Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,633,194	T→G	pseudogene (72/414 nt)	yhiL ←	pseudogene, DUF4049 family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,633,194	0	T	G	100.0%	116.8 / NA	34	pseudogene (72/414 nt)	yhiL	pseudogene, DUF4049 family protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base G (21/13);  total (21/13)

TGAAGATACGTTCACGTGCTGGTCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCTAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTCTGAGTCATAATTACAAACATCGAGCG  >  NC_000913/3633046‑3633341                                                                                                                                                     |                                                                                                                                                    tGAAGATACGTTCACGTGCTGGTCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGaa                                                                                                                                                   <  2:153312/151‑1 (MQ=255)                   cTGGTCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAg                                                                                                                                  <  1:50209/150‑1 (MQ=255)                       tCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGAttt                                                                                                                             <  1:81109/151‑1 (MQ=255)                       tCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGAttt                                                                                                                             >  1:57268/1‑151 (MQ=255)                            aaTCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCAt                                                                                                                        >  2:114513/1‑151 (MQ=255)                               cAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCAt                                                                                                                        >  1:274490/1‑148 (MQ=255)                                                     aGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCa                                                                                               >  2:220998/1‑151 (MQ=255)                                                     aGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCa                                                                                               >  2:259065/1‑151 (MQ=255)                                                     aGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCCGCAAAGCa                                                                                               >  1:237834/1‑151 (MQ=255)                                                      gCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCa                                                                                               >  2:85085/1‑150 (MQ=255)                                                      gCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCa                                                                                               >  1:223581/1‑150 (MQ=255)                                                      gCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCa                                                                                               >  1:213334/1‑150 (MQ=255)                                                       cATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCAc                                                                                              >  2:194150/1‑150 (MQ=255)                                                        atatACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCg                                                                                            >  2:184072/1‑151 (MQ=255)                                                          ataCAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCgag                                                                                          >  2:286567/1‑151 (MQ=255)                                                          ataCAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCgag                                                                                          >  2:266757/1‑151 (MQ=255)                                                                                    cTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCAtct                                                                  >  2:249272/1‑149 (MQ=255)                                                                                          aTTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCttatta                                                           <  2:153958/150‑1 (MQ=255)                                                                                            tAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTc                                                        <  1:236565/151‑1 (MQ=255)                                                                                            tAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTc                                                        <  1:196147/151‑1 (MQ=255)                                                                                            tAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTc                                                        <  1:193081/151‑1 (MQ=255)                                                                                             aGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTc                                                        >  1:260115/1‑150 (MQ=255)                                                                                               aTGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCg                                                      <  2:92140/150‑1 (MQ=255)                                                                                                  gAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGtga                                                   <  2:163733/150‑1 (MQ=255)                                                                                                  gAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGtga                                                   <  1:280452/150‑1 (MQ=255)                                                                                                    aTAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGtgatga                                                >  2:221174/1‑151 (MQ=255)                                                                                                     tAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGAc                                               <  2:28273/151‑1 (MQ=255)                                                                                                       gagGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGtgatga                                                >  1:307579/1‑148 (MQ=255)                                                                                                         ggATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGt                                           >  1:134741/1‑151 (MQ=255)                                                                                                          gATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGtt                                          >  1:68955/1‑151 (MQ=255)                                                                                                                 cATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACtt                                   >  2:52441/1‑151 (MQ=255)                                                                                                                                        taAAAATATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTCTGAGTCATAATTACaa            <  1:59977/151‑1 (MQ=255)                                                                                                                                          aaaaTATTGGCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTCTGAGTCATAATTACAAAc          <  2:33443/151‑1 (MQ=255)                                                                                                                                                  ggCGAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTCTGAGTCATAATTACAAACATCGAGCg  >  2:313320/1‑151 (MQ=255)                                                                                                                                                     |                                                                                                                                                    TGAAGATACGTTCACGTGCTGGTCTGAAATCAGTAGTGTTATCAAAATAATTAGCATATACAGGTGTGGGTTTCAAAGTATTGCTTCGGATTAGATGGAATAGAGGATCATCCATGTGTTCTTTATGTTTTTTATTAAAAATATTGGCTAATTCCTCAGGATCAGTAGGATTTTTCATCTGATTAAATGGAACCTGCAAAGCACCGAGACAATAACATTTTTTTCTTCATCTCTTATTATTCCGTGATGACTGGTTAAAACTTGCCTTTCTGAGTCATAATTACAAACATCGAGCG  >  NC_000913/3633046‑3633341

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑