Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,457,094	A→G	I240V (ATC→GTC)	gspD →	general secretory pathway component, cryptic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,457,094	0	A	G	100.0%	160.2 / NA	42	I240V (ATC→GTC)	gspD	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (18/24);  total (18/24)

GGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAG  >  NC_000913/3456967‑3457226                                                                                                                                |                                                                                                                                     ggAATATGCGTCAGCGGAAGATCTCGCCGAGATTCCTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGa                                                                                                                           <  1:52381/139‑1 (MQ=255)           tCAGCGGAAGATCTCGCCGAGATTCTTAATGAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAg                                                                                                                 <  1:362254/139‑1 (MQ=255)            cAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGc                                                                                                                >  1:858723/1‑139 (MQ=255)                   aGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAg                                                                                                         <  2:23549/139‑1 (MQ=255)                     aTCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg                                                                                                       <  2:858723/139‑1 (MQ=255)                     aTCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg                                                                                                       >  2:246497/1‑139 (MQ=255)                      tctcGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcgc                                                                                                      <  2:439255/139‑1 (MQ=255)                             gagaTTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACtt                                                                                               <  2:1064987/139‑1 (MQ=255)                                       aTCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGaa                                                                                     <  1:246497/139‑1 (MQ=255)                                        tCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGaaa                                                                                    >  1:395533/1‑139 (MQ=255)                                           aTTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                                    >  2:504217/1‑120 (MQ=255)                                           aTTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                                    <  1:504217/120‑1 (MQ=255)                                             tAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCt                                                                               <  1:970939/139‑1 (MQ=255)                                                      aaaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                                  >  1:479531/1‑111 (MQ=255)                                                      aaaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                                  <  2:479531/111‑1 (MQ=255)                                                        aGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCAt                                                                                            >  1:580614/1‑115 (MQ=255)                                                        aGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCAt                                                                                            <  2:580614/115‑1 (MQ=255)                                                                 aaaaGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGagg                                                           <  2:586628/139‑1 (MQ=255)                                                                        aGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGaaa                                                    >  2:352869/1‑139 (MQ=255)                                                                        aGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGACGAAGAGAGCGAGGAAGGaaa                                                    <  2:325167/139‑1 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCg                                                              >  2:1044756/1‑127 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCg                                                              <  1:1044756/127‑1 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa                                                  >  1:1033989/1‑139 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAACGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa                                                  >  1:502217/1‑139 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGA‑AAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGagg                                                           <  2:576211/129‑1 (MQ=255)                                                                          aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGA‑AAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGagg                                                           >  1:576211/1‑129 (MQ=255)                                                                                      ctctCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTttatt                                      >  1:694712/1‑139 (MQ=255)                                                                                        ctcCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                      >  1:431035/1‑57 (MQ=255)                                                                                        ctcCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                      <  2:431035/57‑1 (MQ=255)                                                                                           cgcgAAGATTGTGGCGGATAAGCGAACCGACTCTCTTGTCATCAGTGGAACGGAAAAAGCAGGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCTAGGAAGGAAATACCCGGGTTTATTACCTg                                 >  2:714612/1‑139 (MQ=255)                                                                                           cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCAc                                                                                                 <  2:105763/75‑1 (MQ=255)                                                                                           cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCAc                                                                                                 >  1:105763/1‑75 (MQ=255)                                                                                             cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                                    <  1:884109/70‑1 (MQ=255)                                                                                             cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                                    >  2:884109/1‑70 (MQ=255)                                                                                             cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa                               <  2:395533/139‑1 (MQ=255)                                                                                              gAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaaa                              <  2:694712/139‑1 (MQ=255)                                                                                                     gtgGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                      >  1:76184/1‑44 (MQ=255)                                                                                                     gtgGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                      <  2:76184/44‑1 (MQ=255)                                                                                                       ggCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTaaa                     <  1:352869/139‑1 (MQ=255)                                                                                                           gATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCa                 <  2:1033989/139‑1 (MQ=255)                                                                                                                         ctctctTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGaa   <  2:353356/139‑1 (MQ=255)                                                                                                                          tctctTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAg  >  2:643892/1‑139 (MQ=255)                                                                                                                                |                                                                                                                                     GGAATATGCGTCAGCGGAAGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAG  >  NC_000913/3456967‑3457226

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑