Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,396,841	A→T	6.5%	I481F (ATT→TTT)	fmtC →	lysyl transferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,396,841	0	A	T	6.5%	196.4 / 3.8	61	I481F (ATT→TTT)	fmtC	lysyl transferase
Reads supporting (aligned to +/- strand):  ref base A (25/32);  new base T (2/2);  total (27/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01

TAGCTTTCCGTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGAAGATTG  >  CP000730/1396701‑1396977                                                                                                                                             |                                                                                                                                         tAGCTTTCCGTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGa                                                                                                                                          <  1:525675/141‑1 (MQ=255)      ttCCGTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGaa                                                                                                                                     >  1:667629/1‑141 (MQ=255)         cGTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATg                                                                                                                                  >  1:147348/1‑141 (MQ=255)          gTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGc                                                                                                                                 >  1:665146/1‑141 (MQ=255)          gTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGc                                                                                                                                 <  2:527319/141‑1 (MQ=255)          gTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGc                                                                                                                                 >  1:424472/1‑141 (MQ=255)           tAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCa                                                                                                                                >  2:42248/1‑141 (MQ=255)                          gAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTgcg                                                                                                                 <  1:196678/141‑1 (MQ=255)                           aaaCGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTgcgc                                                                                                                <  1:43176/141‑1 (MQ=255)                            aaCGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCt                                                                                                               <  2:175043/141‑1 (MQ=255)                            aaCGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCt                                                                                                               >  1:404182/1‑141 (MQ=255)                              cGCTCAGTCAGGCTGCGAACTATTTTTGCGATGATTTTCTTCGGTTTATTTTTTTTATCTGTTAACCATATATTTATTGCAGGAACGTTATATGCATTCGATCTTTGTACGATTGACATGCATACATCTGTATTGCGCTAt                                                                                                             <  2:147348/141‑1 (MQ=255)                              cGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTAt                                                                                                             >  1:79862/1‑141 (MQ=255)                                 ccAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTAc                                                                                                          >  1:236343/1‑141 (MQ=255)                                     tAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCt                                                                                                      <  2:129358/141‑1 (MQ=255)                                       aGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTgg                                                                                                    <  2:380389/141‑1 (MQ=255)                                       aGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTgg                                                                                                    >  2:43955/1‑141 (MQ=255)                                             agaAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACg                                                                                              <  1:619107/141‑1 (MQ=255)                                               aaaTATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGAt                                                                                            <  2:640117/141‑1 (MQ=255)                                                aaTATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGAtt                                                                                           <  1:476557/141‑1 (MQ=255)                                                aaTATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGAtt                                                                                           <  1:200400/141‑1 (MQ=255)                                                  tataGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGAtttt                                                                                         >  2:553695/1‑141 (MQ=255)                                                       tagCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAatca                                                                                    <  2:342213/139‑1 (MQ=255)                                                        tGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAatcat                                                                                   >  2:267224/1‑141 (MQ=255)                                                         gCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAatcatc                                                                                  >  1:323730/1‑141 (MQ=255)                                                         gCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAatcatc                                                                                  >  1:665116/1‑141 (MQ=255)                                                         gCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAatcatc                                                                                  >  1:665277/1‑141 (MQ=255)                                                          cAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCg                                                                                 <  1:505816/141‑1 (MQ=255)                                                          cAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCg                                                                                 <  1:94617/141‑1 (MQ=255)                                                            aTGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCt                                                                               >  1:298/1‑141 (MQ=255)                                                            aTGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCt                                                                               <  2:582198/141‑1 (MQ=255)                                                                  ttATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGTTTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTatcatc                                                                         >  2:519496/1‑141 (MQ=255)                                                                  ttATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGTTTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTatcatc                                                                         >  2:519579/1‑141 (MQ=255)                                                                         gTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTa                                                                  <  2:299064/141‑1 (MQ=255)                                                                               ttattttatATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTg                                                            <  2:371103/141‑1 (MQ=255)                                                                                 attttatATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCa                                                          >  2:525259/1‑141 (MQ=255)                                                                                      atatGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATAATCATAGGTATGATTGAATGgtt                                                     >  1:571645/1‑141 (MQ=255)                                                                                      atatGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTCAATCATCGCTATCATCATAGGTATGATTGCATGgtt                                                     >  1:447797/1‑141 (MQ=255)                                                                                         tGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGgttgtt                                                  >  1:495965/1‑141 (MQ=255)                                                                                          gTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGttt                                                 <  2:710328/141‑1 (MQ=255)                                                                                          gTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGttt                                                 <  1:27051/141‑1 (MQ=255)                                                                                           ttAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTg                                                >  1:628534/1‑141 (MQ=255)                                                                                             aaCCATATATTTTTTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTCGTTTGAt                                              <  1:549473/141‑1 (MQ=255)                                                                                             aaCCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGAt                                              <  2:358495/141‑1 (MQ=255)                                                                                             aaCCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGAt                                              <  1:580764/141‑1 (MQ=255)                                                                                              aCCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGAtt                                             <  2:337831/141‑1 (MQ=255)                                                                                               ccATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAACTGCATAAAGTTGAATTGCGCTATTACTTCTGGCTTACGATTTTAAGCATCGCTATCATCCTCGGTATGATTGCATTGTTGTTTGAttt                                            >  2:237644/1‑140 (MQ=255)                                                                                                  tatatTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCa                                         >  1:366530/1‑141 (MQ=255)                                                                                                             cTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAAGCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAg                              <  2:695520/141‑1 (MQ=255)                                                                                                              tGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGt                             <  1:265039/141‑1 (MQ=255)                                                                                                                gAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTAc                           <  1:500053/141‑1 (MQ=255)                                                                                                                 aaCGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACg                          <  1:632955/141‑1 (MQ=255)                                                                                                                 aaCGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACg                          <  1:633019/141‑1 (MQ=255)                                                                                                                         atGCATTAGATATTTATACGTTTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATttctt                  <  1:519579/141‑1 (MQ=255)                                                                                                                         atGCATTAGATATTTATACGTTTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGCTTGATTATCAATTTAGCAAAGTACGTATttctt                  <  1:519496/141‑1 (MQ=255)                                                                                                                          tGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATttcttc                 <  1:553695/141‑1 (MQ=255)                                                                                                                             aTTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTaa              >  1:675314/1‑141 (MQ=255)                                                                                                                             aTTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTaa              >  1:675362/1‑141 (MQ=255)                                                                                                                                    atTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGaa       <  1:583089/141‑1 (MQ=255)                                                                                                                                      ttATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGAAGa     >  1:222472/1‑141 (MQ=255)                                                                                                                                      ttATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGAAGa     <  1:42248/141‑1 (MQ=255)                                                                                                                                         taCGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGAAGATTg  <  1:440482/141‑1 (MQ=255)                                                                                                                                             |                                                                                                                                         TAGCTTTCCGTAGAGCACGTAGGTTGAAACGCCCAGTAAGAATGAGAAATATAGTTGCAATGCTTTTATTCAGTTTATTTATTTTATATGTTAACCATATATTTATTGCTGGAACGTTATATGCATTAGATATTTATACGATTGAAATGCATACATCTGTATTGCGCTATTACTTCTGGCTTACGATTTTAATCATCGCTATCATCATAGGTATGATTGCATGGTTGTTTGATTATCAATTTAGCAAAGTACGTATTTCTTCTAAAATTGAAGATTG  >  CP000730/1396701‑1396977

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑