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%	96.1 / NA	26	I240V (ATC→GTC)	gspD	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (12/14);  total (12/14)

AGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGG  >  NC_000913/3456985‑3457220                                                                                                              |                                                                                                                               aGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAg                                                                                                   <  1:378431/139‑1 (MQ=255) aGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAg                                                                                                   <  2:678284/139‑1 (MQ=255)        gCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCa                                                                                            <  1:620618/139‑1 (MQ=255)                       cAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGaaaa                                                                             >  1:510026/1‑139 (MQ=255)                         aTTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGc                                                                           >  1:10817/1‑139 (MQ=255)                          ttAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGcc                                                                          >  2:239895/1‑139 (MQ=255)                           tAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCt                                                                         <  1:239895/139‑1 (MQ=255)                                  cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                >  1:297454/1‑93 (MQ=255)                                  cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGa                                                                                                                <  2:297454/93‑1 (MQ=255)                                  cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg                                                                       >  1:121708/1‑134 (MQ=255)                                  cGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTg                                                                       <  2:121708/134‑1 (MQ=255)                                    agaGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGa                                                                <  1:471299/137‑1 (MQ=255)                                                        aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa                                            >  2:549291/1‑139 (MQ=255)                                                        aTGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATa                                            >  1:71936/1‑139 (MQ=255)                                                                  tcctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTtta                                  <  2:10817/139‑1 (MQ=255)                                                                   cctcTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTttat                                 <  2:122115/139‑1 (MQ=255)                                                                         cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                              <  2:78680/72‑1 (MQ=255)                                                                         cgcgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCAt                                                                                              >  1:78680/1‑72 (MQ=255)                                                                           cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa                         >  2:487220/1‑139 (MQ=255)                                                                           cgAAGATTGTGGCGGATAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGaa                         <  2:71936/139‑1 (MQ=255)                                                                                          aTAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCAc          >  1:576703/1‑139 (MQ=255)                                                                                           tAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATAcc                                          >  2:439996/1‑106 (MQ=255)                                                                                           tAAGCGAACCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATAcc                                          <  1:439996/106‑1 (MQ=255)                                                                                                  aCCAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCtgg  <  1:549291/139‑1 (MQ=255)                                                                                                    cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg                                                                                                 <  2:81509/42‑1 (MQ=255)                                                                                                    cAACTCTCTTGTCATCAGTGGACCGGAAAAAGCACGCCAgcg                                                                                                 >  1:81509/1‑42 (MQ=255)                                                                                                              |                                                                                                                               AGATCTCGCCGAGATTCTTAATCAATTAATCAGCGAAAGCCACGGTAAAAGCCAGATGCCAGCCCTCCTCTCCGCGAAGATTGTGGCGGATAAGCGAACCAACTCTCTTATCATCAGTGGACCGGAAAAAGCACGCCAGCGCATCACTTCATTACTGAAAAGCCTTGATGTCGAAGAGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGG  >  NC_000913/3456985‑3457220

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑