Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,947,801	A→G	intergenic (‑179/‑144)	yifB ← / → ilvL	putative 2‑component regulator/ilvGEDA operon leader peptide

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,947,801	0	A	G	100.0%	253.6 / NA	74	intergenic (‑179/‑144)	yifB/ilvL	putative 2‑component regulator/ilvGEDA operon leader peptide
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (28/46);  total (28/46)

GTGGAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATT  >  NC_000913/3947711‑3947885                                                                                           |                                                                                     gTGGAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTcactcgct                                                                                    <  1:2752363/93‑1 (MQ=255)  tGGAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCta                                                                                   <  1:3695699/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtat                                                                                  <  1:741731/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtat                                                                                  >  2:4004253/1‑93 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtat                                                                                  <  1:5441762/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtat                                                                                  >  2:4414758/1‑93 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtat                                                                                  <  2:2413051/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTAAATTTTTTTCTCTCGCtat                                                                                  <  1:6321899/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTAAATTTTTTTCACTCGCtat                                                                                  <  1:6313329/93‑1 (MQ=255)   ggAATGATGCTCGCAAAAATGCAGCGAACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCCCTCGCtat                                                                                  <  2:4080532/93‑1 (MQ=255)    gAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtatt                                                                                 <  2:317457/93‑1 (MQ=255)     aaTGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattt                                                                                >  2:5355623/1‑93 (MQ=255)      atgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtatttt                                                                               >  2:5634494/1‑93 (MQ=255)       tgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtatttta                                                                              <  1:2519047/93‑1 (MQ=255)       tgatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtatttta                                                                              >  2:3189810/1‑93 (MQ=255)       agatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtatttta                                                                              <  2:5288380/92‑1 (MQ=255)        gatgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttat                                                                             >  2:5881508/1‑93 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            <  2:1461630/93‑1 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            <  2:3854203/93‑1 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            <  2:427987/93‑1 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            <  1:3404817/93‑1 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            <  2:5931434/93‑1 (MQ=255)         atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttatt                                                                            >  2:594218/1‑93 (MQ=255)          tgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCtattttattt                                                                           <  2:6051188/93‑1 (MQ=255)           gCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTattttatttt                                                                          <  1:5295780/93‑1 (MQ=255)           gCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTattttatttt                                                                          <  2:5558371/93‑1 (MQ=255)            cTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTAttttt                                                                         <  1:4060361/93‑1 (MQ=255)             tCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTa                                                                        >  2:3400356/1‑93 (MQ=255)             tCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTa                                                                        <  2:4216624/93‑1 (MQ=255)             tCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTa                                                                        <  1:2372858/93‑1 (MQ=255)                 aaaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTaaaaa                                                                    >  1:1243658/1‑93 (MQ=255)                  aaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTaaaaaa                                                                   <  1:959735/93‑1 (MQ=255)                  aaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTaaaaaa                                                                   >  2:956070/1‑93 (MQ=255)                   aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaac                                                                  <  1:434222/93‑1 (MQ=255)                   aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaac                                                                  <  2:3730042/93‑1 (MQ=255)                   aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaac                                                                  >  2:6423048/1‑93 (MQ=255)                    aaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATTCTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaaca                                                                 <  2:4215428/93‑1 (MQ=255)                    aaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTTACTCGCTATTTTATTTTTTAAAaaca                                                                 >  1:5700187/1‑93 (MQ=255)                    aaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaaca                                                                 <  1:3604212/93‑1 (MQ=255)                     aTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAaacaa                                                                <  1:5777784/93‑1 (MQ=255)                       gCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAacaaca                                                              >  2:6117957/1‑93 (MQ=255)                        cAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAAcaacaa                                                             <  1:739101/93‑1 (MQ=255)                         aGCGGACAAAGGATGAACTACGAGGAAGTGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAAt                                                            <  1:519242/93‑1 (MQ=255)                         aGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAAt                                                            <  2:127747/93‑1 (MQ=255)                          gCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAAtt                                                           <  2:5579175/93‑1 (MQ=255)                          gCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAAtt                                                           >  2:1401513/1‑93 (MQ=255)                          gCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAAtt                                                           <  1:4173377/93‑1 (MQ=255)                             gACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTtat                                                        <  1:1753402/93‑1 (MQ=255)                              aCAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAATCAACAATTtata                                                       >  1:218726/1‑93 (MQ=255)                              aCAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTtata                                                       >  2:5255738/1‑93 (MQ=255)                               cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTatat                                                      <  1:1084/93‑1 (MQ=255)                                aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATAtt                                                     >  1:6355842/1‑93 (MQ=255)                                 aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTg                                                    <  1:4001914/93‑1 (MQ=255)                                 aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTg                                                    >  1:3767671/1‑93 (MQ=255)                                    gATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGaaa                                                 >  2:2598293/1‑93 (MQ=255)                                    gATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGaaa                                                 >  1:4778657/1‑93 (MQ=255)                                              gAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACg                                       >  2:2862654/1‑93 (MQ=255)                                                  aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatc                                   <  1:3206593/93‑1 (MQ=255)                                                  aaGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatc                                   <  1:722933/93‑1 (MQ=255)                                                    gggAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat                                 >  2:578200/1‑93 (MQ=255)                                                     ggAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATa                                <  2:4741420/93‑1 (MQ=255)                                                      gAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa                               >  2:6432160/1‑93 (MQ=255)                                                      gAACAACATTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaa                               <  2:109582/93‑1 (MQ=255)                                                        acaacaTTCATACTGAAATTGAATTTTTTTCACTCGCTCTTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaa                             >  2:6407817/1‑93 (MQ=255)                                                         caacaTTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaaa                            <  1:2833528/93‑1 (MQ=255)                                                          aacaTTCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAt                           >  2:5804200/1‑93 (MQ=255)                                                               tCATACTGAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGcc                      <  2:2343149/93‑1 (MQ=255)                                                                      gAAATTGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAat               >  1:3510421/1‑93 (MQ=255)                                                                          ttGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCt           <  1:3831113/93‑1 (MQ=255)                                                                           tGAATTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCtt          <  2:960165/93‑1 (MQ=255)                                                                             aaTTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt        <  1:3614501/93‑1 (MQ=255)                                                                             aaTTTTTTTCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGt        >  1:4685761/1‑93 (MQ=255)                                                                               tttttttCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTAc      <  2:3787471/93‑1 (MQ=255)                                                                                  ttttCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAt   >  2:4699907/1‑93 (MQ=255)                                                                                   tttCACTCGCTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTAtt  <  2:974326/93‑1 (MQ=255)                                                                                           |                                                                                     GTGGAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAATCGGCCAAAAAATATCTTGTACTATT  >  NC_000913/3947711‑3947885

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑