Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,071,321	A→G	intergenic (+110/‑218)	yeeP → / → flu	pseudogene, CP4‑44 prophage; 50S ribosome‑binding GTPase family;Phage or Prophage Related; putative histone/CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,071,321	0	A	G	100.0%	230.5 / NA	64	intergenic (+110/‑218)	yeeP/flu	pseudogene, CP4‑44 prophage; 50S ribosome‑binding GTPase family;Phage or Prophage Related; putative histone/CP4‑44 prophage; antigen 43 (Ag43) phase‑variable biofilm formation autotransporter
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (27/37);  total (27/37)

GATGCCCTCCCTGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCAATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCAGGG  >  NC_000913/2071225‑2071414                                                                                                 |                                                                                              gATGCCCTCCCTGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGata                                                                                            >  2:1537119/1‑100 (MQ=255)   tGCCCTCCCTGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATc                                                                                          >  1:781874/1‑100 (MQ=255)     ccctccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTa                                                                                        >  1:1353438/1‑100 (MQ=255)     ccctccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCGCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTa                                                                                        >  2:1097165/1‑100 (MQ=255)       ctccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTAtt                                                                                      >  1:62871/1‑100 (MQ=255)        tccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTAttt                                                                                     <  1:727399/100‑1 (MQ=255)        tccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTAttt                                                                                     <  2:778301/100‑1 (MQ=255)         ccctGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTAtttt                                                                                    <  1:397054/100‑1 (MQ=255)            tGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTatc                                                                                 <  2:1201688/100‑1 (MQ=255)            tGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCGCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTatc                                                                                 <  2:1003825/100‑1 (MQ=255)                  tGAGTCTGCTCACAAAAGCACTTTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGt                                                                           <  2:482037/100‑1 (MQ=255)                       cTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGTTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTtata                                                                      >  2:1454521/1‑100 (MQ=255)                        tGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTatat                                                                     <  2:804924/100‑1 (MQ=255)                        tGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTatat                                                                     <  1:992302/100‑1 (MQ=255)                        tGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTatat                                                                     >  2:779017/1‑100 (MQ=255)                           tCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATATCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATatcga                                                                  <  1:1096704/100‑1 (MQ=255)                            cacaAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATatcgat                                                                 >  2:987793/1‑100 (MQ=255)                             acaAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATatcgatc                                                                <  2:118942/100‑1 (MQ=255)                             acaAAAGCACTGTTTTCGTTACTGTCTCTCGTGTCCGTGCAATAGCTCAATAATAGAATAAAACTATCGATATCTATTTTATCGATCGTTTATatcgatc                                                                <  2:320808/100‑1 (MQ=255)                              caAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATatcgatcg                                                               >  2:803795/1‑100 (MQ=255)                              caAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATatcgatcg                                                               <  1:879401/100‑1 (MQ=255)                               aaaaGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATAtcgatcga                                                              <  2:877648/100‑1 (MQ=255)                               aaaaGCACTGTTTTCGTTACTGTCGCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATAtcgatcga                                                              <  2:1394136/100‑1 (MQ=255)                                 aaGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATa                                                            <  2:589658/100‑1 (MQ=255)                                    cACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGc                                                         <  2:1099623/100‑1 (MQ=255)                                     aCTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCt                                                        <  2:1113938/100‑1 (MQ=255)                                        gTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCtaat                                                     >  1:241793/1‑100 (MQ=255)                                         ttttCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCtaata                                                    <  2:539765/100‑1 (MQ=255)                                          tttCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCtaataa                                                   <  1:18075/100‑1 (MQ=255)                                                  cTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCttt                                           >  2:1126210/1‑100 (MQ=255)                                                   tGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTg                                          >  2:624/1‑100 (MQ=255)                                                   tGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATAACGATCGATAAGCTAATAATAACCTTTg                                          >  2:33981/1‑100 (MQ=255)                                                     tctcttTTGTCCGTGCAATAGCTCAATATTAGAATAAAACGATCGATCTCTATTTTATCGTTCTTTTATATCTCTCGATAAGCTAATAATAACCTTTGTc                                        <  2:1282299/100‑1 (MQ=255)                                                     tctctcTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTc                                        <  2:418716/100‑1 (MQ=255)                                                     tctctcTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTc                                        <  2:62871/100‑1 (MQ=255)                                                       tctctTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAg                                      >  2:1149025/1‑100 (MQ=255)                                                        ctctTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGt                                     >  1:1150744/1‑100 (MQ=255)                                                           ttGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAAc                                  >  1:1319865/1‑100 (MQ=255)                                                               ccGTGCAATAGCTCAATAATAGAATAAAACGATCGATGTCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGc                              >  2:96957/1‑100 (MQ=255)                                                               ccGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGc                              >  2:157792/1‑100 (MQ=255)                                                               ccGTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGc                              >  2:724404/1‑100 (MQ=255)                                                                 gttcAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGcac                            <  2:310665/97‑1 (MQ=255)                                                                 gTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGcac                            <  1:987801/100‑1 (MQ=255)                                                                 gTGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGcac                            <  1:469546/100‑1 (MQ=255)                                                                  tGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGcaca                           <  1:1537129/100‑1 (MQ=255)                                                                  tGCAATAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGcaca                           <  1:50470/100‑1 (MQ=255)                                                                      aTAGCTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATa                       <  2:509708/100‑1 (MQ=255)                                                                         gCTCAATAATAGAATAAAGCGATCGATATTCATTTTATCGATCGTCTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGt                    <  2:1437259/100‑1 (MQ=255)                                                                          cTCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTa                   >  2:949304/1‑100 (MQ=255)                                                                           tCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTa                   >  2:1428624/1‑99 (MQ=255)                                                                           tCAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTAc                  <  1:1356547/100‑1 (MQ=255)                                                                            cAATAATAGAATAAAACGATCGATATCTATTTTATCTATCGTTTATAACGATCAATAAGCAAAAAATACACTTTGTAAGTAACATACACAAACACGAAc                  >  2:1386093/1‑99 (MQ=255)                                                                            cAATAATAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACa                 >  1:599702/1‑100 (MQ=255)                                                                             aataatAGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAg                <  2:1353429/100‑1 (MQ=255)                                                                               taataGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGaa              <  2:1500914/100‑1 (MQ=255)                                                                                aataGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGaaa             >  1:391893/1‑100 (MQ=255)                                                                                 ataGAATAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAg            <  2:752563/100‑1 (MQ=255)                                                                                     aaTAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACAt        <  1:225643/100‑1 (MQ=255)                                                                                       tAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTc      >  1:627029/1‑100 (MQ=255)                                                                                       tAAAACGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTc      <  1:1346226/100‑1 (MQ=255)                                                                                        aaaaCGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCa     <  2:1304524/100‑1 (MQ=255)                                                                                         aaaCGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCAg    >  2:923388/1‑100 (MQ=255)                                                                                           aCGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCAggg  >  1:728918/1‑100 (MQ=255)                                                                                           aCGATCGATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCAggg  <  2:404710/100‑1 (MQ=255)                                                                                                 |                                                                                              GATGCCCTCCCTGACTCTGAGTCTGCTCACAAAAGCACTGTTTTCGTTACTGTCTCTCTTGTCCGTGCAATAGCTCAATAATAGAATAAAACGATCAATATCTATTTTATCGATCGTTTATATCGATCGATAAGCTAATAATAACCTTTGTCAGTAACATGCACAGATACGTACAGAAAGACATTCAGGG  >  NC_000913/2071225‑2071414

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑