=255)                                                                                              cgccgACCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAaccacc                        <  2:886390/140‑1 (MQ=255)                                                                                                   aCCAGTACAAAATCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCtt                   >  2:126311/1‑140 (MQ=255)                                                                                                             aaTCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGAAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATg         <  2:68759/140‑1 (MQ=255)                                                                                                               tCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACTGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGaa       <  1:441132/140‑1 (MQ=255)                                                                                                               tCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGaa       <  1:126311/140‑1 (MQ=255)                                                                                                               tCACCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGaa       <  2:689143/140‑1 (MQ=255)                                                                                                                 aCCAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACt     <  1:610782/140‑1 (MQ=255)                                                                                                                  ccAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGc                 >  1:29737/1‑127 (MQ=255)                                                                                                                  ccAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGc                 <  2:29737/127‑1 (MQ=255)                                                                                                                  ccAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACTg    >  2:30595/1‑140 (MQ=255)                                                                                                                  ccAACATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACTg    >  2:271100/1‑140 (MQ=255)                                                                                                                    aaCATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACTGAc  <  2:772/140‑1 (MQ=255)                                                                                                                      cATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGt            <  1:155106/128‑1 (MQ=255)                                                                                                                      cATCACACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGt            >  2:155106/1‑128 (MQ=255)                                                                                                                          |                                                                                                                                      CATGTACGAAGCTGCCGGTGGCGATAAGAAATTTTATCGTGAAGGGGTATTTGTTAACGGCGCGGCACAGGGTTACCTGATCGATAAGAAAACCGCCGACCAGTACAAAATCACCAACATCGCACAACTGAAAGATCCGAAGATCGCCAAACTGTTCGATACCAACGGCGACGGAAAAGCGGATTTAACCGGTTGTAACCCTGGCTGGGGCTGCGAAGGTGCGATCAACCACCAGCTTGCCGCGTATGAACTGAC  >  NC_000913/2807407‑2807661

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: ‑