Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	3,440,923	C→T	G36D (GGC→GAC)	rpoA ←	RNA polymerase, alpha subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	3,440,923	0	C	T	100.0%	100.3 / NA	32	G36D (GGC→GAC)	rpoA	RNA polymerase, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (16/16);  total (16/16)

TGAGCAGGATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAA  >  NC_000913_3_pae_tpiA/3440780‑3441068                                                                                                                                                |                                                                                                                                                  tGATCATGATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGACGAGAGCAGAATACGGCGCAGTCCGTTACCCAGAGTATGGTCAAAg                                                                                                                                              <  1:455752/149‑1 (MQ=255)      aGGATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTATGTCAACGAGCAACTCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCACAGTCTGGTCCAAGCCAct                                                                                                                                         >  2:272093/1‑148 (MQ=255)             ccAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTaaa                                                                                                                                  >  2:73997/1‑149 (MQ=255)             ccAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCGCGGTCACCGCGCAACCCGGCATCGATGAGAGCACAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTaaa                                                                                                                                  <  2:147423/149‑1 (MQ=255)              cAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGCGATTGGTCGAGGCCACGATCTAAAg                                                                                                                                 >  1:481421/1‑149 (MQ=255)               aaggtatCTTCCTGAACGCCTTCTGGGGTGCTGTACCCCTGTAGGAACCCAGCAATCTCAACCCCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAgg                                                                                                                                <  2:264688/145‑1 (MQ=255)               aGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAgg                                                                                                                                >  2:320008/1‑149 (MQ=255)                    atCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCaa                                                                                                                           >  1:164200/1‑149 (MQ=255)                     tCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAg                                                                                                                          >  2:441011/1‑149 (MQ=255)                      cTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAgg                                                                                                                         <  1:519336/149‑1 (MQ=255)                             aaCGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCt                                                                                                                  >  2:511171/1‑149 (MQ=255)                             aaCGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAATGCGTTACCCAAAGTATGGTCAAAGCCAAGCTCTAAAGGCTCAAAGGTCACCt                                                                                                                  >  1:107998/1‑149 (MQ=255)                               cGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACCGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTg                                                                                                                <  2:290358/149‑1 (MQ=255)                                           tGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGaa                                                                                                    <  1:511171/149‑1 (MQ=255)                                           tGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGaa                                                                                                    >  1:513967/1‑149 (MQ=255)                                                   tCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTg                                                                                            >  1:57812/1‑149 (MQ=255)                                                     aTGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCt                                                                                          >  1:62709/1‑149 (MQ=255)                                                      tGTAGTACACCATCACTCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTc                                                                                         <  1:514826/149‑1 (MQ=255)                                                        tagtaCACCATCAATCTCAACCTCGTTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCCAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGa                                                                                       <  1:518322/149‑1 (MQ=255)                                                                 atcaatcaCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGCGCTGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCGCTGAAGGCTCAAGGGTCACTTGGGCGTGCGTCGAATTGACTTGGTCGCTATCAAccg                                                                              >  2:315816/1‑148 (MQ=255)                                                                         cAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCCGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCCCCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGt                                                                      >  1:294071/1‑149 (MQ=255)                                                                               cGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGa                                                                >  2:326095/1‑149 (MQ=255)                                                                                                           gagCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTa                                                                  >  2:494656/1‑119 (MQ=255)                                                                                                           gagCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTa                                                                  <  1:494656/119‑1 (MQ=255)                                                                                                              cAGAATACGGCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCct                                 <  2:199267/149‑1 (MQ=255)                                                                                                                     cGGCGCCGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCCGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTg                          <  1:400304/149‑1 (MQ=255)                                                                                                                      ggCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTgg                         >  2:295432/1‑149 (MQ=255)                                                                                                                      ggCGCAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTgg                         <  2:164200/149‑1 (MQ=255)                                                                                                                        cgcAGTGCGTTACCCAGAGTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTa                       <  1:73997/149‑1 (MQ=255)                                                                                                                                        gagTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCTCGGTTTTAGAAACTCTGTCACAGAACCCGGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGa       <  2:294071/149‑1 (MQ=255)                                                                                                                                        gagTATGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGa       <  2:57812/149‑1 (MQ=255)                                                                                                                                             tGGTCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTaaa  <  1:326095/149‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                  TGAGCAGGATTTCCAGGATATCTTCCTGAACGCCTTCTTTGGTGCTGTACTCATGTAGTACACCATCAATCTCAACCTCGGTCACCGCGCAACCCGGCATCGATGAGAGCAGAATACGGCGCAGTGCGTTACCCAGAGTATGGCCAAAGCCACGCTCTAAAGGCTCAAGGGTCACCTTGGCGTGCGTCGAACTCACTTGCTCGATATCAACCAGGCGCGGTTTTAGAAACTCTGTCACAGAACCCTGCATTGTGTCCTCTCTTTGGTACTAAGCTTTACTTGGAGTAAA  >  NC_000913_3_pae_tpiA/3440780‑3441068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑