Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,428,927	T→G	intergenic (‑165/‑309)	rrsD ← / → yrdA	16S ribosomal RNA/protein YrdA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,428,927	0	T	G	100.0%	113.4 / NA	38	intergenic (‑165/‑309)	rrsD/yrdA	16S ribosomal RNA/protein YrdA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (17/21);  total (17/21)

TGCCCACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGCGGCTTTCAGCTCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGGCGCATT  >  NC_000913/3428870‑3429058                                                          |                                                                                                                                    tGCCCACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCg                                                 >  2:1211422/1‑140 (MQ=255)  gCCCACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGa                                                <  2:540981/140‑1 (MQ=255)   cccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAGCCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGa                                                <  1:1023445/139‑1 (MQ=11)   cccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGa                                                >  2:1023445/1‑139 (MQ=255)   cccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAc                                               >  1:515312/1‑140 (MQ=255)    ccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAcc                                              <  2:816852/140‑1 (MQ=255)    ccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAcc                                              <  1:682888/140‑1 (MQ=255)    ccACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAcc                                              <  1:838312/140‑1 (MQ=255)        acaGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAcc                                              <  1:340507/136‑1 (MQ=255)        acaGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGAcc                                              >  2:340507/1‑136 (MQ=255)            aTTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCtgtg                                      >  1:304068/1‑140 (MQ=255)             ttGTCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGa                                     <  2:1105352/140‑1 (MQ=255)                tCTGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAgt                                  >  2:116058/1‑140 (MQ=255)                  tGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATc                                           >  2:621216/1‑129 (MQ=11)                  tGATAAATTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATc                                           <  1:621216/129‑1 (MQ=14)                      aaaTTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCa                            >  2:681501/1‑140 (MQ=17)                        aTTGTTAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACg                          <  2:515312/140‑1 (MQ=255)                            ttAAAGAGCAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTgt                      <  2:1058009/140‑1 (MQ=255)                              aaaGAGCAGTTGCGACGCGCCTT‑‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACg                          >  2:525455/1‑134 (MQ=17)                              aaaGAGCAGTTGCGACGCGCCTT‑‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACg                          <  1:525455/134‑1 (MQ=17)                                    cAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCaa              >  2:452302/1‑140 (MQ=18)                                    cAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCaa              >  2:649844/1‑140 (MQ=255)                                    cAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCaa              >  2:934381/1‑140 (MQ=18)                                    cAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCaa              >  1:387863/1‑140 (MQ=18)                                    cAGTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCaa              <  1:247830/140‑1 (MQ=255)                                      gTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGtt                        <  2:344227/128‑1 (MQ=17)                                      gTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGtt                        >  1:344227/1‑128 (MQ=17)                                      gTTGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACg            >  2:625213/1‑140 (MQ=18)                                       ttGCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACgg           <  1:116058/140‑1 (MQ=255)                                         gCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAg         <  2:173324/140‑1 (MQ=255)                                         gCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAg         <  2:387863/140‑1 (MQ=255)                                         gCGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAg         <  1:452302/140‑1 (MQ=255)                                          cGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAgg        <  1:625213/140‑1 (MQ=255)                                          cGACGC‑GCTTT‑AGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAgg        <  2:809434/140‑1 (MQ=255)                                                 cgctttaGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGGCGCAt   >  1:639246/7‑140 (MQ=255)                                                  gctttaGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGGCGCAtt  <  1:859603/135‑1 (MQ=255)                                                   ctttaGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGgcg      >  2:1162544/5‑135 (MQ=255)                                                   ctttaGCGCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGgcg      <  1:1162544/131‑1 (MQ=255)                                                          |                                                                                                                                    TGCCCACACAGATTGTCTGATAAATTGTTAAAGAGCAGTTGCGACGCGGCTTTCAGCTCACTGTCGCGAGGTGGCGTATATTACGCTTTCCTCTTTCAGAGTCAACCCTGAATTTCAGGATTTTTTTCTCTTCGTTGTTCCGACCATCCTGTGAAGTGTTTCACGTTGTCGTCTCAACGGAGGCGCATT  >  NC_000913/3428870‑3429058

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑