Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,419,159	G→A	*163* (TAG→TAA)  S51S (AGC→AGT)	sieB → ydaF ←	phage superinfection exclusion protein, Rac prophage uncharacterized protein, Rac prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,419,159	0	G	A	100.0%	194.2 / NA	60	*163* (TAG→TAA)  S51S (AGC→AGT)	sieB ydaF	phage superinfection exclusion protein, Rac prophage uncharacterized protein, Rac prophage
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (31/29);  total (31/29)

TAGAACGGAAGGGCATCATTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAGCTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTC  >  NC_000913/1419032‑1419284                                                                                                                                |                                                                                                                              tAGAACGGAAGGGCATCATTC‑ACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGc                                                                                                                   <  2:453983/139‑1 (MQ=255)              catcatTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACt                                                                                                                         <  2:1262846/121‑1 (MQ=255)              catcatTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACt                                                                                                                         >  1:1262846/1‑121 (MQ=255)               atcatTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATc                                                                                                      >  1:1042833/1‑139 (MQ=255)                tcatTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCtt                                                                                                                 >  1:1627244/1‑127 (MQ=255)                tcatTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCtt                                                                                                                 <  2:1627244/127‑1 (MQ=255)                              agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    >  2:1556191/1‑110 (MQ=255)                              agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    <  1:1556191/110‑1 (MQ=255)                              agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGgcgcg                                                                                                <  2:169504/130‑1 (MQ=255)                              agTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGgcgcg                                                                                                >  1:169504/1‑130 (MQ=255)                                  aTAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGt                                                                                   >  2:228369/1‑139 (MQ=255)                                      cgcAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTa                                                                               >  1:1234355/1‑139 (MQ=255)                                               ttCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    >  1:1617046/1‑93 (MQ=255)                                               ttCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    <  2:1617046/93‑1 (MQ=255)                                               ttCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCtt                                                                                                                 >  1:69888/1‑96 (MQ=255)                                               ttCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCtt                                                                                                                 <  2:69888/96‑1 (MQ=255)                                                   tattatCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  <  1:473990/139‑1 (MQ=255)                                                   tattatCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  <  1:228369/139‑1 (MQ=255)                                                       atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    <  2:331542/85‑1 (MQ=255)                                                       atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    >  1:331542/1‑85 (MQ=255)                                                       atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtg                                                                                                                      >  1:681312/1‑83 (MQ=255)                                                       atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtg                                                                                                                      <  2:681312/83‑1 (MQ=255)                                                       atCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGt                                                              >  2:893843/1‑139 (MQ=255)                                                        tctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGta                                                             <  2:1234355/139‑1 (MQ=255)                                                         ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    <  1:719955/83‑1 (MQ=255)                                                         ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    >  2:719955/1‑83 (MQ=255)                                                         ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGtttt                                                                                <  1:18737/119‑1 (MQ=255)                                                         ctcGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGtttt                                                                                >  2:18737/1‑119 (MQ=255)                                                           cGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTTTcc                                                                                                             <  1:1077490/88‑1 (MQ=255)                                                           cGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTcc                                                                                                             >  2:1077490/1‑88 (MQ=255)                                                           cGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATAc                                                          >  1:1206258/1‑139 (MQ=255)                                                            gTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTc                                                                                      >  1:633525/1‑110 (MQ=255)                                                            gTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTc                                                                                      <  2:633525/110‑1 (MQ=255)                                                             tCACCGAAAAATACTCCCATTTTATGAACTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAAATTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTCTACGt                                                        >  2:1037205/1‑139 (MQ=255)                                                                           tCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCAt                                                                                                       >  2:1035569/1‑78 (MQ=255)                                                                           tCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCAt                                                                                                       <  1:1035569/78‑1 (MQ=255)                                                                             ccATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGtt                                        >  1:896962/1‑139 (MQ=255)                                                                                 tttATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTaa                                                                              <  1:187643/97‑1 (MQ=255)                                                                                 tttATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTaa                                                                              >  2:187643/1‑97 (MQ=255)                                                                                 tttATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCAt                                    <  1:972081/139‑1 (MQ=255)                                                                                     tGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGtata                                                           <  2:962197/112‑1 (MQ=255)                                                                                     tGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGtata                                                           >  1:962197/1‑112 (MQ=255)                                                                                          ttATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  <  1:34912/100‑1 (MQ=255)                                                                                          ttATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  >  2:34912/1‑100 (MQ=255)                                                                                             ttCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    >  2:134706/1‑47 (MQ=255)                                                                                             ttCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACtgtgtg                                                                                                                    <  1:134706/47‑1 (MQ=255)                                                                                                tGGAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGAAaca                     <  2:896962/139‑1 (MQ=255)                                                                                                  gAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCa                                                                                              >  2:1133760/1‑64 (MQ=255)                                                                                                  gAACAGCAGGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCa                                                                                              <  1:1133760/64‑1 (MQ=255)                                                                                                       gcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  >  1:87641/1‑87 (MQ=255)                                                                                                       gcagGAGTAGACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  <  2:87641/87‑1 (MQ=255)                                                                                                                gACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCt                                                                    <  2:1401601/76‑1 (MQ=255)                                                                                                                gACGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCt                                                                    >  1:1401601/1‑76 (MQ=255)                                                                                                                  cGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  >  1:1524241/1‑76 (MQ=255)                                                                                                                  cGTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCttt                                                                  <  2:1524241/76‑1 (MQ=255)                                                                                                                   gTTTTAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTc  >  2:1384218/1‑139 (MQ=255)                                                                                                                     tttAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCtt                                                                   <  1:1271893/72‑1 (MQ=255)                                                                                                                     tttAATCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCtt                                                                   >  2:1271893/1‑72 (MQ=255)                                                                                                                        aaTCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAaca                     <  1:1509998/115‑1 (MQ=255)                                                                                                                        aaTCGTTAACTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAaca                     >  2:1509998/1‑115 (MQ=255)                                                                                                                                |                                                                                                                              TAGAACGGAAGGGCATCATTCAACATCAGAGTGATAGCGCAAACTGTTCTTATTATCTCGTCACCGAAAAATACTCCCATTTTATGAAGTTATTCTGGAACAGCAGGAGTAGACGTTTTAATCGTTAGCTTACTGTGTGCTTCTCCAACCATCGGCGCGCACCAGTTTCGGTTTTAAATGTTTTGCTTTTGGTATACGTCATGGCAGTGAACGTTCCATCCTGGTTGGGGAACACGCCGCACACCAGGGATTC  >  NC_000913/1419032‑1419284

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑